crtc.cs.odu.edu - User contributions [en]

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-25T14:03:15Z

Chyde:

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',
**Join Zoom Meeting
***https://odu.zoom.us/j/96240856410?pwd=TFk2dVZJOTJLRjREKzFYOWNzSHJyZz09
***Meeting ID: 962 4085 6410
***Passcode: 798025

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''
**Join Zoom Meeting
***https://odu.zoom.us/j/91888533554?pwd=MnJ2Zjh5UUNsV3hhQ1NmcjVvYlFXQT09
***Meeting ID: 918 8853 3554
***Passcode: 631507

= Registration =
* Eventbrite link https://www.eventbrite.com/e/data-science-roadmap-to-compton-form-factors-of-quarks-and-gluons-tickets-122286003729
== Slides ==
* If presenting, upload your presentation to this [https://odu.app.box.com/f/00a8aedea6884fae8168c7ead25e4ee1 Box folder] or email your file to stsal001@odu.edu
** You can upload files to this [https://odu.app.box.com/f/00a8aedea6884fae8168c7ead25e4ee1 Box folder] with any email (non-odu).

= Schedule =

'''September 24:'''

* Session: 10:00 - 14:00 (EDT)
* Introduction (Chair : C. Hyde)
** [https://odu.box.com/s/34zwdyfg6m5j243bmb35qghydefxi28t Welcome and Logistics for the workshop] (C. Hyde): 10:00 - 10:10
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10 - 10:35
** [https://odu.box.com/s/ehmy0db4x5pi1gox5cc0td1e3bk0e7l4 Global Fitting] (Kresimir Kumericki, Zagreb U.): 10:35 - 11:00
** [https://odu.box.com/s/x3p6im1px1l4i5mo37a0d3mvso496sy6 Compton form factors as the interface between Data, Theory, Phenomenology] (C. Hyde): 11:00 - 11:25
* Break
* Enabling Technologies I (Chair: N. Chrisochoides)
** [https://odu.box.com/s/146h5dhugyqn87wa0x3umrn341i6dwl2 Efforts towards flexible, efficient look-up tables of CFF] (M. Kerver C. Hyde, S. Tsalikis, K. Garner, G. Gavalian, N. Chrisochoides, ODU): 11:40 - 12:05
** [https://odu.box.com/s/c1miwagcls6v7lym1nwx38lvd198ep4i Tessellation for Image Analysis of CNF Data] (C. Tsolakis, S. Tsalikis, N. Chrisochoides, ODU): 12:05 - 12:30
** [https://odu.box.com/s/o5kupnl51oeq16707qkxr0fsqqyldi15 End-user Productivity: Tessellation Utilities, HPC PARTONS & 4D data] (S. Tsalikis, M. Kerver, C. Tsolakis, W. Purwanto, C. Hyde, G. Gavalian, N. Chrisochoides, ODU): 12:30 - 13:00
** [https://odu.box.com/s/98c3lrlelonmafuwzhiltj8bzdnnhn59 Visualization], [https://odu.box.com/s/ez5z15d5ssiq2mlza5aokly12arr7w0z Video] (M. Dahshan, N.Polys, D.Heddle, VaTech): 13:00 - 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 - 14:00
** Moderators: C. Hyde, M. Burkardt
*** User-friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00 - 14:00 (EDT)
* Nuclear Physics Concepts and Challenges (Chair: C. Hyde)
** Forming pictures of nuclear dynamics (Matthias Burkardt, NMSU Las Cruces): 10:00 - 10:20
*** [https://odu.box.com/s/9wpvu6zqun3bnylw6he0269pdqenzssv Visualization] for Outreach. (Jason Bennett, UVA) 10:20 - 10:25
** [https://odu.box.com/s/3ln0gj2tdhww87shd7k5ux4oqtot3ka2 Walking back from the Q2->infinity approximation] (Simonetta Liuti): 10:25 - 10:55
** [https://odu.box.com/s/gkh6evstcr1rhm460ijrxd8tzv860wvi Setting the Resolution Scale: QCD Evolution tools] (Brandon Krieston, UVA): 10:55 - 11:20
** [https://odu.box.com/s/8f8txceqpia7z41c6psk3kgem88zdnpy Machine Learning for global fitting of CFF from sparse data] (Peter Alonzi, UVA): 11:20 - 11:45
* Break
* Enabling Technologies II (Chair: S. Liuti)
** PARTONS Generator (Herve Moutarde, CEA) 12:00 - 12:25
** MILOU Generator (Salvatore Fazio, BNL) 12:25-12:45
** [https://odu.box.com/s/fhde9b13trbd8ua2kp5asxpzm3rlopasGeneralized Parton Distribution Plotter] (Joshua Hoskins, UVA) 12:45-13:00
** [https://odu.box.com/s/wbj4ahl4m0dhuoni43qxlemhfk5hhwd3 SIDIS Monte Carlo] (G.Angelini, W.Briscoe, GWU) 13:00 - 13:20
** [https://odu.box.com/s/4au51gf13mae94iso433y7hucrnxli0m ML for Particle Tracking in Nuclear Physics] (P. Thomadakis, G. Gavalian, D. Nikolopoulos, N. Chrisochoides, ODU): 13:20 - 13:40
** Discussion on conclusions and future agenda: 13:40 - 14:00

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctoral positions at the California Institute of Technology and the Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of the American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
Professor Liuti´s research involves theoretical studies of the quark and gluon internal dynamics of the proton. The fundamental interactions of quarks and gluons are governed by the beautifully concise Lagrangian of quantum chromodynamics (QCD), however, to be able to understand the mechanisms generating the proton mass, spin, and mechanical properties in terms of quarks and gluons is one of the biggest challenges in physics today. Professor Liuti's work has been focused on understanding how the nucleon gets its spin from its fundamental degrees of freedom: is the orbital motion of quarks and gluons relevant and how do we describe it in QCD? The theoretical tools that allows us to obtain information on angular momentum and other mechanical properties including pressure and shear are the 3D parton distributions or the Wigner distributions at the femtoscale. A new generation of current and planned experiments at the future Electron-Ion Collider (EIC) could in principle allow us to incorporate all the information from data and phenomenology into a tomographic image connecting the deepest part of the quantum world with what we see as everyday matter around us. Accessing this new type of knowledge has far-reaching consequences as it could even impact our understanding of the interior of neutron stars.
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service-oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavor change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers a novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for an explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses, and is presently mentoring a PhD thesis. He teaches particle physics at the undergraduate and doctoral levels.
</li>

=== Nicholas Polys ===
<li style="display: inline-block;">
[[File:NPolys_VATech.jpg|thumb|left|250px| '''Nicholas Polys: Director of Visual Computing Virginia Tech Advanced Research Computing and Dept Computer Science''']]
Dr. Nicholas Polys heads the ARC Visualization Group. He has developed interactive 3D graphic content and systems for over 13 years. His research interests lie at the heart of Human-Computer Interaction: the intersection of visualization, virtual environments, and perception.
After his undergraduate research in Cognitive Science at Vassar College (1996), he jumped into the networked information space of the WWW developing audio, visual, and 3D assets and software. His doctoral work at Virginia Tech (2006) examined perceptual cues and layout behaviors for Information-Rich Virtual Environments for desktop to immersive platforms.
He is a member of ACM, IEEE Computer Society, and the Web3D Consortium. He is a co-author of the international standard (ISO) Extensible 3D (X3D), an elected Director of the Web3D Consortium, and Chair of the Web3D User Interface Working Group. Nicholas also holds a position as an Affiliate Professor in Virginia Tech's Computer Science Department.
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focusing on the topic of Compton Scattering from the proton. In this process, he uses one high energy photon to hit a proton, and with a second photon, we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation, and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For the past four years, Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
the detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in the development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-22T18:38:11Z

Chyde: /* Overview */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',
**Join Zoom Meeting
***https://odu.zoom.us/j/96240856410?pwd=TFk2dVZJOTJLRjREKzFYOWNzSHJyZz09
***Meeting ID: 962 4085 6410
***Passcode: 798025

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''
**Join Zoom Meeting
***https://odu.zoom.us/j/91888533554?pwd=MnJ2Zjh5UUNsV3hhQ1NmcjVvYlFXQT09
***Meeting ID: 918 8853 3554
***Passcode: 631507

= Schedule =

'''September 24:'''

* Session: 10:00 - 14:00 (EDT)
* Introduction (Chair : C. Hyde)
** Welcome and Logistics for the workshop (Charles Hyde): 10:00 - 10:10
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10 - 10:35
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:35 - 11:00
** Compton form factors as the interface between Data, Theory, Phenomenology (C.Hyde): 11:00 - 11:25
* Break
* Enabling Technologies I (Chair: N. Chrisochoides)
** Efforts towards flexible, efficient look-up tables of CFF (M.Kerver & S.Tsalikis, ODU): 11:40 - 12:05
** Tessellation for Image Analysis of CNF Data (C.Tsolakis/N.Chrisochoides): 12:05 - 12:30
** End-user Productivity: Tessellation Utilities, HPC PARTONS & 4D data (S. Tsalikis, M. Kerver, C. Tsolakis, W. Purwanto, C. Hyde, G. Gavalian, N. Chrisochoides): 12:30 - 13:00
** Visualization (M.Dahshan/N.Polys/D.Heddle VaTech): 13:00 - 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 - 14:00
** Moderators: C. Hyde, M. Burkardt
*** User-friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00 - 14:00 (EDT)
* Nuclear Physics Concepts and Challenges (Chair: C. Hyde)
** Forming pictures of nuclear dynamics (Matthias Burkardt, NMSU Las Cruces): 10:00 - 10:25
*** Visualization for Outreach
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 - 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 - 11:20
** Machine Learning for global fitting of CFF from sparse data (Peter Alonzi, UVA): 11:20 - 11:45
* Break
* Enabling Technologies II (Chair: S. Liuti)
** PARTONS Generator (Herve Moutarde, CEA) 12:00 - 12:25
** MILOU Generator (Salvatore Fazio, BNL) 12:25-12:45
** Generalized Parton Distribution Plotter (Joshua Hoskins, UVA) 12:45-13:00
** SIDIS Monte Carlo (G.Angelini/W.Briscoe, GWU) 13:00 - 13:20
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:20 - 13:40
** Discussion on conclusions and future agenda: 13:40 - 14:00

= Slides =
* If presenting, upload your presentation to this [https://odu.app.box.com/f/00a8aedea6884fae8168c7ead25e4ee1 Box folder] or email your file to stsal001@odu.edu
** You can upload files to this [https://odu.app.box.com/f/00a8aedea6884fae8168c7ead25e4ee1 Box folder] with any email (non-odu).

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
Professor Liuti´s research involves theoretical studies of the quark and gluon internal dynamics of the proton. The fundamental interactions of quarks and gluons are governed by the beautifully concise Lagrangian of quantum chromodynamics (QCD), however, to be able to understand the mechanisms generating the proton mass, spin and mechanical properties in terms of quarks and gluons is one of the biggest challenges in physics today. Professor Liuti's work has been focused on understanding how the nucleon gets its spin from its fundamental degrees of freedom: is the orbital motion of quarks and gluons relevant and how do we describe it in QCD? The theoretical tools that allows us to obtain information on angular momentum and other mechanical properties including pressure and shear are the 3D parton distributions, or the Wigner distributions at the femtoscale. A new generation of current and planned experiments at the future Electron Ion Collider (EIC) could in principle allow us to incorporate all the information from data and phenomenology into a tomographic image connecting the deepest part of the quantum world with what we see as everyday matter around us. Accessing this new type of knowledge has far reaching consequences as it could even impact our understanding of the interior of neutron stars.
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

=== Nicholas Polys ===
<li style="display: inline-block;">
[[File:NPolys_VATech.jpg|thumb|left|250px| '''Nicholas Polys: Director of Visual Computing Virginia Tech Advanced Research Computing and Dept Computer Science''']]
Dr. Nicholas Polys heads the ARC Visualization Group. He has developed interactive 3D graphic content and systems for over 13 years. His research interests lie at the heart of Human Computer Interaction: the intersection of visualization, virtual environments, and perception.
After his undergraduate research in Cognitive Science at Vassar College (1996), he jumped into the networked information space of the WWW developing audio, visual, and 3D assets and software. His doctoral work at Virginia Tech (2006) examined perceptual cues and layout behaviors for Information-Rich Virtual Environments for desktop to immersive platforms.
He is a member of ACM, IEEE Computer Society, and the Web3D Consortium. He is a co-author of the international standard (ISO) Extensible 3D (X3D), an elected Director of the Web3D Consortium, and Chair of the Web3D User Interface Working Group. Nicholas also holds a position as an Affiliate Professor in Virginia Tech's Computer Science Department.
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-22T17:50:29Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',
**Join Zoom Meeting
***https://odu.zoom.us/j/96240856410?pwd=TFk2dVZJOTJLRjREKzFYOWNzSHJyZz09
***Meeting ID: 962 4085 6410
***Passcode: 798025

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00 - 14:00 (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00 - 10:10
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10 - 10:35
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:35 - 11:00
** Compton form factors as the interface between Data, Theory, Phenomenology (C.Hyde): 11:00 - 11:25
* Break
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (M.Kerver & S.Tsalikis, ODU): 11:40 - 12:05
** Tessellation for Image Analysis of CNF Data (C.Tsolakis/N.Chrisochoides): 12:05 - 12:30
** End-user Productivity: Tessellation Utilities, HPC PARTONS & 4D data (S. Tsalikis, M. Kerver, C. Tsolakis, W. Purwanto, C. Hyde, G. Gavalian, N. Chrisochoides): 12:30 - 13:00
** Visualization (M.Dahshan/N.Polys/D.Heddle VaTech): 13:00 - 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 - 14:00
** Moderators: C. Hyde, M. Burkardt
*** User-friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00 - 14:00 (EDT)
* Nuclear Physics Concepts and Challenges
** Forming pictures of nuclear dynamics (Matthias Burkardt, NMSU Las Cruces): 10:00 - 10:25
*** Visualization for Outreach
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 - 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 - 11:20
** Machine Learning for global fitting of CFF from sparse data (Peter Alonzi, UVA): 11:20 - 11:45
* Break
** PARTONS Generator (Herve Moutarde, CEA) 12:00 - 12:25
** MILOU Generator (Salvatore Fazio, BNL) 12:25-12:45
** Generalized Parton Distribution Plotter (Joshua Hoskins, UVA) 12:45-13:00
** SIDIS Monte Carlo (G.Angelini/W.Briscoe, GWU) 13:00 - 13:20
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:20 - 13:40
** Discussion on conclusions and future agenda: 13:40 - 14:00

= Slides =
* If presenting, upload your presentation to this [https://odu.app.box.com/f/00a8aedea6884fae8168c7ead25e4ee1 Box folder] or email your file to stsal001@odu.edu
** You can upload files to this [https://odu.app.box.com/f/00a8aedea6884fae8168c7ead25e4ee1 Box folder] with any email (non-odu).

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
Professor Liuti´s research involves theoretical studies of the quark and gluon internal dynamics of the proton. The fundamental interactions of quarks and gluons are governed by the beautifully concise Lagrangian of quantum chromodynamics (QCD), however, to be able to understand the mechanisms generating the proton mass, spin and mechanical properties in terms of quarks and gluons is one of the biggest challenges in physics today. Professor Liuti's work has been focused on understanding how the nucleon gets its spin from its fundamental degrees of freedom: is the orbital motion of quarks and gluons relevant and how do we describe it in QCD? The theoretical tools that allows us to obtain information on angular momentum and other mechanical properties including pressure and shear are the 3D parton distributions, or the Wigner distributions at the femtoscale. A new generation of current and planned experiments at the future Electron Ion Collider (EIC) could in principle allow us to incorporate all the information from data and phenomenology into a tomographic image connecting the deepest part of the quantum world with what we see as everyday matter around us. Accessing this new type of knowledge has far reaching consequences as it could even impact our understanding of the interior of neutron stars.
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

=== Nicholas Polys ===
<li style="display: inline-block;">
[[File:NPolys_VATech.jpg|thumb|left|250px| '''Nicholas Polys: Director of Visual Computing Virginia Tech Advanced Research Computing and Dept Computer Science''']]
Dr. Nicholas Polys heads the ARC Visualization Group. He has developed interactive 3D graphic content and systems for over 13 years. His research interests lie at the heart of Human Computer Interaction: the intersection of visualization, virtual environments, and perception.
After his undergraduate research in Cognitive Science at Vassar College (1996), he jumped into the networked information space of the WWW developing audio, visual, and 3D assets and software. His doctoral work at Virginia Tech (2006) examined perceptual cues and layout behaviors for Information-Rich Virtual Environments for desktop to immersive platforms.
He is a member of ACM, IEEE Computer Society, and the Web3D Consortium. He is a co-author of the international standard (ISO) Extensible 3D (X3D), an elected Director of the Web3D Consortium, and Chair of the Web3D User Interface Working Group. Nicholas also holds a position as an Affiliate Professor in Virginia Tech's Computer Science Department.
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-22T17:49:25Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',
**Join Zoom Meeting
***https://odu.zoom.us/j/96240856410?pwd=TFk2dVZJOTJLRjREKzFYOWNzSHJyZz09
***Meeting ID: 962 4085 6410
***Passcode: 798025

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00 - 14:00 (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00 - 10:10
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10 - 10:35
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:35 - 11:00
** Compton form factors as the interface between Data, Theory, Phenomenology (C.Hyde): 11:00 - 11:25
* Break
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (M.Kerver & S.Tsalikis, ODU): 11:40 - 12:05
** Tessellation for Image Analysis of CNF Data (C.Tsolakis/N.Chrisochoides): 12:05 - 12:30
** End-user Productivity: Tessellation Utilities, HPC PARTONS & 4D data (S. Tsalikis, M. Kerver, C. Tsolakis, W. Purwanto, C. Hyde, G. Gavalian, N. Chrisochoides): 12:30 - 13:00
** Visualization (M.Dahshan/N.Polys/D.Heddle VaTech): 13:00 - 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 - 14:00
** Moderators: C. Hyde, M. Burkardt
*** User-friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00 - 14:00 (EDT)
* Nuclear Physics Concepts and Challenges
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00 - 10:25
*** Visualization for Outreach
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 - 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 - 11:20
** Machine Learning for global fitting of CFF from sparse data (Peter Alonzi, UVA): 11:20 - 11:45
* Break
** PARTONS Generator (Herve Moutarde, CEA) 12:00 - 12:25
** MILOU Generator (Salvatore Fazio, BNL) 12:25-12:45
** Generalized Parton Distribution Plotter (Joshua Hoskins, UVA) 12:45-13:00
** SIDIS Monte Carlo (G.Angelini/W.Briscoe, GWU) 13:00 - 13:20
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:20 - 13:40
** Discussion on conclusions and future agenda: 13:40 - 14:00

= Slides =
* If presenting, upload your presentation to this [https://odu.app.box.com/f/00a8aedea6884fae8168c7ead25e4ee1 Box folder] or email your file to stsal001@odu.edu
** You can upload files to this [https://odu.app.box.com/f/00a8aedea6884fae8168c7ead25e4ee1 Box folder] with any email (non-odu).

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
Professor Liuti´s research involves theoretical studies of the quark and gluon internal dynamics of the proton. The fundamental interactions of quarks and gluons are governed by the beautifully concise Lagrangian of quantum chromodynamics (QCD), however, to be able to understand the mechanisms generating the proton mass, spin and mechanical properties in terms of quarks and gluons is one of the biggest challenges in physics today. Professor Liuti's work has been focused on understanding how the nucleon gets its spin from its fundamental degrees of freedom: is the orbital motion of quarks and gluons relevant and how do we describe it in QCD? The theoretical tools that allows us to obtain information on angular momentum and other mechanical properties including pressure and shear are the 3D parton distributions, or the Wigner distributions at the femtoscale. A new generation of current and planned experiments at the future Electron Ion Collider (EIC) could in principle allow us to incorporate all the information from data and phenomenology into a tomographic image connecting the deepest part of the quantum world with what we see as everyday matter around us. Accessing this new type of knowledge has far reaching consequences as it could even impact our understanding of the interior of neutron stars.
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

=== Nicholas Polys ===
<li style="display: inline-block;">
[[File:NPolys_VATech.jpg|thumb|left|250px| '''Nicholas Polys: Director of Visual Computing Virginia Tech Advanced Research Computing and Dept Computer Science''']]
Dr. Nicholas Polys heads the ARC Visualization Group. He has developed interactive 3D graphic content and systems for over 13 years. His research interests lie at the heart of Human Computer Interaction: the intersection of visualization, virtual environments, and perception.
After his undergraduate research in Cognitive Science at Vassar College (1996), he jumped into the networked information space of the WWW developing audio, visual, and 3D assets and software. His doctoral work at Virginia Tech (2006) examined perceptual cues and layout behaviors for Information-Rich Virtual Environments for desktop to immersive platforms.
He is a member of ACM, IEEE Computer Society, and the Web3D Consortium. He is a co-author of the international standard (ISO) Extensible 3D (X3D), an elected Director of the Web3D Consortium, and Chair of the Web3D User Interface Working Group. Nicholas also holds a position as an Affiliate Professor in Virginia Tech's Computer Science Department.
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-22T16:03:13Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',
**Join Zoom Meeting
***https://odu.zoom.us/j/96240856410?pwd=TFk2dVZJOTJLRjREKzFYOWNzSHJyZz09
***Meeting ID: 962 4085 6410
***Passcode: 798025

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00 - 14:00 (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00 - 10:10
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10 - 10:35
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:35 - 11:00
** Compton form factors as the interface between Data, Theory, Phenomenology (C.Hyde): 11:00 - 11:25
* Break
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (M.Kerver & S.Tsalikis, ODU): 11:40 - 12:05
** Tessellation for Image Analysis of CNF Data (C.Tsolakis/N.Chrisochoides): 12:05 - 12:30
** End-user Productivity: Tessellation Utilities, HPC PARTONS & 4D data (S. Tsalikis, M. Kerver, C. Tsolakis, W. Purwanto, C. Hyde, G. Gavalian, N. Chrisochoides): 12:30 - 13:00
** Visualization (M.Dahshan/N.Polys/D.Heddle VaTech): 13:00 - 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 - 14:00
** Moderators: C. Hyde, M. Burkardt
*** User-friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00 - 14:00 (EDT)
* Nuclear Physics Concepts and Challenges
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00 - 10:25
*** Visualization for Outreach
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 - 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 - 11:20
** Machine Learning for global fitting of CFF from sparse data (Peter Alonzi, UVA): 11:20 - 11:45
* Break
** PARTONS Generator (Herve Moutarde, CEA) 12:00 - 12:25
** MILOU Generator (TBD) 12:25-12:45
** Generalized Parton Distribution Plotter (Joshua Hoskins, UVA) 12:45-13:00
** SIDIS Monte Carlo (G.Angelini/W.Briscoe, GWU) 13:00 - 13:20
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:20 - 13:40
** Discussion on conclusions and future agenda: 13:40 - 14:00

= Slides =
* If presenting, upload your presentation to this [https://odu.app.box.com/f/00a8aedea6884fae8168c7ead25e4ee1 Box folder] or email your file to stsal001@odu.edu
** You can upload files to this [https://odu.app.box.com/f/00a8aedea6884fae8168c7ead25e4ee1 Box folder] with any email (non-odu).

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
Professor Liuti´s research involves theoretical studies of the quark and gluon internal dynamics of the proton. The fundamental interactions of quarks and gluons are governed by the beautifully concise Lagrangian of quantum chromodynamics (QCD), however, to be able to understand the mechanisms generating the proton mass, spin and mechanical properties in terms of quarks and gluons is one of the biggest challenges in physics today. Professor Liuti's work has been focused on understanding how the nucleon gets its spin from its fundamental degrees of freedom: is the orbital motion of quarks and gluons relevant and how do we describe it in QCD? The theoretical tools that allows us to obtain information on angular momentum and other mechanical properties including pressure and shear are the 3D parton distributions, or the Wigner distributions at the femtoscale. A new generation of current and planned experiments at the future Electron Ion Collider (EIC) could in principle allow us to incorporate all the information from data and phenomenology into a tomographic image connecting the deepest part of the quantum world with what we see as everyday matter around us. Accessing this new type of knowledge has far reaching consequences as it could even impact our understanding of the interior of neutron stars.
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

=== Nicholas Polys ===
<li style="display: inline-block;">
[[File:NPolys_VATech.jpg|thumb|left|250px| '''Nicholas Polys: Director of Visual Computing Virginia Tech Advanced Research Computing and Dept Computer Science''']]
Dr. Nicholas Polys heads the ARC Visualization Group. He has developed interactive 3D graphic content and systems for over 13 years. His research interests lie at the heart of Human Computer Interaction: the intersection of visualization, virtual environments, and perception.
After his undergraduate research in Cognitive Science at Vassar College (1996), he jumped into the networked information space of the WWW developing audio, visual, and 3D assets and software. His doctoral work at Virginia Tech (2006) examined perceptual cues and layout behaviors for Information-Rich Virtual Environments for desktop to immersive platforms.
He is a member of ACM, IEEE Computer Society, and the Web3D Consortium. He is a co-author of the international standard (ISO) Extensible 3D (X3D), an elected Director of the Web3D Consortium, and Chair of the Web3D User Interface Working Group. Nicholas also holds a position as an Affiliate Professor in Virginia Tech's Computer Science Department.
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-21T15:27:38Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',
**Join Zoom Meeting
***https://odu.zoom.us/j/96240856410?pwd=TFk2dVZJOTJLRjREKzFYOWNzSHJyZz09
***Meeting ID: 962 4085 6410
***Passcode: 798025

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00 - 14:00 (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00 - 10:10
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10 - 10:35
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:35 - 11:00
** Compton form factors as the interface between Data, Theory, Phenomenology (C.Hyde): 11:00 - 11:25
* Break
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (M.Kerver & S.Tsalikis, ODU): 11:40 - 12:05
** Tessellation for Image Analysis of CNF Data (C.Tsolakis/N.Chrisochoides): 12:05 - 12:30
** End-user Productivity: Tessellation Utilities, HPC PARTONS & 4D data (S. Tsalikis, M. Kerver, C. Tsolakis, W. Purwanto, C. Hyde, G. Gavalian, N. Chrisochoides): 12:30 - 13:00
** Visualization (M.Dahshan/N.Polys/D.Heddle VaTech): 13:00 - 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 - 14:00
** Moderators: C. Hyde, M. Burkardt
*** User-friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00 - 14:00 (EDT)
* Nuclear Physics Concepts and Challenges
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00 - 10:25
*** Visualization for Outreach
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 - 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 - 11:20
** Machine Learning for global fitting of CFF from sparse data (Peter Alonzi, UVA): 11:20 - 11:45
* Break
** PARTONS Generator (TBD) 12:00 - 12:25
** Generalizd Parton Distribution Plotter (Joshua Hoskins, UVA) 12:25-12:35
** SIDIS Monte Carlo (G.Angelini/W.Briscoe, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda: 13:40 - 14:00

= Slides =
* If presenting, upload your presentation to this [https://odu.app.box.com/f/00a8aedea6884fae8168c7ead25e4ee1 Box folder] or email your file to stsal001@odu.edu
** You can upload files to this [https://odu.app.box.com/f/00a8aedea6884fae8168c7ead25e4ee1 Box folder] with any email (non-odu).

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

=== Nicholas Polys ===
<li style="display: inline-block;">
[[File:NPolys_VATech.jpg|thumb|left|250px| '''Nicholas Polys: Director of Visual Computing Virginia Tech Advanced Research Computing and Dept Computer Science''']]
Dr. Nicholas Polys heads the ARC Visualization Group. He has developed interactive 3D graphic content and systems for over 13 years. His research interests lie at the heart of Human Computer Interaction: the intersection of visualization, virtual environments, and perception.
After his undergraduate research in Cognitive Science at Vassar College (1996), he jumped into the networked information space of the WWW developing audio, visual, and 3D assets and software. His doctoral work at Virginia Tech (2006) examined perceptual cues and layout behaviors for Information-Rich Virtual Environments for desktop to immersive platforms.
He is a member of ACM, IEEE Computer Society, and the Web3D Consortium. He is a co-author of the international standard (ISO) Extensible 3D (X3D), an elected Director of the Web3D Consortium, and Chair of the Web3D User Interface Working Group. Nicholas also holds a position as an Affiliate Professor in Virginia Tech's Computer Science Department.
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-21T13:08:10Z

Chyde: /* Overview */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',
**Join Zoom Meeting
***https://odu.zoom.us/j/96240856410?pwd=TFk2dVZJOTJLRjREKzFYOWNzSHJyZz09
***Meeting ID: 962 4085 6410
***Passcode: 798025

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00 - 14:00 (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00 - 10:10
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10 - 10:35
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:35 - 11:00
** Compton form factors as the interface between Data, Theory, Phenomenology (C.Hyde): 11:00 - 11:25
* Break
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (M.Kerver & S.Tsalikis, ODU): 11:40 - 12:05
** Tessellation for Image Analysis of CNF Data (C.Tsolakis/N.Chrisochoides): 12:05 - 12:30
** End-user Productivity: Tessellation Utilities, HPC PARTONS & 4D data (S. Tsalikis, M. Kerver, C. Tsolakis, W. Purwanto, C. Hyde, G. Gavalian, N. Chrisochoides): 12:30 - 13:00
** Visualization (M.Dahshan/N.Polys/D.Heddle VaTech): 13:00 - 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 - 14:00
** Moderators: C. Hyde, M. Burkardt
*** User-friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00 - 14:00 (EDT)
* Nuclear Physics Concepts and Challenges
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00 - 10:25
*** Visualization for Outreach
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 - 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 - 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 - 11:45
* Break
** PARTONS Generator (TBD) 12:00 - 12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (G.Angelini/W.Briscoe, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda: 13:40 - 14:00

= Slides =
* If presenting, upload your presentation to this [https://odu.box.com/s/td9tbvylwqt42f018oz9w0phryez19ew Box folder] or email your file to stsal001@odu.edu
** You can upload files to this [https://odu.box.com/s/td9tbvylwqt42f018oz9w0phryez19ew Box folder] with any email (non-odu).

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

=== Nicholas Polys ===
<li style="display: inline-block;">
[[File:NPolys_VATech.jpg|thumb|left|250px| '''Nicholas Polys: Director of Visual Computing Virginia Tech Advanced Research Computing and Dept Computer Science''']]
Dr. Nicholas Polys heads the ARC Visualization Group. He has developed interactive 3D graphic content and systems for over 13 years. His research interests lie at the heart of Human Computer Interaction: the intersection of visualization, virtual environments, and perception.
After his undergraduate research in Cognitive Science at Vassar College (1996), he jumped into the networked information space of the WWW developing audio, visual, and 3D assets and software. His doctoral work at Virginia Tech (2006) examined perceptual cues and layout behaviors for Information-Rich Virtual Environments for desktop to immersive platforms.
He is a member of ACM, IEEE Computer Society, and the Web3D Consortium. He is a co-author of the international standard (ISO) Extensible 3D (X3D), an elected Director of the Web3D Consortium, and Chair of the Web3D User Interface Working Group. Nicholas also holds a position as an Affiliate Professor in Virginia Tech's Computer Science Department.
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-21T12:50:44Z

Chyde: /* External Visitors */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00 - 14:00 (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00 - 10:10
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10 - 10:35
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:35 - 11:00
** Compton form factors as the interface between Data, Theory, Phenomenology (C.Hyde): 11:00 - 11:25
* Break
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (M.Kerver & S.Tsalikis, ODU): 11:40 - 12:05
** Tessellation for Image Analysis of CNF Data (C.Tsolakis/N.Chrisochoides): 12:05 - 12:30
** End-user Productivity: Tessellation Utilities, HPC PARTONS & 4D data (S. Tsalikis, M. Kerver, C. Tsolakis, W. Purwanto, C. Hyde, G. Gavalian, N. Chrisochoides): 12:30 - 13:00
** Visualization (M.Dahshan/N.Polys/D.Heddle VaTech): 13:00 - 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 - 14:00
** Moderators: C. Hyde, M. Burkardt
*** User-friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00 - 14:00 (EDT)
* Nuclear Physics Concepts and Challenges
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00 - 10:25
*** Visualization for Outreach
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 - 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 - 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 - 11:45
* Break
** PARTONS Generator (TBD) 12:00 - 12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (G.Angelini/W.Briscoe, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda: 13:40 - 14:00

= Slides =
* If presenting, upload your presentation to this [https://odu.box.com/s/td9tbvylwqt42f018oz9w0phryez19ew Box folder] or email your file to stsal001@odu.edu
** You can upload files to this [https://odu.box.com/s/td9tbvylwqt42f018oz9w0phryez19ew Box folder] with any email (non-odu).

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

=== Nicholas Polys ===
<li style="display: inline-block;">
[[File:NPolys_VATech.jpg|thumb|left|250px| '''Nicholas Polys: Director of Visual Computing Virginia Tech Advanced Research Computing and Dept Computer Science''']]
Dr. Nicholas Polys heads the ARC Visualization Group. He has developed interactive 3D graphic content and systems for over 13 years. His research interests lie at the heart of Human Computer Interaction: the intersection of visualization, virtual environments, and perception.
After his undergraduate research in Cognitive Science at Vassar College (1996), he jumped into the networked information space of the WWW developing audio, visual, and 3D assets and software. His doctoral work at Virginia Tech (2006) examined perceptual cues and layout behaviors for Information-Rich Virtual Environments for desktop to immersive platforms.
He is a member of ACM, IEEE Computer Society, and the Web3D Consortium. He is a co-author of the international standard (ISO) Extensible 3D (X3D), an elected Director of the Web3D Consortium, and Chair of the Web3D User Interface Working Group. Nicholas also holds a position as an Affiliate Professor in Virginia Tech's Computer Science Department.
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-21T12:49:10Z

Chyde: /* Nicholas Polys */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00 - 14:00 (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00 - 10:10
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10 - 10:35
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:35 - 11:00
** Compton form factors as the interface between Data, Theory, Phenomenology (C.Hyde): 11:00 - 11:25
* Break
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (M.Kerver & S.Tsalikis, ODU): 11:40 - 12:05
** Tessellation for Image Analysis of CNF Data (C.Tsolakis/N.Chrisochoides): 12:05 - 12:30
** End-user Productivity: Tessellation Utilities, HPC PARTONS & 4D data (S. Tsalikis, M. Kerver, C. Tsolakis, W. Purwanto, C. Hyde, G. Gavalian, N. Chrisochoides): 12:30 - 13:00
** Visualization (M.Dahshan/N.Polys/D.Heddle VaTech): 13:00 - 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 - 14:00
** Moderators: C. Hyde, M. Burkardt
*** User-friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00 - 14:00 (EDT)
* Nuclear Physics Concepts and Challenges
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00 - 10:25
*** Visualization for Outreach
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 - 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 - 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 - 11:45
* Break
** PARTONS Generator (TBD) 12:00 - 12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (G.Angelini/W.Briscoe, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda: 13:40 - 14:00

= Slides =
* If presenting, upload your presentation to this [https://odu.box.com/s/td9tbvylwqt42f018oz9w0phryez19ew Box folder] or email your file to stsal001@odu.edu
** You can upload files to this [https://odu.box.com/s/td9tbvylwqt42f018oz9w0phryez19ew Box folder] with any email (non-odu).

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

=== Nicholas Polys ===
<li style="display: inline-block;">
[[File:NPolys_VATech.jpg|thumb|left|250px| '''Dr. Nicholas Polys: Director of Visual Computing Virginia Tech Advanced Research Computing and Dept Computer Science''']]
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-21T12:48:45Z

Chyde: /* Nicholas Polys */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00 - 14:00 (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00 - 10:10
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10 - 10:35
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:35 - 11:00
** Compton form factors as the interface between Data, Theory, Phenomenology (C.Hyde): 11:00 - 11:25
* Break
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (M.Kerver & S.Tsalikis, ODU): 11:40 - 12:05
** Tessellation for Image Analysis of CNF Data (C.Tsolakis/N.Chrisochoides): 12:05 - 12:30
** End-user Productivity: Tessellation Utilities, HPC PARTONS & 4D data (S. Tsalikis, M. Kerver, C. Tsolakis, W. Purwanto, C. Hyde, G. Gavalian, N. Chrisochoides): 12:30 - 13:00
** Visualization (M.Dahshan/N.Polys/D.Heddle VaTech): 13:00 - 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 - 14:00
** Moderators: C. Hyde, M. Burkardt
*** User-friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00 - 14:00 (EDT)
* Nuclear Physics Concepts and Challenges
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00 - 10:25
*** Visualization for Outreach
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 - 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 - 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 - 11:45
* Break
** PARTONS Generator (TBD) 12:00 - 12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (G.Angelini/W.Briscoe, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda: 13:40 - 14:00

= Slides =
* If presenting, upload your presentation to this [https://odu.box.com/s/td9tbvylwqt42f018oz9w0phryez19ew Box folder] or email your file to stsal001@odu.edu
** You can upload files to this [https://odu.box.com/s/td9tbvylwqt42f018oz9w0phryez19ew Box folder] with any email (non-odu).

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

=== Nicholas Polys ===
<li style="display: inline-block;">
[[File:NPolys_VATech.jpeg|thumb|left|250px| '''Dr. Nicholas Polys: Director of Visual Computing Virginia Tech Advanced Research Computing and Dept Computer Science''']]
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

File:NPolys VATech.jpg

2020-09-21T12:47:23Z

Chyde:

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-21T12:46:12Z

Chyde: /* External Visitors */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00 - 14:00 (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00 - 10:10
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10 - 10:35
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:35 - 11:00
** Compton form factors as the interface between Data, Theory, Phenomenology (C.Hyde): 11:00 - 11:25
* Break
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (M.Kerver & S.Tsalikis, ODU): 11:40 - 12:05
** Tessellation for Image Analysis of CNF Data (C.Tsolakis/N.Chrisochoides): 12:05 - 12:30
** End-user Productivity: Tessellation Utilities, HPC PARTONS & 4D data (S. Tsalikis, M. Kerver, C. Tsolakis, W. Purwanto, C. Hyde, G. Gavalian, N. Chrisochoides): 12:30 - 13:00
** Visualization (M.Dahshan/N.Polys/D.Heddle VaTech): 13:00 - 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 - 14:00
** Moderators: C. Hyde, M. Burkardt
*** User-friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00 - 14:00 (EDT)
* Nuclear Physics Concepts and Challenges
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00 - 10:25
*** Visualization for Outreach
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 - 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 - 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 - 11:45
* Break
** PARTONS Generator (TBD) 12:00 - 12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (G.Angelini/W.Briscoe, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda: 13:40 - 14:00

= Slides =
* If presenting, upload your presentation to this [https://odu.box.com/s/td9tbvylwqt42f018oz9w0phryez19ew Box folder] or email your file to stsal001@odu.edu
** You can upload files to this [https://odu.box.com/s/td9tbvylwqt42f018oz9w0phryez19ew Box folder] with any email (non-odu).

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

=== Nicholas Polys ===
<li style="display: inline-block;">
[[File: NPolys_VATech.jpeg|thumb|left|250px| '''Dr. Nicholas Polys: Director of Visual Computing Virginia Tech Advanced Research Computing and Dept Computer Science''']]
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-16T12:23:20Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:35AM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:35am to 11:00am
** Compton form factors as the interface between Data, Theory, Phenomenology (C.Hyde): 11:00AM to 11:25AM
*Break
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (M.Kerver & S.Tsalikis, ODU): 11:40 - 12:05
** Tessellation for Image Analysis of CNF Data (C.Tsolakis/N.Chrisochoides): 12:05 - 12:30
** End-user Productivity: HPC PARTONS & Tessellation Utilities, 4D data] (S.Tsalikis/Purwanto/Chrisochoides & Kerver/Hyde): 12:30 to 12:55
*** [https://docs.google.com/presentation/d/1nhzwuwoLB5NUL9ixxtGrF9rm49dXQnBP0L8X22AFM4k/edit?usp=sharing
** Visualization (M.Dahshan/N.Polys/D.Heddle VaTech): 12:55 to 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 to 14:00
** Moderators: C. Hyde, M. Burkardt
*** User friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00AM to 2:00PM
*Nuclear Physics Concepts and Challenges
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00AM to 10:25AM
*** Visualization for Outreach
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 to 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 to 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 to 11:45
*Break
** PARTONS Generator (TBD) 12:00-12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (G.Angelini/W.Briscoe, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda 13:40 - 14:00

= Slides =
* If presenting, upload your presentation to this [https://odu.box.com/s/td9tbvylwqt42f018oz9w0phryez19ew Box folder] or email your file to stsal001@odu.edu
** You can upload files to this [https://odu.box.com/s/td9tbvylwqt42f018oz9w0phryez19ew Box folder] with any email (non-odu).

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-16T12:20:24Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:35AM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:35am to 11:00am
** Compton form factors as the interface between Data, Theory, Phenomenology (C.Hyde): 11:00AM to 11:25AM
*Break
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (M.Kerver & S.Tsalikis, ODU): 11:40 - 12:05
** Tessellation for Image Analysis of CNF Data (C.Tsolakis/N.Chrisochoides): 12:05 - 12:30
*** [https://docs.google.com/presentation/d/1nhzwuwoLB5NUL9ixxtGrF9rm49dXQnBP0L8X22AFM4k/edit?usp=sharing
** End-user Productivity: HPC PARTONS & Tessellation Utilities, 4D data] (S.Tsalikis/Purwanto/Chrisochoides & Kerver/Hyde): 12:30 to 12:55
** Visualization (M.Dahshan/N.Polys/D.Heddle VaTech): 12:55 to 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 to 14:00
** Moderators: C. Hyde, M. Burkardt
*** User friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00AM to 2:00PM
*Nuclear Physics Challenges and Tools
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00AM to 10:25AM
*** Visualization for Outreach
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 to 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 to 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 to 11:45
*Break
** PARTONS Generator (TBD) 12:00-12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (G.Angelini/W.Briscoe, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda 13:40 - 14:00

= Slides =
* If presenting, upload your presentation to this [https://odu.box.com/s/td9tbvylwqt42f018oz9w0phryez19ew Box folder] or email your file to stsal001@odu.edu
** You can upload files to this [https://odu.box.com/s/td9tbvylwqt42f018oz9w0phryez19ew Box folder] with any email (non-odu).

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-14T15:53:31Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:35AM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:35am to 11:00am
** Compton form factors as the interface between Data, Theory, Phenomenology (C.Hyde): 11:00AM to 11:25AM
*Break
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (M.Kerver/C.Hyde & Tsalikis/Chrisochoides, ODU): 11:40 - 12:05
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides): 12:05 - 12:30
** End-user Productivity: HPC PARTONS & Tessellation Utilities (Tsalikis/Purwanto/Chrisochoides & Kerver/Hyde): 12:30 to 12:55
** Visualization (M.Dahshan/N.Polys/D.Heddle VaTech): 12:55 to 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 to 14:00
** Moderators: C. Hyde, M. Burkardt
*** User friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00AM to 2:00PM
*Nuclear Physics Challenges and Tools
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00AM to 10:25AM
*** Visualization for Outreach
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 to 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 to 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 to 11:45
*Break
** PARTONS Generator (TBD) 12:00-12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (G.Angelini/W.Briscoe, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda 13:40 - 14:00

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-14T15:49:22Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:30AM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:55am to 11:25am
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 10:30AM to 10:55AM
*Break
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (M.Kerver/C.Hyde & Tsalikis/Chrisochoides, ODU): 11:30 - 12:00
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides): 12:15 - 12:35
** End-user Productivity: HPC PARTONS & Tessellation Utilities (Tsalikis/Purwanto/Chrisochoides & Kerver/Hyde): 12:35 to 12:55
** Visualization (M.Dahshan/N.Polys/D.Heddle VaTech): 12:55 to 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 to 14:00
** Moderators: C. Hyde, M. Burkardt
*** User friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00AM to 2:00PM
*Nuclear Physics Challenges and Tools
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00AM to 10:25AM
*** Visualization for Outreach
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 to 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 to 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 to 11:45
*Break
** PARTONS Generator (TBD) 12:00-12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (G.Angelini/W.Briscoe, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda 13:40 - 14:00

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-14T15:48:28Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:30AM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:55am to 11:25am
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 10:30AM to 10:55AM
*Break
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (M.Kerver/C.Hyde & Tsalikis/Chrisochoides, ODU): 11:30 - 12:00
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides): 12:15 - 12:35
** End-user Productivity: HPC PARTONS & Tessellation Utilities (Tsalikis/Purwanto/Chrisochoides & Kerver/Hyde): 12:35 to 12:55
** Visualization (M.Dahshan/N.Polys/D.Heddle VaTech): 12:55 to 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 to 14:00
** Moderators: C. Hyde, M. Burkardt
*** User friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00AM to 2:00PM
*Nuclear Physics Challenges and Tools
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00AM to 10:25AM
*** Visualization for Outreach
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 to 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 to 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 to 11:45
*Break
** PARTONS Generator (TBD) 12:00-12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (Giovanni Angelini, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda 13:40 - 14:00

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-14T15:37:20Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:30AM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:55am to 11:25am
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 10:30AM to 10:55AM
*Break
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU): 11:30 - 12:00
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides): 12:15 - 12:35
** End-user Productivity: HPC PARTONS & Tessellation Utilities (Tsalikis/Kerver/Purwanto/Chrisochoides): 12:35 to 12:55
** Visualization (Mai Dahshan, VaTech): 12:55 to 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 to 14:00
** Moderators: C. Hyde, M. Burkardt
*** User friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00AM to 2:00PM
*Nuclear Physics Challenges and Tools
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00AM to 10:25AM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 to 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 to 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 to 11:45
*Break
** PARTONS Generator (TBD) 12:00-12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (Giovanni Angelini, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda 13:40 - 14:00

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-14T15:26:43Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:30AM
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 10:30AM to 10:55AM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:55am to 11:25am
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU): 11:30 - 12:00
*Break
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides): 12:15 - 12:35
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver/Purwanto/Chrisochoides): 12:35 to 12:55
** Visualization (Mai Dahshan, VaTech): 12:55 to 13:20
* Discussion of requirements for a Database of present and future DVES data. 13:20 to 13:50
** Moderators: C. Hyde, M. Burkardt
*** User friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.
** Visualization of CNF Data & Tessellations in 3D/4D (Chrisochoides(ODU) & Polys (VaTech): 13:50 to 14:00

'''September 25:'''

* Session : 10:00AM to 2:00PM
*Nuclear Physics Challenges and Tools
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00AM to 10:25AM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 to 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 to 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 to 11:45
*Break
** PARTONS Generator (TBD) 12:00-12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (Giovanni Angelini, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda 13:40 - 14:00

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-14T15:02:21Z

Chyde: /* ODU/JLAB */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:30AM
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 10:30AM to 10:55AM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:55am to 11:25am
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU): 11:30 - 12:00
*Break
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides): 12:15 - 12:35
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver/Purwanto/Chrisochoides): 12:35 to 12:55
** Visualization of CNF Data & Tessellations in 3D/4D (Garner/Tsalikis/Tsolakis/Chrisochoides(ODU) & Mai/Polys (VaTech): 12:55 to 13:15
** Visualization (Mai Dahshan, VaTech): 13:15 to 13:30
* Discussion of requirements for a Database of present and future DVES data. 13:30 to 14:00
** Moderators: C. Hyde, M. Burkardt
*** User friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00AM to 2:00PM
*Nuclear Physics Challenges and Tools
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00AM to 10:25AM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 to 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 to 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 to 11:45
*Break
** PARTONS Generator (TBD) 12:00-12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (Giovanni Angelini, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda 13:40 - 14:00

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.
</li>

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-14T15:01:51Z

Chyde: /* ODU/JLAB */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:30AM
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 10:30AM to 10:55AM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:55am to 11:25am
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU): 11:30 - 12:00
*Break
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides): 12:15 - 12:35
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver/Purwanto/Chrisochoides): 12:35 to 12:55
** Visualization of CNF Data & Tessellations in 3D/4D (Garner/Tsalikis/Tsolakis/Chrisochoides(ODU) & Mai/Polys (VaTech): 12:55 to 13:15
** Visualization (Mai Dahshan, VaTech): 13:15 to 13:30
* Discussion of requirements for a Database of present and future DVES data. 13:30 to 14:00
** Moderators: C. Hyde, M. Burkardt
*** User friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00AM to 2:00PM
*Nuclear Physics Challenges and Tools
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00AM to 10:25AM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 to 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 to 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 to 11:45
*Break
** PARTONS Generator (TBD) 12:00-12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (Giovanni Angelini, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda 13:40 - 14:00

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==
=== Nikos Chrisochoides ===
<li style="display: inline-block;">
[[File:Nikos_CoS_ODU_2020.png|250px|thumb|left|frameless|CRTC Principal Investigator: Nikos Chrisochoides Richard T. Cheng Endowed Chair Professor of Computer Science and
Eminent Scholar at Old Dominion University ]]
Nikos Chrisochoides is a John Simon Guggenheim Fellow in Medicine & Health in the US and Distinguished Visiting Fellow in the Royal Academy of Engineering in the UK. His current research interests are in real-time image computing. Nikos received his Ph.D. in 1992 from Computer Science at Purdue University. He worked at Northeast Parallel Architectures Center in Syracuse and Advanced Computing Research Institute at Cornell. In 1997 he joined the Computer Science & Engineering Dept. at Notre Dame where he received his NSF CAREER Award. In 2000 he joined the College of William and Mary where he was awarded the Alumni Memorial Professorship. He has held visiting positions at MIT, Harvard Medical School, and Brown University. He participated as PI, Co-I, and Senior Personnel on projects with more than $16 million (with more than $10M as a PI) in research projects on high-performance and medical image computing and he has more than 240 publications.

=== Charles Hyde ===
<li style="display: inline-block;">

[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-14T14:51:29Z

Chyde: /* ODU/JLAB */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:30AM
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 10:30AM to 10:55AM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:55am to 11:25am
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU): 11:30 - 12:00
*Break
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides): 12:15 - 12:35
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver/Purwanto/Chrisochoides): 12:35 to 12:55
** Visualization of CNF Data & Tessellations in 3D/4D (Garner/Tsalikis/Tsolakis/Chrisochoides(ODU) & Mai/Polys (VaTech): 12:55 to 13:15
** Visualization (Mai Dahshan, VaTech): 13:15 to 13:30
* Discussion of requirements for a Database of present and future DVES data. 13:30 to 14:00
** Moderators: C. Hyde, M. Burkardt
*** User friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00AM to 2:00PM
*Nuclear Physics Challenges and Tools
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00AM to 10:25AM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 to 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 to 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 to 11:45
*Break
** PARTONS Generator (TBD) 12:00-12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (Giovanni Angelini, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda 13:40 - 14:00

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==

=== Charles Hyde ===
<li style="display: inline-block;">
[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-14T14:50:24Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:30AM
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 10:30AM to 10:55AM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:55am to 11:25am
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU): 11:30 - 12:00
*Break
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides): 12:15 - 12:35
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver/Purwanto/Chrisochoides): 12:35 to 12:55
** Visualization of CNF Data & Tessellations in 3D/4D (Garner/Tsalikis/Tsolakis/Chrisochoides(ODU) & Mai/Polys (VaTech): 12:55 to 13:15
** Visualization (Mai Dahshan, VaTech): 13:15 to 13:30
* Discussion of requirements for a Database of present and future DVES data. 13:30 to 14:00
** Moderators: C. Hyde, M. Burkardt
*** User friendly access to existing published data
*** Compiling essential meta-data (experimental acceptances…)
*** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00AM to 2:00PM
*Nuclear Physics Challenges and Tools
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00AM to 10:25AM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 to 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 to 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 to 11:45
*Break
** PARTONS Generator (TBD) 12:00-12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (Giovanni Angelini, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda 13:40 - 14:00

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==

=== Charles Hyde ===
<li style="display: inline-block;">
[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Christian Weiss ===
<li style="display: inline-block;">
[[File: small_weiss.jpg|thumb|left|250px| '''Christian Weiss: Senior Staff member at the Thomas Jefferson National Accelerator Facility in Newport News VA''']]
'''Dr. Christian Weiss'''
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-14T14:49:57Z

Chyde: /* Overview */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',

*'''Friday, September 25''' Focus on ''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:30AM
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 10:30AM to 10:55AM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:55am to 11:25am
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU): 11:30 - 12:00
*Break
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides): 12:15 - 12:35
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver/Purwanto/Chrisochoides): 12:35 to 12:55
** Visualization of CNF Data & Tessellations in 3D/4D (Garner/Tsalikis/Tsolakis/Chrisochoides(ODU) & Mai/Polys (VaTech): 12:55 to 13:15
** Visualization (Mai Dahshan, VaTech): 13:15 to 13:30
* Discussion of requirements for a Database of present and future DVES data. 13:30 to 14:00
** Moderators: C. Hyde, M. Burkardt
** User friendly access to existing published data
** Compiling essential meta-data (experimental acceptances…)
** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00AM to 2:00PM
*Nuclear Physics Challenges and Tools
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00AM to 10:25AM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 to 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 to 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 to 11:45
*Break
** PARTONS Generator (TBD) 12:00-12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (Giovanni Angelini, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda 13:40 - 14:00

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==

=== Charles Hyde ===
<li style="display: inline-block;">
[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Christian Weiss ===
<li style="display: inline-block;">
[[File: small_weiss.jpg|thumb|left|250px| '''Christian Weiss: Senior Staff member at the Thomas Jefferson National Accelerator Facility in Newport News VA''']]
'''Dr. Christian Weiss'''
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-14T14:49:47Z

Chyde: /* Overview */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on ''' Enabling Technology for Femtography''',

*'''Friday, September 25''' Focus on ,''' Frontiers of Nuclear Femtography'''

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:30AM
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 10:30AM to 10:55AM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:55am to 11:25am
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU): 11:30 - 12:00
*Break
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides): 12:15 - 12:35
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver/Purwanto/Chrisochoides): 12:35 to 12:55
** Visualization of CNF Data & Tessellations in 3D/4D (Garner/Tsalikis/Tsolakis/Chrisochoides(ODU) & Mai/Polys (VaTech): 12:55 to 13:15
** Visualization (Mai Dahshan, VaTech): 13:15 to 13:30
* Discussion of requirements for a Database of present and future DVES data. 13:30 to 14:00
** Moderators: C. Hyde, M. Burkardt
** User friendly access to existing published data
** Compiling essential meta-data (experimental acceptances…)
** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00AM to 2:00PM
*Nuclear Physics Challenges and Tools
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00AM to 10:25AM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 to 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 to 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 to 11:45
*Break
** PARTONS Generator (TBD) 12:00-12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (Giovanni Angelini, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda 13:40 - 14:00

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==

=== Charles Hyde ===
<li style="display: inline-block;">
[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Christian Weiss ===
<li style="display: inline-block;">
[[File: small_weiss.jpg|thumb|left|250px| '''Christian Weiss: Senior Staff member at the Thomas Jefferson National Accelerator Facility in Newport News VA''']]
'''Dr. Christian Weiss'''
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-14T14:48:25Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on '''What is Femtography and How do you Measure it''',

*'''Friday, September 25''' Focus on ''' Enabling Technology & New Frontiers''',

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:30AM
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 10:30AM to 10:55AM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:55am to 11:25am
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU): 11:30 - 12:00
*Break
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides): 12:15 - 12:35
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver/Purwanto/Chrisochoides): 12:35 to 12:55
** Visualization of CNF Data & Tessellations in 3D/4D (Garner/Tsalikis/Tsolakis/Chrisochoides(ODU) & Mai/Polys (VaTech): 12:55 to 13:15
** Visualization (Mai Dahshan, VaTech): 13:15 to 13:30
* Discussion of requirements for a Database of present and future DVES data. 13:30 to 14:00
** Moderators: C. Hyde, M. Burkardt
** User friendly access to existing published data
** Compiling essential meta-data (experimental acceptances…)
** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00AM to 2:00PM
*Nuclear Physics Challenges and Tools
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:00AM to 10:25AM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 10:25 to 10:55
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 10:55 to 11:20
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA): 11:20 to 11:45
*Break
** PARTONS Generator (TBD) 12:00-12:25
** MILOU Generator (TBD) 12:25 - 12:50
** SIDIS Monte Carlo (Giovanni Angelini, GWU) 12:50 - 13:15
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides): 13:15 - 13:40
** Discussion on conclusions and future agenda 13:40 - 14:00

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==

=== Charles Hyde ===
<li style="display: inline-block;">
[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Christian Weiss ===
<li style="display: inline-block;">
[[File: small_weiss.jpg|thumb|left|250px| '''Christian Weiss: Senior Staff member at the Thomas Jefferson National Accelerator Facility in Newport News VA''']]
'''Dr. Christian Weiss'''
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-09-14T14:47:35Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on '''What is Femtography and How do you Measure it''',

*'''Friday, September 25''' Focus on ''' Enabling Technology & New Frontiers''',

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for an Interdisciplinary Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:30AM
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 10:30AM to 10:55AM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 10:55am to 11:25am
* Enabling Technologies I
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU): 11:30 - 12:00
*Break
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides): 12:15 - 12:35
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver/Purwanto/Chrisochoides): 12:35 to 12:55
** Visualization of CNF Data & Tessellations in 3D/4D (Garner/Tsalikis/Tsolakis/Chrisochoides(ODU) & Mai/Polys (VaTech): 12:55 to 13:15
** Visualization (Mai Dahshan, VaTech): 13:15 to 13:30
* Discussion of requirements for a Database of present and future DVES data. 13:30 to 14:00
** Moderators: C. Hyde, M. Burkardt
** User friendly access to existing published data
** Compiling essential meta-data (experimental acceptances…)
** Estimate of range and precision of data from 2020 to 2030.

'''September 25:'''

* Session : 10:00AM to 2:00PM
* Deep Virtual Exclusive Scattering Data and Monte Carlo (Cont.)
** Discussion of requirements for a Database of present and future DVES data.
*** Moderators: C. Hyde, M. Burkardt
** F.X. Girod(?): Efforts for new CLAS generators
** The Hall A generator (Rafael Paremuzian):
** SIDIS Monte Carlo (Giovanni Angelini, GWU)
* Enabling Technology: Part I. Visualization & Artificial Intelligence
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides):
** Visualization (Mai Dahshan, VaTech):
** ML for Particle Tracking in Nuclear Physics (Thomadakis/Gagik/Nikolopoulos/Chrisochoides):
* Flash Talks on Enabling Technology: Future Extensions (<5 slides)
** Visualization of CNF Data & Tessellations in 3D/4D (Garner/Tsalikis/Tsolakis/Chrisochoides(ODU) & Mai/Polys (VaTech):
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA):
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver/Purwanto/Chrisochoides):

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==

=== Charles Hyde ===
<li style="display: inline-block;">
[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Christian Weiss ===
<li style="display: inline-block;">
[[File: small_weiss.jpg|thumb|left|250px| '''Christian Weiss: Senior Staff member at the Thomas Jefferson National Accelerator Facility in Newport News VA''']]
'''Dr. Christian Weiss'''
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-08-19T20:35:30Z

Chyde:

== DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS ==
= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on '''What is Femtography and How do you Measure it''',

*'''Friday, September 25''' Focus on ''' Enabling Technology & New Frontiers''',

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:25AM
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:25AM to 10:55AM
** Nuclear Femtography in a larger context (Christian Weiss): 10:55AM to 11:25AM
** Break: 11:25AM to 11:40AM
* Formalism and Phenomenology of Deep Virtual Exclusive Scattering (DVES)
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 11:40AM to 12:05PM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 12:05 to 12:30PM
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 12:30 to 12:55PM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 12:55 to 13:25
* Deep Virtual Exclusive Scattering Data and Monte Carlo
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU):
** The MILOU Generator. (BNL – EIC). FOAM? TBD:

'''September 25:'''

* Session : 10:00AM to 2:00PM
* Deep Virtual Exclusive Scattering Data and Monte Carlo (Cont.)
** Discussion of requirements for a Database of present and future DVES data.
*** Moderators: C. Hyde, M. Burkardt
** F.X. Girod(?): Efforts for new CLAS generators
** The Hall A generator (Rafael Paremuzian):
** SIDIS Monte Carlo (Giovanni Angelini, GWU)
* Enabling Technology: Part I. Visualization & Artificial Intelligence
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides):
** Visualization (Mai Dahshan, VaTech):
** ML for Particle tracking in Nuclear Physics (Thomadakis/Gagik/Chrisochoides):
* Flash Talks on Enabling Technology: Future Extensions (<5 slides)
** Visualization of CNF Data & Tessellations in 3D/4D (Kevin Garner, Christos Tsalikis (ODU) & Nicholas Polys, VaTech):
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA):
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver):

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==

=== Charles Hyde ===
<li style="display: inline-block;">
[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Christian Weiss ===
<li style="display: inline-block;">
[[File: small_weiss.jpg|thumb|left|250px| '''Christian Weiss: Senior Staff member at the Thomas Jefferson National Accelerator Facility in Newport News VA''']]
'''Dr. Christian Weiss'''
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-08-19T20:33:50Z

Chyde:

= Overview =

[[File:logo.png||right|255px]]

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

*'''Thursday, September 24,''' Focus on '''What is Femtography and How do you Measure it''',

*'''Friday, September 25''' Focus on ''' Enabling Technology & New Frontiers''',

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:25AM
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:25AM to 10:55AM
** Nuclear Femtography in a larger context (Christian Weiss): 10:55AM to 11:25AM
** Break: 11:25AM to 11:40AM
* Formalism and Phenomenology of Deep Virtual Exclusive Scattering (DVES)
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 11:40AM to 12:05PM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 12:05 to 12:30PM
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 12:30 to 12:55PM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 12:55 to 13:25
* Deep Virtual Exclusive Scattering Data and Monte Carlo
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU):
** The MILOU Generator. (BNL – EIC). FOAM? TBD:

'''September 25:'''

* Session : 10:00AM to 2:00PM
* Deep Virtual Exclusive Scattering Data and Monte Carlo (Cont.)
** Discussion of requirements for a Database of present and future DVES data.
*** Moderators: C. Hyde, M. Burkardt
** F.X. Girod(?): Efforts for new CLAS generators
** The Hall A generator (Rafael Paremuzian):
** SIDIS Monte Carlo (Giovanni Angelini, GWU)
* Enabling Technology: Part I. Visualization & Artificial Intelligence
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides):
** Visualization (Mai Dahshan, VaTech):
** ML for Particle tracking in Nuclear Physics (Thomadakis/Gagik/Chrisochoides):
* Flash Talks on Enabling Technology: Future Extensions (<5 slides)
** Visualization of CNF Data & Tessellations in 3D/4D (Kevin Garner, Christos Tsalikis (ODU) & Nicholas Polys, VaTech):
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA):
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver):

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==

=== Charles Hyde ===
<li style="display: inline-block;">
[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Christian Weiss ===
<li style="display: inline-block;">
[[File: small_weiss.jpg|thumb|left|250px| '''Christian Weiss: Senior Staff member at the Thomas Jefferson National Accelerator Facility in Newport News VA''']]
'''Dr. Christian Weiss'''
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-08-19T20:29:25Z

Chyde: /* Charles Hyde */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on '''What is Femtography and How do you Measure it''',

*'''Friday, September 25''' Focus on ''' Enabling Technology & New Frontiers''',

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:25AM
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:25AM to 10:55AM
** Nuclear Femtography in a larger context (Christian Weiss): 10:55AM to 11:25AM
** Break: 11:25AM to 11:40AM
* Formalism and Phenomenology of Deep Virtual Exclusive Scattering (DVES)
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 11:40AM to 12:05PM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 12:05 to 12:30PM
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 12:30 to 12:55PM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 12:55 to 13:25
* Deep Virtual Exclusive Scattering Data and Monte Carlo
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU):
** The MILOU Generator. (BNL – EIC). FOAM? TBD:

'''September 25:'''

* Session : 10:00AM to 2:00PM
* Deep Virtual Exclusive Scattering Data and Monte Carlo (Cont.)
** Discussion of requirements for a Database of present and future DVES data.
*** Moderators: C. Hyde, M. Burkardt
** F.X. Girod(?): Efforts for new CLAS generators
** The Hall A generator (Rafael Paremuzian):
** SIDIS Monte Carlo (Giovanni Angelini, GWU)
* Enabling Technology: Part I. Visualization & Artificial Intelligence
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides):
** Visualization (Mai Dahshan, VaTech):
** ML for Particle tracking in Nuclear Physics (Thomadakis/Gagik/Chrisochoides):
* Flash Talks on Enabling Technology: Future Extensions (<5 slides)
** Visualization of CNF Data & Tessellations in 3D/4D (Kevin Garner, Christos Tsalikis (ODU) & Nicholas Polys, VaTech):
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA):
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver):

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==

=== Charles Hyde ===
<li style="display: inline-block;">
[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion University
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Christian Weiss ===
<li style="display: inline-block;">
[[File: small_weiss.jpg|thumb|left|250px| '''Christian Weiss: Senior Staff member at the Thomas Jefferson National Accelerator Facility in Newport News VA''']]
'''Dr. Christian Weiss'''
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-08-19T20:29:06Z

Chyde: /* Charles Hyde */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on '''What is Femtography and How do you Measure it''',

*'''Friday, September 25''' Focus on ''' Enabling Technology & New Frontiers''',

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:25AM
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:25AM to 10:55AM
** Nuclear Femtography in a larger context (Christian Weiss): 10:55AM to 11:25AM
** Break: 11:25AM to 11:40AM
* Formalism and Phenomenology of Deep Virtual Exclusive Scattering (DVES)
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 11:40AM to 12:05PM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 12:05 to 12:30PM
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 12:30 to 12:55PM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 12:55 to 13:25
* Deep Virtual Exclusive Scattering Data and Monte Carlo
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU):
** The MILOU Generator. (BNL – EIC). FOAM? TBD:

'''September 25:'''

* Session : 10:00AM to 2:00PM
* Deep Virtual Exclusive Scattering Data and Monte Carlo (Cont.)
** Discussion of requirements for a Database of present and future DVES data.
*** Moderators: C. Hyde, M. Burkardt
** F.X. Girod(?): Efforts for new CLAS generators
** The Hall A generator (Rafael Paremuzian):
** SIDIS Monte Carlo (Giovanni Angelini, GWU)
* Enabling Technology: Part I. Visualization & Artificial Intelligence
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides):
** Visualization (Mai Dahshan, VaTech):
** ML for Particle tracking in Nuclear Physics (Thomadakis/Gagik/Chrisochoides):
* Flash Talks on Enabling Technology: Future Extensions (<5 slides)
** Visualization of CNF Data & Tessellations in 3D/4D (Kevin Garner, Christos Tsalikis (ODU) & Nicholas Polys, VaTech):
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA):
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver):

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==

=== Charles Hyde ===
<li style="display: inline-block;">
[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Old Dominion Universty
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Christian Weiss ===
<li style="display: inline-block;">
[[File: small_weiss.jpg|thumb|left|250px| '''Christian Weiss: Senior Staff member at the Thomas Jefferson National Accelerator Facility in Newport News VA''']]
'''Dr. Christian Weiss'''
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-08-19T20:28:39Z

Chyde: /* Charles Hyde */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on '''What is Femtography and How do you Measure it''',

*'''Friday, September 25''' Focus on ''' Enabling Technology & New Frontiers''',

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:25AM
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:25AM to 10:55AM
** Nuclear Femtography in a larger context (Christian Weiss): 10:55AM to 11:25AM
** Break: 11:25AM to 11:40AM
* Formalism and Phenomenology of Deep Virtual Exclusive Scattering (DVES)
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 11:40AM to 12:05PM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 12:05 to 12:30PM
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 12:30 to 12:55PM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 12:55 to 13:25
* Deep Virtual Exclusive Scattering Data and Monte Carlo
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU):
** The MILOU Generator. (BNL – EIC). FOAM? TBD:

'''September 25:'''

* Session : 10:00AM to 2:00PM
* Deep Virtual Exclusive Scattering Data and Monte Carlo (Cont.)
** Discussion of requirements for a Database of present and future DVES data.
*** Moderators: C. Hyde, M. Burkardt
** F.X. Girod(?): Efforts for new CLAS generators
** The Hall A generator (Rafael Paremuzian):
** SIDIS Monte Carlo (Giovanni Angelini, GWU)
* Enabling Technology: Part I. Visualization & Artificial Intelligence
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides):
** Visualization (Mai Dahshan, VaTech):
** ML for Particle tracking in Nuclear Physics (Thomadakis/Gagik/Chrisochoides):
* Flash Talks on Enabling Technology: Future Extensions (<5 slides)
** Visualization of CNF Data & Tessellations in 3D/4D (Kevin Garner, Christos Tsalikis (ODU) & Nicholas Polys, VaTech):
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA):
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver):

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==

=== Charles Hyde ===
<li style="display: inline-block;">
[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Chair, Department of Physics
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Christian Weiss ===
<li style="display: inline-block;">
[[File: small_weiss.jpg|thumb|left|250px| '''Christian Weiss: Senior Staff member at the Thomas Jefferson National Accelerator Facility in Newport News VA''']]
'''Dr. Christian Weiss'''
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-08-19T20:27:01Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on '''What is Femtography and How do you Measure it''',

*'''Friday, September 25''' Focus on ''' Enabling Technology & New Frontiers''',

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:25AM
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:25AM to 10:55AM
** Nuclear Femtography in a larger context (Christian Weiss): 10:55AM to 11:25AM
** Break: 11:25AM to 11:40AM
* Formalism and Phenomenology of Deep Virtual Exclusive Scattering (DVES)
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 11:40AM to 12:05PM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 12:05 to 12:30PM
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 12:30 to 12:55PM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 12:55 to 13:25
* Deep Virtual Exclusive Scattering Data and Monte Carlo
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU):
** The MILOU Generator. (BNL – EIC). FOAM? TBD:

'''September 25:'''

* Session : 10:00AM to 2:00PM
* Deep Virtual Exclusive Scattering Data and Monte Carlo (Cont.)
** Discussion of requirements for a Database of present and future DVES data.
*** Moderators: C. Hyde, M. Burkardt
** F.X. Girod(?): Efforts for new CLAS generators
** The Hall A generator (Rafael Paremuzian):
** SIDIS Monte Carlo (Giovanni Angelini, GWU)
* Enabling Technology: Part I. Visualization & Artificial Intelligence
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides):
** Visualization (Mai Dahshan, VaTech):
** ML for Particle tracking in Nuclear Physics (Thomadakis/Gagik/Chrisochoides):
* Flash Talks on Enabling Technology: Future Extensions (<5 slides)
** Visualization of CNF Data & Tessellations in 3D/4D (Kevin Garner, Christos Tsalikis (ODU) & Nicholas Polys, VaTech):
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA):
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver):

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==

=== Charles Hyde ===
<li style="display: inline-block;">
[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Chair, Department of Physics
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton. An introduction to this subject for a general audience can be found on his Web Poster on Virtual Compton Scattering.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Christian Weiss ===
<li style="display: inline-block;">
[[File: small_weiss.jpg|thumb|left|250px| '''Christian Weiss: Senior Staff member at the Thomas Jefferson National Accelerator Facility in Newport News VA''']]
'''Dr. Christian Weiss'''
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-08-19T19:23:58Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on '''What is Femtography and How do you Measure it''',

*'''Friday, September 25''' Focus on ''' Enabling Technology & New Frontiers''',

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:25AM
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:25AM to 10:55AM
** Nuclear Femtography in a larger context (Christian Weiss): 10:55AM to 11:25AM
** Break: 11:25AM to 11:40AM
* Formalism and Phenomenology of Deep Virtual Exclusive Scattering (DVES)
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 11:40AM to 12:05PM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 12:05 to 12:30PM
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 12:30 to 12:55PM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 12:55 to 13:25
* Monte Carlo routines for Deep Virtual Exclusive Scattering
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU):
** The MILOU Generator. (BNL – EIC). FOAM? TBD:

'''September 25:'''

* Session : 10:00AM to 2:00PM
* Monte Carlo routines for Deep Virtual Exclusive Scattering (Cont.)
** F.X. Girod(?): Efforts for new CLAS generators
** The Hall A generator (Rafael Paremuzian):
** TCS?
** SIDIS Monte Carlo (Giovanni Angelini, GWU)
* Enabling Technology: Part I. Visualization & Artificial Intelligence
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides):
** Visualization (Mai Dahshan, VaTech):
** ML for Particle tracking in Nuclear Physics (Thomadakis/Gagik/Chrisochoides):
* Flash Talks on Enabling Technology: Future Extensions (<5 slides)
** Visualization of CNF Data & Tessellations in 3D/4D (Kevin Garner, Christos Tsalikis (ODU) & Nicholas Polys, VaTech):
** Machine Learning for global fitting of CFF from sparse data (Joshua Hoskins, UVA):
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver):

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==

=== Charles Hyde ===
<li style="display: inline-block;">
[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Chair, Department of Physics
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton. An introduction to this subject for a general audience can be found on his Web Poster on Virtual Compton Scattering.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Christian Weiss ===
<li style="display: inline-block;">
[[File: small_weiss.jpg|thumb|left|250px| '''Christian Weiss: Senior Staff member at the Thomas Jefferson National Accelerator Facility in Newport News VA''']]
'''Dr. Christian Weiss'''
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-08-19T19:20:38Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on '''What is Femtography and How do you Measure it''',

*'''Friday, September 25''' Focus on ''' Enabling Technology & New Frontiers''',

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:25AM
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:25AM to 10:55AM
** Nuclear Femtography in a larger context (Christian Weiss): 10:55AM to 11:25AM
** Break: 11:25AM to 11:40AM
* Formalism and Phenomenology of Deep Virtual Exclusive Scattering (DVES)
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 11:40AM to 12:05PM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 12:05 to 12:30PM
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 12:30 to 12:55PM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 12:55 to 13:25
* Monte Carlo routines for Deep Virtual Exclusive Scattering
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU):
** The MILOU Generator. (BNL – EIC). FOAM? TBD:

'''September 25:'''

* Session : 10:00AM to 2:00PM
* Monte Carlo routines for Deep Virtual Exclusive Scattering (Cont.)
** F.X. Girod(?): Efforts for new CLAS generators
** The Hall A generator (Rafael Paremuzian):
** TCS?
** SIDIS Monte Carlo (Giovanni Angelini, GWU)
* Enabling Technology: Part I. Visualization & Artificial Intelligence
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides):
** Visualization (Mai Dahshan, VaTech):
** ML for Particle tracking in Nuclear Physics (Thomadakis/Gagik/Chrisochoides):
* Flash Talks on Enabling Technology: Future Extensions (<5 slides)
** Visualization of CNF Data & Tessellations in 3D/4D (Kevin Garner, Christos Tsalikis (ODU) & Nicholas Polys, VaTech):
** Machine Learning for global fitting of CFF from sparse data (J. Hoskins/Liuti, UVA):
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver):

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==

=== Charles Hyde ===
<li style="display: inline-block;">
[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Chair, Department of Physics
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton. An introduction to this subject for a general audience can be found on his Web Poster on Virtual Compton Scattering.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Christian Weiss ===
<li style="display: inline-block;">
[[File: small_weiss.jpg|thumb|left|250px| '''Christian Weiss: Senior Staff member at the Thomas Jefferson National Accelerator Facility in Newport News VA''']]
'''Dr. Christian Weiss'''
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-08-19T19:19:50Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on '''What is Femtography and How do you Measure it''',

*'''Friday, September 25''' Focus on ''' Enabling Technology & New Frontiers''',

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM (EDT)
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:25AM
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:25AM to 10:55AM
** Nuclear Femtography in a larger context (Christian Weiss): 10:55AM to 11:25AM
** Break: 11:25AM to 11:40AM
* Formalism and Phenomenology of Deep Virtual Exclusive Scattering (DVES)
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 11:40AM to 12:05PM
** Walking back from the Q2->infinity approximation (Simonetta Liuti): 12:05 to 12:30PM
** Setting the Resolution Scale: QCD Evolution tools (Brandon Krieston, UVA): 12:30 to 12:55PM
** Global Fitting (Kresimir Kumericki, Zagreb U.): 12:55 to 13:25
* Monte Carlo routines for Deep Virtual Exclusive Scattering
** Efforts towards flexible, efficient look-up tables of CFF (Mitchell Kerver, ODU):
** The MILOU Generator. (BNL – EIC). FOAM? TBD:

'''September 25:'''

* Session : 10:00AM to 2:00PM
* Monte Carlo routines for Deep Virtual Exclusive Scattering (Cont.)
** F.X. Girod(?): Efforts for new CLAS generators
** The Hall A generator (Rafael Paremuzian):
** TCS?
** SIDIS Monte Carlo (Giovanni Angelini, GWU)
* Enabling Technology: Part I. Visualization & Artificial Intelligence
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides):
** Visualization (VaTech student, D. Heddle contact):
** ML for Particle tracking in Nuclear Physics (Thomadakis/Gagik/Chrisochoides):
* Flash Talks on Enabling Technology: Future Extensions (<5 slides)
** Visualization of CNF Data & Tessellations in 3D/4D (Kevin Garner, Christos Tsalikis (ODU) & Nicholas Polys, VaTech):
** Machine Learning for global fitting of CFF from sparse data (J. Hoskins/Liuti, UVA):
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver):

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==

=== Charles Hyde ===
<li style="display: inline-block;">
[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Chair, Department of Physics
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton. An introduction to this subject for a general audience can be found on his Web Poster on Virtual Compton Scattering.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Christian Weiss ===
<li style="display: inline-block;">
[[File: small_weiss.jpg|thumb|left|250px| '''Christian Weiss: Senior Staff member at the Thomas Jefferson National Accelerator Facility in Newport News VA''']]
'''Dr. Christian Weiss'''
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-08-19T19:09:27Z

Chyde: /* Overview */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' Focus on '''What is Femtography and How do you Measure it''',

*'''Friday, September 25''' Focus on ''' Enabling Technology & New Frontiers''',

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:25AM
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:25AM to 10:55AM
** Nuclear Femtography in a larger context (Christian Weiss): 10:55AM to 11:25AM
** Break: 11:25AM to 11:40AM
* Formalism and Phenomenology of Deep Virtual Exclusive Scattering (DVES)
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 11:40AM to
** Walking back from the Q2->infinity approximation (Simonetta Liuti):
** QCD Evolution tools (UVA/NMSU student/postdoc):
** Global Fitting (Kresimir Kumericki):
* Monte Carlo routines for Deep Virtual Exclusive Scattering
** Efforts towards flexible, efficient look-up tables of CFF (Kerver/Hyde/Gagik):
** The MILOU Generator. (BNL – EIC). FOAM? TBD:

'''September 25:'''

* Session : 10:00AM to 2:00PM
* Monte Carlo routines for Deep Virtual Exclusive Scattering (Cont.)
** F.X. Girod(?): Efforts for new CLAS generators
** The Hall A generator (Rafael Paremuzian):
** TCS? Vardan, Boer
** SIDIS Monte Carlo (GWU student)
* Enabling Technology: Part I. Visualization & Artificial Intelligence
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides):
** Visualization (VaTech student, D. Heddle contact):
** ML for Particle tracking in Nuclear Physics (Thomadakis/Gagik/Chrisochoides):
* Flash Talks on Enabling Technology: Future Extensions (<5 slides)
** Visualization of CNF Data & Tessellations in 3D/4D (Garner/Tsalikis & VATech?):
** Machine Learning for global fitting of CFF from sparse data (Hoskins/Liuti):
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver):

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==

=== Charles Hyde ===
<li style="display: inline-block;">
[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Chair, Department of Physics
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton. An introduction to this subject for a general audience can be found on his Web Poster on Virtual Compton Scattering.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Christian Weiss ===
<li style="display: inline-block;">
[[File: small_weiss.jpg|thumb|left|250px| '''Christian Weiss: Senior Staff member at the Thomas Jefferson National Accelerator Facility in Newport News VA''']]
'''Dr. Christian Weiss'''
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

DATA SCIENCE ROADMAP TO COMPTON FORM FACTORS OF QUARKS AND GLUONS

2020-08-19T19:07:44Z

Chyde: /* Schedule */

= Overview =

[[File:logo.png||right|255px]]

*'''Thursday, September 24,''' the objective is to focus on ''' ''',

*'''Friday, September 25''' the objective is to focus on ''' ''',

= Schedule =

'''September 24:'''

* Session: 10:00AM to 2:00PM
* Introduction
** Welcome and Logistics for the workshop (Charles Hyde): 10:00AM to 10:10AM
** Vision for Center for Nuclear Femtography (Xiangdong Ji): 10:10AM to 10:25AM
** Forming pictures of nuclear dynamics (Matthias Burkardt): 10:25AM to 10:55AM
** Nuclear Femtography in a larger context (Christian Weiss): 10:55AM to 11:25AM
** Break: 11:25AM to 11:40AM
* Formalism and Phenomenology of Deep Virtual Exclusive Scattering (DVES)
** Compton form factors as the interface between Data, Theory, Phenomenology (Charles Hyde): 11:40AM to
** Walking back from the Q2->infinity approximation (Simonetta Liuti):
** QCD Evolution tools (UVA/NMSU student/postdoc):
** Global Fitting (Kresimir Kumericki):
* Monte Carlo routines for Deep Virtual Exclusive Scattering
** Efforts towards flexible, efficient look-up tables of CFF (Kerver/Hyde/Gagik):
** The MILOU Generator. (BNL – EIC). FOAM? TBD:

'''September 25:'''

* Session : 10:00AM to 2:00PM
* Monte Carlo routines for Deep Virtual Exclusive Scattering (Cont.)
** F.X. Girod(?): Efforts for new CLAS generators
** The Hall A generator (Rafael Paremuzian):
** TCS? Vardan, Boer
** SIDIS Monte Carlo (GWU student)
* Enabling Technology: Part I. Visualization & Artificial Intelligence
** Tessellation for Image Analysis of CNF Data (Tsolakis/Chrisochoides):
** Visualization (VaTech student, D. Heddle contact):
** ML for Particle tracking in Nuclear Physics (Thomadakis/Gagik/Chrisochoides):
* Flash Talks on Enabling Technology: Future Extensions (<5 slides)
** Visualization of CNF Data & Tessellations in 3D/4D (Garner/Tsalikis & VATech?):
** Machine Learning for global fitting of CFF from sparse data (Hoskins/Liuti):
** End-user Productivity: HPC PARTONS & Tessellations (Tsalikis/Kerver):

= Registration =
'''Register here:'''

If presenting use the provided links (see previous email) to upload your presentations or email your file to kgarn006@odu.edu

= Presenters =
== External Visitors ==

=== Xiangdong Ji ===
<li style="display: inline-block;">
[[File: xiangdongli.jpg|thumb|left|250px| '''Xiangdong Ji: UMD Distinguished University Professor''']]
'''Dr. Xiangdong Ji''' received his B.S. from Tongji University and his Ph.D. in 1987 from Drexel University. His research includes theoretical studies of the nucleon structure in Quantum Chromodynamics and experimental search for Dark Matter particles using liquid xenon technology. He had post-doctorial positions at the California Institute of Technology and Massachusetts Institute of Technology (MIT), was a junior faculty at MIT from 1991 to 1996. He is a fellow of American Physical Society (since 2000) and a recipient of the 2003 oversea outstanding young Chinese scientist award from the National Science Foundation of China.
</li>

=== Matthias Burkardt ===
<li style="display: inline-block;">
[[File: MatthiasBurkardt.jpg|thumb|left|250px| '''Matthias Burkardt: Distinguished Achievement Professor at New Mexico State University''']]
'''Dr. Matthias Burkardt''' earned his PhD in Erlangen, Germany in 1989. His primary research interest is in non-perturbative strong interaction physics and the quark/gluon (=parton) structure of hadrons and nuclei. He is particularly interested in understanding the role of non-perturbative Quantum Chromo Dynamics (QCD) from medium energy to high-energy scattering experiments.
Within this area, the main focus of his recent research has been to better understand what one can actually learn from these experiments and/or related calculations. More specifically, even though mathematical expressions in terms of matrix elements of complicated operators exist to describe the outcome of a certain experiment, the complicated nature of these matrix elements often obscures the intuitive physical interpretation of results from both experiments as well as numerical simulations.
</li>

=== Simonetta Liuti ===
<li style="display: inline-block;">
[[File: simonettaliuti.png|thumb|left|250px| '''Simonetta Liuti: Research Professor, Theoretical Nuclear and Particle Physics at University of Virginia''']]
'''Dr. Simonetta Liuti'''
</li>

=== David Heddle ===
<li style="display: inline-block;">
[[File: davidheddle.png|thumb|left|250px| '''David Heddle: Nuclear physicist/Professor at Christopher Newport University''']]
'''Dr. David Heddle''' received his Ph.D. in physics in 1984 from Carnegie Mellon University under Professor Leonard Kisslinger. His dissertation was in nuclear theory; he calculated hypernuclear decay rates in a quark model. He was a postdoctoral associate at the University of Maryland and a research physicist at the Nuclear Physics Laboratory at the University of Illinois at Urbana-Champaign where he switched his focus from nuclear theory to accelerator physics under the supervision of Larry Cardman. He came to JLab in 1989 through a joint appointment with Christopher Newport University. After some work in accelerator physics at JLab, primarily in designing a Wien Filter for rotating polarized electrons, he joined the Physics Division and Hall B. His contributions in Hall B have been in a variety of software efforts, including visualization, noise finding, and service oriented architecture. From 2011 until May of 2013 he was the chair of the Mathematics Department at CNU.
</li>

=== Krešimir Kumerički ===
<li style="display: inline-block;">
[[File: Kresimir-Kumericki.jpeg|thumb|left|250px| '''Krešimir Kumerički: Associate Professor of Physics at the Faculty of Science University of Zagreb (Department of Physics)''']]
'''Dr. Krešimir Kumerički''' defended his PhD thesis “Rare decays of K mesons” (supervisor Ivica Picek) in 1998. The focus of his research at that time was interplay of electroweak and QCD effects in various decays involving quark flavour change. In the meantime, after longer stay at Universities of Oslo and Regensburg (2005-2006), his interest shifted to studies of quark-gluon structure of nucleon as encoded by so called generalized parton distributions. This offers novel three-dimensional picture of the nucleon structure, studied at many present (CERN, Jlab) and future experimental facilities (electron-ion collider, EIC). He pioneered application of neural networks in these studies. He is also involved in studies of Large Hadron Collider phenomenology of various extensions of Standard model, in particular those that aim for explanation of small neutrino masses. He authored 29 journal papers which are cited more than 600 times (according to inSPIRE).
He was promoted to the rank of Associate Professor of Physics at the University of Zagreb in 2011, has mentored 10 diploma theses and is presently mentoring a PhD thesis. He teaches particle physics at undergraduate and doctoral level.
</li>

== ODU/JLAB ==

=== Charles Hyde ===
<li style="display: inline-block;">
[[File: CHyde.jpg|thumb|left|250px| '''Charles Hyde: Chair, Department of Physics
Eminent Scholar and University Professor of Physics''']]
'''Dr. Charles Hyde''' served as co-spokesperson of seven past (E93-050, E99-114, E00-110, E03-106), present (E07-007, E08-025), and future 12 GeV (E12-06-114) experiments at the Thomas Jefferson National Accelerator Facility in Newport News VA. His Research is in nuclear physics, focussed on the topic of Compton Scattering from the proton. In this process he uses one high energy photon to hit a proton, and with a second photon we take a picture of the wiggling internal structure of the proton. An introduction to this subject for a general audience can be found on his Web Poster on Virtual Compton Scattering.
Presently, he is focussing on creating 3-D images of the quarks and gluons inside the proton and the atomic nucleus by the "Deeply Virtual Compton Scattering" reaction.
A technical summary can be found at http://hallaweb.jlab.org/experiment/DVCS/
He is also active in developing the design and physics motivation for a future Electron-Ion Collider. His research is currently funded by the U.S. Department of Energy Office of Science, the National Science Foundation and Brookhaven National Laboratory
Previous funding includes the French CNRS/IN2P3 and ANR.
</li>

=== Christian Weiss ===
<li style="display: inline-block;">
[[File: small_weiss.jpg|thumb|left|250px| '''Christian Weiss: Senior Staff member at the Thomas Jefferson National Accelerator Facility in Newport News VA''']]
'''Dr. Christian Weiss'''
</li>

=== Gagik Gavalian ===
<li style="display: inline-block;">
[[File: gagik_gavalian.jpg|thumb|left|250px| '''Gagik Gavalian: Staff Scientist at Jefferson Lab and Assistant Professor at Old Dominion University.''']]
'''Dr. Gagik Gavalian''' attended Yerevan State University and graduated in 1996 with a
major in Physics. He obtained his Ph.D. in Nuclear Physics from the University of
New Hampshire in May 2004. Gagik then served as a Post Doctoral Research
Associate at Old Dominion University until 2008. He then assumed the role of
Assistant Professor at Old Dominion until 2014, where he taught introductory
physics and conducted research at Jefferson Lab. Gagik played an instrumental
role in the Hall B data mining efforts leading to multiple publications on studies of
nuclear effects in electron-nucleus scattering. Gagik joined Jefferson Lab as a staff
scientist in 2014 and has been working on preparing the CLAS12 data analysis
packages towards expedient analysis. He also mentors Doctoral candidates and
college students. For past four years Gagik worked on implementing CLAS12
detector reconstruction packages in cloud distributed CLARA framework. CLAS12
detector was successfully commissioned in February 2017 with reconstruction
software successfully tested for full data production. For the past (2017-2018) year
Gagik was leading effort in development of physics analysis software for CLAS12
experimental data.
</li>

CNF:CNF

2020-07-31T15:09:15Z

Chyde: /* Week Aug 3 - Aug 7 */

= SURA CNF19-04 Project =
== Description ==
We propose an interdisciplinary project to leverage advanced computational methods from medical imaging for processing phase-space distributions in nuclear femtography experiments, with the aim to enable next-generation process simulations, data analyses, and physics model comparisons.

A detailed list of results for CNF cases received from JLAB are presented here:
[https://crtc.cs.odu.edu/CNF:Example_Meshes Example Meshes]

== Objectives of SURA CNF19-04 Project==
* (O1) Implement an n-dimensional mesh-based representation of phase space data using tessellation methods and test it in low-dimensional scenarios (n=3)
* (O2) Explore potential physics model comparisons enabled by the new technologies

== Short-term Deliverables (6 months) ==
<li style="display: inline-block;">
[[File: distributionquarks.png|thumb|right|350px| '''Distribution of the probability of quarks' existence based on the change in momentum''']]
# Post-processing of the output of the PARTONS GPD physics model for generation of NRDD/DICOM images and their segmentation (by July 1); -- [DONE]
# Generation of n-dimensional sequence of tessellations for numerical integration (by July 1); -- [DONE]
## software delivered to JLAB, May 2019: [https://crtc.cs.odu.edu/CRTC_I2M CRTC Image to Mesh Conversion Software Suite].
## software developed at JLAB to transform physics observable grids generated by the PARTONS framework to the data format used by ODU provided software.
# Use of Tesselation software gives the ability to view and analyze physics observables in a new way with modern tools. It also allows for fast, efficient Monte-Carlo generation of physics observables for event generation from tessellated objects. Computation of proton structures and physics observables are otherwise very computationally extensive. -- [IN PROGRESS]
## explore the option of generating graded meshes (by September).
# Experiment with 3D Slicer and Paraview open-source imaging and visualization systems to display visual representations of the entire space and/or m-slices, with m < n (by Sept. 30); -- [DONE]
## [http://www.cs.odu.edu/crtc/videos/paraview.html Imaging Demo using Paraview]
## [https://kitware.github.io/paraview-glance/doc/ Paraview Glance]
# Topical workshop including experts in imaging, exascale computing, uncertainty quantification, and nuclear physics to guide further developments (by Sept. 30). -- [DONE]
## Invited visitors and agenda is completed.
## The [https://cepm.cs.odu.edu/CNF_Imaging_Workshop CNF Imaging Workshop] took place on August 19th and 20th at JLab.
# [https://crtc.cs.odu.edu/CNF_Example_Meshes CNF mesh examples]
</li>

= SURA CNF20-001 Project =
== Objectives of SURA CNF20-001 Project==
(O1) Demonstrate that 3-dimensional tessellations can improve speed of basic nuclear femtography operations like Monte Carlo computations using a Nuclear Physics example

(O2) Extend the isotropic tessellations 4 dimensions Images (eg. 4D NRRD images)

(O3) Explore gradation in 4D tessellations using a given metric or sizing function

== Short-term Deliverables (3 months)==

'''August 15'''
* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Convert the output of PARTONS and UVA’s GPD generators into Nearly Raw Raster Data (NRRD) format (Liuiti, Heddle, Chrisochoides). This (ODU) group will be responsible for PARTONS and will assist UVA with GPD generators.
** Co-organize with Dr. Hyde as a chair a virtual workshop around mid-June on "The Integration of Imaging and Visualization in Femtography" (Hyde, Liuiti, Heddle, Chrisochoides)
* fine-tune existing 3D I2M conversion software tool and deliver a new Docker to JLab that enhances I/O and meets new requirements identified in the last six months (Chrisochoides/CS Gard. Student);
* pre-process 4D CNF data and create a 4D synthetic data set for developing the 4D triangulation method (Gavalian/Chrisochoides/Computer Science (CS) Grad. Student);
'''September 30, 2020:'''

* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Tesselation of Compton Form Factors using PARTONS and UVA GPD generators (Hyde, Liuiti, Chrisochoides)
* create 4D triangulation algorithm and code as a prelude to future physics implementations (Chrisochodes/CS Gard. Student);
* 3D-visualization plugins in ParaView of the flavor-dependent Compton form factors (Hyde/Chrisochoides/Physics and CS Gard. Students);
* “smart 3-dimensional lookup table” based on an '''adaptive or graded''' mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Physics Grad. Student);

== September's Workshop content ==
=== (Charles, Mitch) Mathematics/Physics ===
=== (Spiros, Kevin, Nikos) Mesh Generations ===
=== (Mitch, Spiros) Smart Lookup tables ===
=== (Κevin, Spiros) Visualization ===

== Smart look-up tables ==

Objective: “smart 3-dimensional lookup table” based on adaptive mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Physics Grad. Student)

=== Timetable for paper on "smart lookup table" for fast MC simulations ===
# Define Region of Interest (RoI)
## Use NRRD image (done with CNF19-004): might be inefficient, but the definition of RoI is outside the scope of the paper
## Use a cube or closed 3D surface (to be tested, it can be done within a week): very efficient way to define the RoI, as well as it is known.
## use sparse and course set of points in a broader area and slowly converge to the RoI with as many points and their tessellation are required by a given metric.
### need to define a metric (Charles/Mitch): preliminary ideas by mid-August and finalize metric by end of August
# Implement smart lookup table using tessellation generated from (1)
## reproduce Gagik's results
### Mitch: understand the code and write a one-page description (Gagik to supervise the effort): mid of July, report progress in mid-report
### Mitch/Charles define (if there is a need) a new way that might involve UVA's data fitting method: a proposal by end of July.
#define an example problem pertinent to CNF/IEC where "smart lookup table for fast MC simulations''' are the dominant term in the execution time (Charles/Christian/Gagik)
## Putting Things Alltogether (end of August the latest first week of Sept.)
# Finish paper by end of September (All, Charles/Christian will define the skeleton and assign sections to CS and Physic subgroups)

=== Relevant Papers ===
(Note: Spiros will help to maintain links to all papers)
# [https://www.nature.com/articles/s41586-019-0925-9 Nature paper from JLab Nuclear Physics], [https://arxiv.org/pdf/2004.12065.pdf PDF]
# [https://www.sciencedirect.com/science/article/pii/S0021999117300670 Physics motivated example paper on tessellations from Journal of Computational Physics]
# [https://onlinelibrary.wiley.com/doi/abs/10.1002/jcc.21973 Paper relevant to tessellation and Monte Carlo calculations from Journal of Computational Chemistry]

==Weekly Reports==

=== Week May 17 - 22 ===
# (Michell/Spiros) Mitch needs to get the I2M Docker and become familiar with its usage [DONE]
# (All) Get to know the team: Michell (Physics) and the CS students that will be assisting in the API for the tessellation (Spiros) and ParaView for Visualization (Kevin) [DONE]
# (Charles/Michell/Nikos) Setup a proposal for a time table for this aspect of the project it will be fine-tuned and finalized in the first official meeting [DONE]
# (All) Talk about the wiki page we need to set up for our weekly reports [DONE]

=== Week May 25 - 30 ===
# (Spiros) Smooth transition Michell to use CRTC I2M conversion [DONE]
# (Mitch) Comfortable using CRTC's I2M conversion Docker, User Guided, read VTK tessellation file, etc.. [DONE]
# (Kevin) Identify 3D ParaView Plugins that we might need to display results [DONE]
# (Charles) Identify problem(s) to be addressed with the UVA and PARTON models [TODO]
# (Charles/Chistian/Gagik) Examples of target Journals we want to consider for paper submission [DONE]
# (Christos) Slides from 05-22 [https://docs.google.com/presentation/d/1yz8dxVXO82rFCtD9KWjG1PBvvP5VikAxTz07qoM3IqU here] [DONE]

=== Week June 1 - 6 ===
# (Spiros) Add binary IO for output meshes. [DONE]
# (Mitch/Gagik/Spiros) Finish converting PARTONS output data into NRRD format for PODM. [DONE]
# (Kevin) Practice utilizing and applying custom functions on data within Paraview [DONE]
## Examples: [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data Visualization page]
# (Charles) Why use NRRD format if it is optimal to calculate on non-uniform grid?
## (Spiros) because PODM currently supports images that are uniform grids. [DONE]

=== Week June 8 - 12 ===
# (Mitch/Charles) Compute PARTONS points at vertices of simplices,
## Question: Does the tesselation software store the interpolated values at the vertices or the simplex barycentres?
### Vertices [DONE]
## Construct difference of interpolation values at vertices with new computed PARTONS values [DONE]
# (Spiros/Nikos) Explore ways of producing the ith step of adaptive tessellation using Mitch's new values on the (i-1)th tessellation
## (Spiros) By creating Images out of the meshes using interpolation: [DONE]
### [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software]
# (Mitch/Kevin/Charles) Help display Mitch's 3D data using predefined labels, etc..
## Experiment with 2D image of CFF(xi,t) at fixed Q2 vs. 3D image of CFF(xi,t,Q2)
### Linear vs. log axis. [DONE]
### Axis labels: convert (x,y,z), to (xi,t,CFF) or (xi,t,Q2) with color CFF scale [DONE]
### [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data#Other_Options_in_Paraview Instructions Available Here]
## Change PARTONS mesh to equal steps in log(xi) and log(Q2) [DONE]
# (Mitch/Gagik) Reproduce either Reimann or Lebesgue Integral calculations using [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for 2D [DONE]

=== Week June 15 - 19 ===
# (Spiros) Develop a generic interpolation filter for Mitch and write a high-level description (including VTK/ITK kernels used) to assist for future modifications
## [https://odu.app.box.com/folder/115714696781 Code folder] of [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software] [DONE]
## Fomulation of [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] [DONE]
## Compare [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] with [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] of Charles [DONE]
# (Spiros/Mitch) finish up the API for passing data image and vtk data to PARTON and close the loop
## (Spiros) Develop a function that reads and converts an image to a 3D lattice [DONE]
## (Spiros) Develop a function that reads the points and their weights of a tessellation [DONE]
## (Mitch) Close the loop [TODO]
# (Spiros) Convert partons data to nrrd properly, so that they can be visualized with Paraview [DONE]
# (Mitch/Gagik/Spiros) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for “smart lookup table for MC kernel”, produce 3D results and refactor the code:
## (Mitch) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] [DONE]
## (Spiros) Refactor Gagik's code, use VTK library and add comments [DONE]
## '''(Mitch/Gagik) Produce results using 3D tesselations [TODO]'''
# (Charles) in parallel work on a method for "smart lookup table"
## [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] [DONE], corrections, update, expansion in progress
## Compare with [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] and either consolidate the two or end up with two different methods. [TODO]

=== Week June 22 - 26 ===
# (Christian) Summary of CNF projects for 2019/20, [https://docs.google.com/presentation/d/1YuvSjHGvkB0I36gIxla58GxR-H3NtPd01w7ZtARDvuU/edit?usp=sharing CNF Summary Slides] [DONE]:
# (Charles/Gagik) Couple of Slides for use of adaptive tessellation in Monte Carlo and CFF approximation
# (Spiros) Creationg of a 4D Synthetic Image Generator
## HyperSphere (4D Sphere) [DONE]
## HyperCube (4D Cube) [DONE]
# (Mitch/Spiros) Parallelize Partons' code using OpenMP and submit jobs on Turing/Wahab.
## (Spiros) Help Mitch login and view files on Wahab [DONE]
## (Mitch/Spiros) Explore potential to parallelize Partons' code [TODO: Year 2021]
### It looks like requires more effort than our project could afford. It has to be moved as a task for next year.
## (Mitch) Explore potential to execute multiple jobs on Wahab [TODO]
### If this is hard as the item above might need to move for next year.
# (Mitch) Create write-up explanation of Gagiks Monte Carlo code [DONE]
##(Mitch/Spiros) Generalize MC Gagik's 2D code to 3D and consider potential higher dimensions [TODO: Year 2021]
# (Mitch) Re-run PARTONS at mesh points [DONE]
## Plot difference of original mesh to re-evaluated mesh in Paraview: Squared Difference [DONE]
## Plot new values on original tessellation points

=== Week June 29 - July 3 ===
# '''(O1)''' (Mitch/Gagik/Charles) Smart Lookup Table for Monte Carlo
## Compare Tessellation with either |f_a – f_b| metric or |f_a – f_b| / |f_a + f_b|
## First step is to redo PODM tessellation with same algorithm, but pass ln[Im[CFF]] instead of Im[CFF] to PODM
### In anticipation of 4D representations, calculate PARTONS values for full DVCS cross-section:
#### For discussion: Which variables to keep fixed, which variables to display
# '''(O2)''' (Spiros/Nikos) 3D/4D Tesselation for Nuclear Femtography
## Explore a new way to leverage 3D/4D I2M conversion and the new requirements for adaptivity relying on min I/O for PARTONS [Done]
### [https://crtc.cs.odu.edu/Internal:TetGen_CNF CNF Constained Mesher Prototype]
## (Christos/Spiros) Consider PDR worker initialization for initializing PODM and enabling remeshing or an existing mesh. [TODO: Year 2021]
### In the PDR.PODM framework after the initial mesh construction each worker receives a part of the mesh and refines it. During initialization one essentially starts from a serialized version of the mesh (similar to reading a file) and populates internal data structures. After all, is set, PODM works as usual.
### The same initialization method can be used here. Using this approach one can refine an existing mesh while keeping all previous vertex-based information.
### Keeping vertex-based information means than we can get produce adaptive results using just information of the new weights skipping thus the creation of intermediate images.
### As a further (future) step this approach can enable an "always in memory mesh" where the data are always in memory and being accessed by a common API from each component of the pipeline.
# '''(O3)''' (Spiros/Mitch/Charles) Visualization
## (Spiros) Explore a visualization option for 4D tesselations by extracting a 3D "slice" and then use ParaView to display results [TODO]
### Define what a 3D "slice" means in 4D space [TODO]
## (Mitch/Charles) Generate PARTON 4D and a 3D "slice" for these data, for validation of viz. [TODO]
### 4D (unpolarized cross-sections) differential in log(Q2), log(xB), t, phi [TODO]
## (Mitch/Kevin) Explore color palette options for displaying positive and negative values simultaneously [DONE]
# '''(O4)''' Integration with UVA and CNU
## Think about an on-line meeting on Monte Carlo Simulations in Nuclear Femtography?
## What is the status with UVA, are there any changes due to lack of additional funding?

=== Week July 6 - July 10 ===
# (Spiros / Mitch) Adaptivity Metrics
## Using local denominator
### max-min / mean (Not working)
### rms / mean (Not working)
### Note: Local denominators are not working well because of the fact that they perform local normalization which results in uniform gradation, and therefore a uniform mesh
## Using no denominator
### max-min: [https://crtc.cs.odu.edu/CNF:Mesh_Sizing_for_CNF_data#Method Original Method]
### Note: No denominators can work, but for each Image, the weight-limit needs to be tuned based on its weights.
## Using global denominator
### rms / globalMean (an idea which needs tweaking)
#### Note: not bounded
### rms / globalRms (Possibly working)
#### Note: not upper bounded [0, +oo)
### max-min / elementWeightRange
#### Note: bounded [0, 1]
### Note: Global denominators work, and the weight-limit is normalized based on the given image.
## [[CNF:Metric Figures | Metric Figures]]
## Useful Filter: [https://itk.org/Doxygen/html/classitk_1_1StatisticsImageFilter.html StatisticsImageFilter]

=== Week July 13 - July 17 ===
# (Spiros/Mitch/Wirawan) Software Engineering Aspects for [https://crtc.cs.odu.edu/CNF:CNF_Data_Generation CNF Data Generation]
## (Spiros/Mitch) Maintenance and Clarity (re-organized Mitch's code) [DONE]
## (Spiros/Wirawan) Improve End-User Productivity with Distributed Computing of Partons CNF Data Generation [TODO]
# (Spiros/Mitch/Charles) Design of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities]
## (Mitch/Charles) Identify Requirements [TODO]
## (Spiros) Design a library that satisfies the requirements [TODO with a supplement]
# (Spiros) Design of a templated software, [https://crtc.cs.odu.edu/CNF:Monte_Carlo_Event_Generator_using_a_Tessellation Monte Carlo Event Generator using a Tessellation] [TODO with a supplement]
## Re-organize Gagik's 2D code, CMI, templated for 2-3-4 dimensions, improve the complexity of search for given cell weight (from linear to binary) and parallelization using OpenMP
# (Spiros) Sizing function Modifications:
## Change way of calculating value for sampling points
### Old version: assign the value of sampling point using to the closest pixel value
### New version: assign the value of sampling point using interpolation over the image [DONE]
### Reason of change: The problem with the old way of assigning values to the sampling points is that there is a high possibility of 2 or more sampling points having the same assigned value. I think that we can solve this issue by assigning values using interpolation to be sure that every sampling point would have a unique assigned value. This way we would need fewer elements to be able to capture the gradation.
## Change Default max-Edge from Diagonal * 1/10 to Diagonal 2/10 [DONE]
### Reason of change: this way we create larger elements in regions that are not of interest
# (Spiros/Kevin/Mitch) Results:
## (Spiros/Kevin) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img GPDGK16_uH_img] (with new sizing function) [DONE]
### Mitch generated the data the previous week
## (Mitch) Generate a new tesselation with GPDGK16_uH_nxi_210 (with old sizing function) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img_nxi.3D211 GPDGK16_uH_img_nxi=211] [DONE]
# (Mitch/Charles/Spiros)Generate Monte Carlo events of unpolarized DVCS Cross-Section
## Generalize Gagiks monte carlo kernel into 3D or N-Dimensional [DONE]
## Implement "acceptance rejection" algorithm from [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
## [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation]
## Updated Document on Interpolation with Simplices: [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
### Plot in ROOT CFF monte carlo events from tessellation [DONE]
### Generate unpolarized cross-section tessellation (needs to be parallelized ~10min per point) [TODO]
## (Spiros/Mitch) Add needed methods from Spiros's library [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [TODO]
# (Mitch/Charles) Analyze CFF and Cross Section results
## Plot RMS deviation of cell points from CFF mesh
## Plot and fit t dependence of CFF at fixed value of Q2, calculate RMSD of fit, extract fit parameters
# (All) [https://docs.google.com/presentation/d/1z_7XDMlsOUpJg-0yk0kMJmjLJdG4y7wx8bBrc_MMrC0/edit?usp=sharing CNF Adaptivity Pipeline] [DONE] and good progress toward "Smart Lookup Table"[[File:Photo_Mid_Report_July16_2020.png|500px|Photo_Mid_Report_July16_2020.png]]

=== Week July 20 - July 24 ===
# (Spiros) Implementation of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [DONE]
# (Spiros) Interpolate Kevin's CDT3D meshes [https://odu.box.com/s/vpps3wl1k9szx213y95q6sj4mim36sts Box Folder] [DONE]
# (Mitch) Make flow-chart explanation of "smart look-up table" and Monte Carlo code [https://docs.google.com/presentation/d/1KeR3h6ReyzVARX0qnBKaht97GCy0pa-6ruFDkmhoHMU/edit?usp=sharing] [DONE]
## Write driver for point look-up [Done but needs testing]
# (Mitch/Kevin) Generate mesh from PARTONS values generated on the boundaries of phase space volume
# (Mitch/Charles) Compare the different meshes and evaluate the accuracy of the interpolations
## Using barycenter [[Media:CentroidError.png]] [DONE]
# (Mitch/Charles) Change of variables for CFF generation from: ξ-> XBj and t->t' . Reproduce mesh for new variables [DONE]

=== Week July 27 - July 31 ===
# (Spiros) New version of CRTC_I2M docker file and documentation. [DONE]
## The Changes for PODM3D are:
### --min-edge is now a parameter that expresses the percentage of the diagonal that will be used as min-edge. Default 1/ sqrt(3).
### (New parameter) --max-edge is a parameter that expresses the percentage of the diagonal that will be used as max-edge. Default 10.
### (New parameter) --parallel-mesh-results is a flag that computes the mesh results in parallel if more than 1 thread is used.
### (New parameter) --file-format is a parameter that defines the output format BINARY or ASCII. Default binary.
# (Mitch) Generate tessellations in XBj and t' for imaginary and ln(real) parts of CFF using new PODM3D docker
## Plot interpolation error at centroid
# (Mitch) Outline a code to compute DVCS cross section
## Understand/modify the Bethe Heitler CS code
## Work through the dirac algebra

=== Week Aug 3 - Aug 7 ===
# (Charles, Mitch) New sizing function S[f,g]
## f = Im[CFF], g = Re[CFF]
## for each simplex with points '''X'''(''i'') ''i=0,1,2,3,'' and functional values ''f(i), g(i)'' [[File:SizingReIm.png]]
## New variables: Log10(xBj), Sqrt[t']/(0.5 GeV), Log2(Q2)
# (Charles, Mitch) Competition to our Tessellation and Smart Look-up Tables from FOAM structure in root.cern.ch software package
## S. Jadach, Computer Physics Communications v.152, number 1 (2003) p.55 [http://www.sciencedirect.com/science/article/pii/S0010465502007555?via%3Dihub]
## Preprint ArXiv.org: [https://arxiv.org/abs/physics/0203033]

== TODO with a potential supplement ==
# (Spiros) Compile a list of Utilities for pre- and post-processing functions for I2M conversion
## Examples should include: (i) fast search methods, (ii) smart lookup table functionality, etc.
# (All) Identify applications that could benefit from tessellations like nD numerical integration, data preservation, etc..
# (Spiros/Nikos) Explore Christian's request to compute 2D/3D function approximation for square/cube and a given analytic function defined on the square/cube

== TODO Year 2021 ==
# (Spiros/Mitch/Sean (REU)) Help Mitch parallelize Partons' code
# (Spiros) Template [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] to work for N-dimensions
# (Spiros) Develop a 2D/3D/4D Parallel Adaptive Delaunay Mesh Generator, where the input is a set of points

= Restricted Access (available to CNF Imaging Project i.e., CRTC/JLAB only) =
* [https://odu.box.com/s/ce6wc1ht1f96jx7lpafys1ue1piiyekc Shared box directory]
* [https://git-community.cs.odu.edu/crtc/Mesh-Generation/Parallel-Mesh-Generation/podm-superbuild PODM Docker image source files]
* [https://git-community.cs.odu.edu/crtc/websites/podm-documentation CRTC_I2M_Suite website build files]
* Adaptivity
** [[CNF:Mesh Sizing for CNF data]]
** [[CNF:CNF_Adaptivity]]
* [[CNF:Visualization for CNF data]]
* [[CNF:Machine Learning]]

* https://www.jlab.org/indico/event/335/
* [http://www.cs.odu.edu/crtc/videos/PODM3D.html Video of meshing procedure]

CNF:CNF

2020-07-31T15:08:17Z

Chyde: /* Week Aug 3 - Aug 7 */

= SURA CNF19-04 Project =
== Description ==
We propose an interdisciplinary project to leverage advanced computational methods from medical imaging for processing phase-space distributions in nuclear femtography experiments, with the aim to enable next-generation process simulations, data analyses, and physics model comparisons.

A detailed list of results for CNF cases received from JLAB are presented here:
[https://crtc.cs.odu.edu/CNF:Example_Meshes Example Meshes]

== Objectives of SURA CNF19-04 Project==
* (O1) Implement an n-dimensional mesh-based representation of phase space data using tessellation methods and test it in low-dimensional scenarios (n=3)
* (O2) Explore potential physics model comparisons enabled by the new technologies

== Short-term Deliverables (6 months) ==
<li style="display: inline-block;">
[[File: distributionquarks.png|thumb|right|350px| '''Distribution of the probability of quarks' existence based on the change in momentum''']]
# Post-processing of the output of the PARTONS GPD physics model for generation of NRDD/DICOM images and their segmentation (by July 1); -- [DONE]
# Generation of n-dimensional sequence of tessellations for numerical integration (by July 1); -- [DONE]
## software delivered to JLAB, May 2019: [https://crtc.cs.odu.edu/CRTC_I2M CRTC Image to Mesh Conversion Software Suite].
## software developed at JLAB to transform physics observable grids generated by the PARTONS framework to the data format used by ODU provided software.
# Use of Tesselation software gives the ability to view and analyze physics observables in a new way with modern tools. It also allows for fast, efficient Monte-Carlo generation of physics observables for event generation from tessellated objects. Computation of proton structures and physics observables are otherwise very computationally extensive. -- [IN PROGRESS]
## explore the option of generating graded meshes (by September).
# Experiment with 3D Slicer and Paraview open-source imaging and visualization systems to display visual representations of the entire space and/or m-slices, with m < n (by Sept. 30); -- [DONE]
## [http://www.cs.odu.edu/crtc/videos/paraview.html Imaging Demo using Paraview]
## [https://kitware.github.io/paraview-glance/doc/ Paraview Glance]
# Topical workshop including experts in imaging, exascale computing, uncertainty quantification, and nuclear physics to guide further developments (by Sept. 30). -- [DONE]
## Invited visitors and agenda is completed.
## The [https://cepm.cs.odu.edu/CNF_Imaging_Workshop CNF Imaging Workshop] took place on August 19th and 20th at JLab.
# [https://crtc.cs.odu.edu/CNF_Example_Meshes CNF mesh examples]
</li>

= SURA CNF20-001 Project =
== Objectives of SURA CNF20-001 Project==
(O1) Demonstrate that 3-dimensional tessellations can improve speed of basic nuclear femtography operations like Monte Carlo computations using a Nuclear Physics example

(O2) Extend the isotropic tessellations 4 dimensions Images (eg. 4D NRRD images)

(O3) Explore gradation in 4D tessellations using a given metric or sizing function

== Short-term Deliverables (3 months)==

'''August 15'''
* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Convert the output of PARTONS and UVA’s GPD generators into Nearly Raw Raster Data (NRRD) format (Liuiti, Heddle, Chrisochoides). This (ODU) group will be responsible for PARTONS and will assist UVA with GPD generators.
** Co-organize with Dr. Hyde as a chair a virtual workshop around mid-June on "The Integration of Imaging and Visualization in Femtography" (Hyde, Liuiti, Heddle, Chrisochoides)
* fine-tune existing 3D I2M conversion software tool and deliver a new Docker to JLab that enhances I/O and meets new requirements identified in the last six months (Chrisochoides/CS Gard. Student);
* pre-process 4D CNF data and create a 4D synthetic data set for developing the 4D triangulation method (Gavalian/Chrisochoides/Computer Science (CS) Grad. Student);
'''September 30, 2020:'''

* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Tesselation of Compton Form Factors using PARTONS and UVA GPD generators (Hyde, Liuiti, Chrisochoides)
* create 4D triangulation algorithm and code as a prelude to future physics implementations (Chrisochodes/CS Gard. Student);
* 3D-visualization plugins in ParaView of the flavor-dependent Compton form factors (Hyde/Chrisochoides/Physics and CS Gard. Students);
* “smart 3-dimensional lookup table” based on an '''adaptive or graded''' mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Physics Grad. Student);

== September's Workshop content ==
=== (Charles, Mitch) Mathematics/Physics ===
=== (Spiros, Kevin, Nikos) Mesh Generations ===
=== (Mitch, Spiros) Smart Lookup tables ===
=== (Κevin, Spiros) Visualization ===

== Smart look-up tables ==

Objective: “smart 3-dimensional lookup table” based on adaptive mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Physics Grad. Student)

=== Timetable for paper on "smart lookup table" for fast MC simulations ===
# Define Region of Interest (RoI)
## Use NRRD image (done with CNF19-004): might be inefficient, but the definition of RoI is outside the scope of the paper
## Use a cube or closed 3D surface (to be tested, it can be done within a week): very efficient way to define the RoI, as well as it is known.
## use sparse and course set of points in a broader area and slowly converge to the RoI with as many points and their tessellation are required by a given metric.
### need to define a metric (Charles/Mitch): preliminary ideas by mid-August and finalize metric by end of August
# Implement smart lookup table using tessellation generated from (1)
## reproduce Gagik's results
### Mitch: understand the code and write a one-page description (Gagik to supervise the effort): mid of July, report progress in mid-report
### Mitch/Charles define (if there is a need) a new way that might involve UVA's data fitting method: a proposal by end of July.
#define an example problem pertinent to CNF/IEC where "smart lookup table for fast MC simulations''' are the dominant term in the execution time (Charles/Christian/Gagik)
## Putting Things Alltogether (end of August the latest first week of Sept.)
# Finish paper by end of September (All, Charles/Christian will define the skeleton and assign sections to CS and Physic subgroups)

=== Relevant Papers ===
(Note: Spiros will help to maintain links to all papers)
# [https://www.nature.com/articles/s41586-019-0925-9 Nature paper from JLab Nuclear Physics], [https://arxiv.org/pdf/2004.12065.pdf PDF]
# [https://www.sciencedirect.com/science/article/pii/S0021999117300670 Physics motivated example paper on tessellations from Journal of Computational Physics]
# [https://onlinelibrary.wiley.com/doi/abs/10.1002/jcc.21973 Paper relevant to tessellation and Monte Carlo calculations from Journal of Computational Chemistry]

==Weekly Reports==

=== Week May 17 - 22 ===
# (Michell/Spiros) Mitch needs to get the I2M Docker and become familiar with its usage [DONE]
# (All) Get to know the team: Michell (Physics) and the CS students that will be assisting in the API for the tessellation (Spiros) and ParaView for Visualization (Kevin) [DONE]
# (Charles/Michell/Nikos) Setup a proposal for a time table for this aspect of the project it will be fine-tuned and finalized in the first official meeting [DONE]
# (All) Talk about the wiki page we need to set up for our weekly reports [DONE]

=== Week May 25 - 30 ===
# (Spiros) Smooth transition Michell to use CRTC I2M conversion [DONE]
# (Mitch) Comfortable using CRTC's I2M conversion Docker, User Guided, read VTK tessellation file, etc.. [DONE]
# (Kevin) Identify 3D ParaView Plugins that we might need to display results [DONE]
# (Charles) Identify problem(s) to be addressed with the UVA and PARTON models [TODO]
# (Charles/Chistian/Gagik) Examples of target Journals we want to consider for paper submission [DONE]
# (Christos) Slides from 05-22 [https://docs.google.com/presentation/d/1yz8dxVXO82rFCtD9KWjG1PBvvP5VikAxTz07qoM3IqU here] [DONE]

=== Week June 1 - 6 ===
# (Spiros) Add binary IO for output meshes. [DONE]
# (Mitch/Gagik/Spiros) Finish converting PARTONS output data into NRRD format for PODM. [DONE]
# (Kevin) Practice utilizing and applying custom functions on data within Paraview [DONE]
## Examples: [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data Visualization page]
# (Charles) Why use NRRD format if it is optimal to calculate on non-uniform grid?
## (Spiros) because PODM currently supports images that are uniform grids. [DONE]

=== Week June 8 - 12 ===
# (Mitch/Charles) Compute PARTONS points at vertices of simplices,
## Question: Does the tesselation software store the interpolated values at the vertices or the simplex barycentres?
### Vertices [DONE]
## Construct difference of interpolation values at vertices with new computed PARTONS values [DONE]
# (Spiros/Nikos) Explore ways of producing the ith step of adaptive tessellation using Mitch's new values on the (i-1)th tessellation
## (Spiros) By creating Images out of the meshes using interpolation: [DONE]
### [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software]
# (Mitch/Kevin/Charles) Help display Mitch's 3D data using predefined labels, etc..
## Experiment with 2D image of CFF(xi,t) at fixed Q2 vs. 3D image of CFF(xi,t,Q2)
### Linear vs. log axis. [DONE]
### Axis labels: convert (x,y,z), to (xi,t,CFF) or (xi,t,Q2) with color CFF scale [DONE]
### [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data#Other_Options_in_Paraview Instructions Available Here]
## Change PARTONS mesh to equal steps in log(xi) and log(Q2) [DONE]
# (Mitch/Gagik) Reproduce either Reimann or Lebesgue Integral calculations using [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for 2D [DONE]

=== Week June 15 - 19 ===
# (Spiros) Develop a generic interpolation filter for Mitch and write a high-level description (including VTK/ITK kernels used) to assist for future modifications
## [https://odu.app.box.com/folder/115714696781 Code folder] of [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software] [DONE]
## Fomulation of [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] [DONE]
## Compare [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] with [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] of Charles [DONE]
# (Spiros/Mitch) finish up the API for passing data image and vtk data to PARTON and close the loop
## (Spiros) Develop a function that reads and converts an image to a 3D lattice [DONE]
## (Spiros) Develop a function that reads the points and their weights of a tessellation [DONE]
## (Mitch) Close the loop [TODO]
# (Spiros) Convert partons data to nrrd properly, so that they can be visualized with Paraview [DONE]
# (Mitch/Gagik/Spiros) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for “smart lookup table for MC kernel”, produce 3D results and refactor the code:
## (Mitch) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] [DONE]
## (Spiros) Refactor Gagik's code, use VTK library and add comments [DONE]
## '''(Mitch/Gagik) Produce results using 3D tesselations [TODO]'''
# (Charles) in parallel work on a method for "smart lookup table"
## [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] [DONE], corrections, update, expansion in progress
## Compare with [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] and either consolidate the two or end up with two different methods. [TODO]

=== Week June 22 - 26 ===
# (Christian) Summary of CNF projects for 2019/20, [https://docs.google.com/presentation/d/1YuvSjHGvkB0I36gIxla58GxR-H3NtPd01w7ZtARDvuU/edit?usp=sharing CNF Summary Slides] [DONE]:
# (Charles/Gagik) Couple of Slides for use of adaptive tessellation in Monte Carlo and CFF approximation
# (Spiros) Creationg of a 4D Synthetic Image Generator
## HyperSphere (4D Sphere) [DONE]
## HyperCube (4D Cube) [DONE]
# (Mitch/Spiros) Parallelize Partons' code using OpenMP and submit jobs on Turing/Wahab.
## (Spiros) Help Mitch login and view files on Wahab [DONE]
## (Mitch/Spiros) Explore potential to parallelize Partons' code [TODO: Year 2021]
### It looks like requires more effort than our project could afford. It has to be moved as a task for next year.
## (Mitch) Explore potential to execute multiple jobs on Wahab [TODO]
### If this is hard as the item above might need to move for next year.
# (Mitch) Create write-up explanation of Gagiks Monte Carlo code [DONE]
##(Mitch/Spiros) Generalize MC Gagik's 2D code to 3D and consider potential higher dimensions [TODO: Year 2021]
# (Mitch) Re-run PARTONS at mesh points [DONE]
## Plot difference of original mesh to re-evaluated mesh in Paraview: Squared Difference [DONE]
## Plot new values on original tessellation points

=== Week June 29 - July 3 ===
# '''(O1)''' (Mitch/Gagik/Charles) Smart Lookup Table for Monte Carlo
## Compare Tessellation with either |f_a – f_b| metric or |f_a – f_b| / |f_a + f_b|
## First step is to redo PODM tessellation with same algorithm, but pass ln[Im[CFF]] instead of Im[CFF] to PODM
### In anticipation of 4D representations, calculate PARTONS values for full DVCS cross-section:
#### For discussion: Which variables to keep fixed, which variables to display
# '''(O2)''' (Spiros/Nikos) 3D/4D Tesselation for Nuclear Femtography
## Explore a new way to leverage 3D/4D I2M conversion and the new requirements for adaptivity relying on min I/O for PARTONS [Done]
### [https://crtc.cs.odu.edu/Internal:TetGen_CNF CNF Constained Mesher Prototype]
## (Christos/Spiros) Consider PDR worker initialization for initializing PODM and enabling remeshing or an existing mesh. [TODO: Year 2021]
### In the PDR.PODM framework after the initial mesh construction each worker receives a part of the mesh and refines it. During initialization one essentially starts from a serialized version of the mesh (similar to reading a file) and populates internal data structures. After all, is set, PODM works as usual.
### The same initialization method can be used here. Using this approach one can refine an existing mesh while keeping all previous vertex-based information.
### Keeping vertex-based information means than we can get produce adaptive results using just information of the new weights skipping thus the creation of intermediate images.
### As a further (future) step this approach can enable an "always in memory mesh" where the data are always in memory and being accessed by a common API from each component of the pipeline.
# '''(O3)''' (Spiros/Mitch/Charles) Visualization
## (Spiros) Explore a visualization option for 4D tesselations by extracting a 3D "slice" and then use ParaView to display results [TODO]
### Define what a 3D "slice" means in 4D space [TODO]
## (Mitch/Charles) Generate PARTON 4D and a 3D "slice" for these data, for validation of viz. [TODO]
### 4D (unpolarized cross-sections) differential in log(Q2), log(xB), t, phi [TODO]
## (Mitch/Kevin) Explore color palette options for displaying positive and negative values simultaneously [DONE]
# '''(O4)''' Integration with UVA and CNU
## Think about an on-line meeting on Monte Carlo Simulations in Nuclear Femtography?
## What is the status with UVA, are there any changes due to lack of additional funding?

=== Week July 6 - July 10 ===
# (Spiros / Mitch) Adaptivity Metrics
## Using local denominator
### max-min / mean (Not working)
### rms / mean (Not working)
### Note: Local denominators are not working well because of the fact that they perform local normalization which results in uniform gradation, and therefore a uniform mesh
## Using no denominator
### max-min: [https://crtc.cs.odu.edu/CNF:Mesh_Sizing_for_CNF_data#Method Original Method]
### Note: No denominators can work, but for each Image, the weight-limit needs to be tuned based on its weights.
## Using global denominator
### rms / globalMean (an idea which needs tweaking)
#### Note: not bounded
### rms / globalRms (Possibly working)
#### Note: not upper bounded [0, +oo)
### max-min / elementWeightRange
#### Note: bounded [0, 1]
### Note: Global denominators work, and the weight-limit is normalized based on the given image.
## [[CNF:Metric Figures | Metric Figures]]
## Useful Filter: [https://itk.org/Doxygen/html/classitk_1_1StatisticsImageFilter.html StatisticsImageFilter]

=== Week July 13 - July 17 ===
# (Spiros/Mitch/Wirawan) Software Engineering Aspects for [https://crtc.cs.odu.edu/CNF:CNF_Data_Generation CNF Data Generation]
## (Spiros/Mitch) Maintenance and Clarity (re-organized Mitch's code) [DONE]
## (Spiros/Wirawan) Improve End-User Productivity with Distributed Computing of Partons CNF Data Generation [TODO]
# (Spiros/Mitch/Charles) Design of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities]
## (Mitch/Charles) Identify Requirements [TODO]
## (Spiros) Design a library that satisfies the requirements [TODO with a supplement]
# (Spiros) Design of a templated software, [https://crtc.cs.odu.edu/CNF:Monte_Carlo_Event_Generator_using_a_Tessellation Monte Carlo Event Generator using a Tessellation] [TODO with a supplement]
## Re-organize Gagik's 2D code, CMI, templated for 2-3-4 dimensions, improve the complexity of search for given cell weight (from linear to binary) and parallelization using OpenMP
# (Spiros) Sizing function Modifications:
## Change way of calculating value for sampling points
### Old version: assign the value of sampling point using to the closest pixel value
### New version: assign the value of sampling point using interpolation over the image [DONE]
### Reason of change: The problem with the old way of assigning values to the sampling points is that there is a high possibility of 2 or more sampling points having the same assigned value. I think that we can solve this issue by assigning values using interpolation to be sure that every sampling point would have a unique assigned value. This way we would need fewer elements to be able to capture the gradation.
## Change Default max-Edge from Diagonal * 1/10 to Diagonal 2/10 [DONE]
### Reason of change: this way we create larger elements in regions that are not of interest
# (Spiros/Kevin/Mitch) Results:
## (Spiros/Kevin) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img GPDGK16_uH_img] (with new sizing function) [DONE]
### Mitch generated the data the previous week
## (Mitch) Generate a new tesselation with GPDGK16_uH_nxi_210 (with old sizing function) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img_nxi.3D211 GPDGK16_uH_img_nxi=211] [DONE]
# (Mitch/Charles/Spiros)Generate Monte Carlo events of unpolarized DVCS Cross-Section
## Generalize Gagiks monte carlo kernel into 3D or N-Dimensional [DONE]
## Implement "acceptance rejection" algorithm from [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
## [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation]
## Updated Document on Interpolation with Simplices: [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
### Plot in ROOT CFF monte carlo events from tessellation [DONE]
### Generate unpolarized cross-section tessellation (needs to be parallelized ~10min per point) [TODO]
## (Spiros/Mitch) Add needed methods from Spiros's library [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [TODO]
# (Mitch/Charles) Analyze CFF and Cross Section results
## Plot RMS deviation of cell points from CFF mesh
## Plot and fit t dependence of CFF at fixed value of Q2, calculate RMSD of fit, extract fit parameters
# (All) [https://docs.google.com/presentation/d/1z_7XDMlsOUpJg-0yk0kMJmjLJdG4y7wx8bBrc_MMrC0/edit?usp=sharing CNF Adaptivity Pipeline] [DONE] and good progress toward "Smart Lookup Table"[[File:Photo_Mid_Report_July16_2020.png|500px|Photo_Mid_Report_July16_2020.png]]

=== Week July 20 - July 24 ===
# (Spiros) Implementation of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [DONE]
# (Spiros) Interpolate Kevin's CDT3D meshes [https://odu.box.com/s/vpps3wl1k9szx213y95q6sj4mim36sts Box Folder] [DONE]
# (Mitch) Make flow-chart explanation of "smart look-up table" and Monte Carlo code [https://docs.google.com/presentation/d/1KeR3h6ReyzVARX0qnBKaht97GCy0pa-6ruFDkmhoHMU/edit?usp=sharing] [DONE]
## Write driver for point look-up [Done but needs testing]
# (Mitch/Kevin) Generate mesh from PARTONS values generated on the boundaries of phase space volume
# (Mitch/Charles) Compare the different meshes and evaluate the accuracy of the interpolations
## Using barycenter [[Media:CentroidError.png]] [DONE]
# (Mitch/Charles) Change of variables for CFF generation from: ξ-> XBj and t->t' . Reproduce mesh for new variables [DONE]

=== Week July 27 - July 31 ===
# (Spiros) New version of CRTC_I2M docker file and documentation. [DONE]
## The Changes for PODM3D are:
### --min-edge is now a parameter that expresses the percentage of the diagonal that will be used as min-edge. Default 1/ sqrt(3).
### (New parameter) --max-edge is a parameter that expresses the percentage of the diagonal that will be used as max-edge. Default 10.
### (New parameter) --parallel-mesh-results is a flag that computes the mesh results in parallel if more than 1 thread is used.
### (New parameter) --file-format is a parameter that defines the output format BINARY or ASCII. Default binary.
# (Mitch) Generate tessellations in XBj and t' for imaginary and ln(real) parts of CFF using new PODM3D docker
## Plot interpolation error at centroid
# (Mitch) Outline a code to compute DVCS cross section
## Understand/modify the Bethe Heitler CS code
## Work through the dirac algebra

=== Week Aug 3 - Aug 7 ===
# (Charles, Mitch) New sizing function S[f,g]
## f = Im[CFF], g = Re[CFF]
## for each simplex with points '''X'''(''i'') ''i=0,1,2,3,'' and functional values ''f(i), g(i)''
[[File:SizingReIm.png]]
## New variables: Log10(xBj), Sqrt[t']/(0.5 GeV), Log2(Q2)
# (Charles, Mitch) Competition to our Tessellation and Smart Look-up Tables from FOAM structure in root.cern.ch software package
:: S. Jadach, Computer Physics Communications v.152, number 1 (2003) p.55 [http://www.sciencedirect.com/science/article/pii/S0010465502007555?via%3Dihub]
:: Preprint ArXiv.org: [https://arxiv.org/abs/physics/0203033]

== TODO with a potential supplement ==
# (Spiros) Compile a list of Utilities for pre- and post-processing functions for I2M conversion
## Examples should include: (i) fast search methods, (ii) smart lookup table functionality, etc.
# (All) Identify applications that could benefit from tessellations like nD numerical integration, data preservation, etc..
# (Spiros/Nikos) Explore Christian's request to compute 2D/3D function approximation for square/cube and a given analytic function defined on the square/cube

== TODO Year 2021 ==
# (Spiros/Mitch/Sean (REU)) Help Mitch parallelize Partons' code
# (Spiros) Template [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] to work for N-dimensions
# (Spiros) Develop a 2D/3D/4D Parallel Adaptive Delaunay Mesh Generator, where the input is a set of points

= Restricted Access (available to CNF Imaging Project i.e., CRTC/JLAB only) =
* [https://odu.box.com/s/ce6wc1ht1f96jx7lpafys1ue1piiyekc Shared box directory]
* [https://git-community.cs.odu.edu/crtc/Mesh-Generation/Parallel-Mesh-Generation/podm-superbuild PODM Docker image source files]
* [https://git-community.cs.odu.edu/crtc/websites/podm-documentation CRTC_I2M_Suite website build files]
* Adaptivity
** [[CNF:Mesh Sizing for CNF data]]
** [[CNF:CNF_Adaptivity]]
* [[CNF:Visualization for CNF data]]
* [[CNF:Machine Learning]]

* https://www.jlab.org/indico/event/335/
* [http://www.cs.odu.edu/crtc/videos/PODM3D.html Video of meshing procedure]

CNF:CNF

2020-07-31T15:07:40Z

Chyde: /* Week Aug 3 - Aug 7 */

= SURA CNF19-04 Project =
== Description ==
We propose an interdisciplinary project to leverage advanced computational methods from medical imaging for processing phase-space distributions in nuclear femtography experiments, with the aim to enable next-generation process simulations, data analyses, and physics model comparisons.

A detailed list of results for CNF cases received from JLAB are presented here:
[https://crtc.cs.odu.edu/CNF:Example_Meshes Example Meshes]

== Objectives of SURA CNF19-04 Project==
* (O1) Implement an n-dimensional mesh-based representation of phase space data using tessellation methods and test it in low-dimensional scenarios (n=3)
* (O2) Explore potential physics model comparisons enabled by the new technologies

== Short-term Deliverables (6 months) ==
<li style="display: inline-block;">
[[File: distributionquarks.png|thumb|right|350px| '''Distribution of the probability of quarks' existence based on the change in momentum''']]
# Post-processing of the output of the PARTONS GPD physics model for generation of NRDD/DICOM images and their segmentation (by July 1); -- [DONE]
# Generation of n-dimensional sequence of tessellations for numerical integration (by July 1); -- [DONE]
## software delivered to JLAB, May 2019: [https://crtc.cs.odu.edu/CRTC_I2M CRTC Image to Mesh Conversion Software Suite].
## software developed at JLAB to transform physics observable grids generated by the PARTONS framework to the data format used by ODU provided software.
# Use of Tesselation software gives the ability to view and analyze physics observables in a new way with modern tools. It also allows for fast, efficient Monte-Carlo generation of physics observables for event generation from tessellated objects. Computation of proton structures and physics observables are otherwise very computationally extensive. -- [IN PROGRESS]
## explore the option of generating graded meshes (by September).
# Experiment with 3D Slicer and Paraview open-source imaging and visualization systems to display visual representations of the entire space and/or m-slices, with m < n (by Sept. 30); -- [DONE]
## [http://www.cs.odu.edu/crtc/videos/paraview.html Imaging Demo using Paraview]
## [https://kitware.github.io/paraview-glance/doc/ Paraview Glance]
# Topical workshop including experts in imaging, exascale computing, uncertainty quantification, and nuclear physics to guide further developments (by Sept. 30). -- [DONE]
## Invited visitors and agenda is completed.
## The [https://cepm.cs.odu.edu/CNF_Imaging_Workshop CNF Imaging Workshop] took place on August 19th and 20th at JLab.
# [https://crtc.cs.odu.edu/CNF_Example_Meshes CNF mesh examples]
</li>

= SURA CNF20-001 Project =
== Objectives of SURA CNF20-001 Project==
(O1) Demonstrate that 3-dimensional tessellations can improve speed of basic nuclear femtography operations like Monte Carlo computations using a Nuclear Physics example

(O2) Extend the isotropic tessellations 4 dimensions Images (eg. 4D NRRD images)

(O3) Explore gradation in 4D tessellations using a given metric or sizing function

== Short-term Deliverables (3 months)==

'''August 15'''
* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Convert the output of PARTONS and UVA’s GPD generators into Nearly Raw Raster Data (NRRD) format (Liuiti, Heddle, Chrisochoides). This (ODU) group will be responsible for PARTONS and will assist UVA with GPD generators.
** Co-organize with Dr. Hyde as a chair a virtual workshop around mid-June on "The Integration of Imaging and Visualization in Femtography" (Hyde, Liuiti, Heddle, Chrisochoides)
* fine-tune existing 3D I2M conversion software tool and deliver a new Docker to JLab that enhances I/O and meets new requirements identified in the last six months (Chrisochoides/CS Gard. Student);
* pre-process 4D CNF data and create a 4D synthetic data set for developing the 4D triangulation method (Gavalian/Chrisochoides/Computer Science (CS) Grad. Student);
'''September 30, 2020:'''

* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Tesselation of Compton Form Factors using PARTONS and UVA GPD generators (Hyde, Liuiti, Chrisochoides)
* create 4D triangulation algorithm and code as a prelude to future physics implementations (Chrisochodes/CS Gard. Student);
* 3D-visualization plugins in ParaView of the flavor-dependent Compton form factors (Hyde/Chrisochoides/Physics and CS Gard. Students);
* “smart 3-dimensional lookup table” based on an '''adaptive or graded''' mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Physics Grad. Student);

== September's Workshop content ==
=== (Charles, Mitch) Mathematics/Physics ===
=== (Spiros, Kevin, Nikos) Mesh Generations ===
=== (Mitch, Spiros) Smart Lookup tables ===
=== (Κevin, Spiros) Visualization ===

== Smart look-up tables ==

Objective: “smart 3-dimensional lookup table” based on adaptive mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Physics Grad. Student)

=== Timetable for paper on "smart lookup table" for fast MC simulations ===
# Define Region of Interest (RoI)
## Use NRRD image (done with CNF19-004): might be inefficient, but the definition of RoI is outside the scope of the paper
## Use a cube or closed 3D surface (to be tested, it can be done within a week): very efficient way to define the RoI, as well as it is known.
## use sparse and course set of points in a broader area and slowly converge to the RoI with as many points and their tessellation are required by a given metric.
### need to define a metric (Charles/Mitch): preliminary ideas by mid-August and finalize metric by end of August
# Implement smart lookup table using tessellation generated from (1)
## reproduce Gagik's results
### Mitch: understand the code and write a one-page description (Gagik to supervise the effort): mid of July, report progress in mid-report
### Mitch/Charles define (if there is a need) a new way that might involve UVA's data fitting method: a proposal by end of July.
#define an example problem pertinent to CNF/IEC where "smart lookup table for fast MC simulations''' are the dominant term in the execution time (Charles/Christian/Gagik)
## Putting Things Alltogether (end of August the latest first week of Sept.)
# Finish paper by end of September (All, Charles/Christian will define the skeleton and assign sections to CS and Physic subgroups)

=== Relevant Papers ===
(Note: Spiros will help to maintain links to all papers)
# [https://www.nature.com/articles/s41586-019-0925-9 Nature paper from JLab Nuclear Physics], [https://arxiv.org/pdf/2004.12065.pdf PDF]
# [https://www.sciencedirect.com/science/article/pii/S0021999117300670 Physics motivated example paper on tessellations from Journal of Computational Physics]
# [https://onlinelibrary.wiley.com/doi/abs/10.1002/jcc.21973 Paper relevant to tessellation and Monte Carlo calculations from Journal of Computational Chemistry]

==Weekly Reports==

=== Week May 17 - 22 ===
# (Michell/Spiros) Mitch needs to get the I2M Docker and become familiar with its usage [DONE]
# (All) Get to know the team: Michell (Physics) and the CS students that will be assisting in the API for the tessellation (Spiros) and ParaView for Visualization (Kevin) [DONE]
# (Charles/Michell/Nikos) Setup a proposal for a time table for this aspect of the project it will be fine-tuned and finalized in the first official meeting [DONE]
# (All) Talk about the wiki page we need to set up for our weekly reports [DONE]

=== Week May 25 - 30 ===
# (Spiros) Smooth transition Michell to use CRTC I2M conversion [DONE]
# (Mitch) Comfortable using CRTC's I2M conversion Docker, User Guided, read VTK tessellation file, etc.. [DONE]
# (Kevin) Identify 3D ParaView Plugins that we might need to display results [DONE]
# (Charles) Identify problem(s) to be addressed with the UVA and PARTON models [TODO]
# (Charles/Chistian/Gagik) Examples of target Journals we want to consider for paper submission [DONE]
# (Christos) Slides from 05-22 [https://docs.google.com/presentation/d/1yz8dxVXO82rFCtD9KWjG1PBvvP5VikAxTz07qoM3IqU here] [DONE]

=== Week June 1 - 6 ===
# (Spiros) Add binary IO for output meshes. [DONE]
# (Mitch/Gagik/Spiros) Finish converting PARTONS output data into NRRD format for PODM. [DONE]
# (Kevin) Practice utilizing and applying custom functions on data within Paraview [DONE]
## Examples: [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data Visualization page]
# (Charles) Why use NRRD format if it is optimal to calculate on non-uniform grid?
## (Spiros) because PODM currently supports images that are uniform grids. [DONE]

=== Week June 8 - 12 ===
# (Mitch/Charles) Compute PARTONS points at vertices of simplices,
## Question: Does the tesselation software store the interpolated values at the vertices or the simplex barycentres?
### Vertices [DONE]
## Construct difference of interpolation values at vertices with new computed PARTONS values [DONE]
# (Spiros/Nikos) Explore ways of producing the ith step of adaptive tessellation using Mitch's new values on the (i-1)th tessellation
## (Spiros) By creating Images out of the meshes using interpolation: [DONE]
### [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software]
# (Mitch/Kevin/Charles) Help display Mitch's 3D data using predefined labels, etc..
## Experiment with 2D image of CFF(xi,t) at fixed Q2 vs. 3D image of CFF(xi,t,Q2)
### Linear vs. log axis. [DONE]
### Axis labels: convert (x,y,z), to (xi,t,CFF) or (xi,t,Q2) with color CFF scale [DONE]
### [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data#Other_Options_in_Paraview Instructions Available Here]
## Change PARTONS mesh to equal steps in log(xi) and log(Q2) [DONE]
# (Mitch/Gagik) Reproduce either Reimann or Lebesgue Integral calculations using [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for 2D [DONE]

=== Week June 15 - 19 ===
# (Spiros) Develop a generic interpolation filter for Mitch and write a high-level description (including VTK/ITK kernels used) to assist for future modifications
## [https://odu.app.box.com/folder/115714696781 Code folder] of [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software] [DONE]
## Fomulation of [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] [DONE]
## Compare [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] with [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] of Charles [DONE]
# (Spiros/Mitch) finish up the API for passing data image and vtk data to PARTON and close the loop
## (Spiros) Develop a function that reads and converts an image to a 3D lattice [DONE]
## (Spiros) Develop a function that reads the points and their weights of a tessellation [DONE]
## (Mitch) Close the loop [TODO]
# (Spiros) Convert partons data to nrrd properly, so that they can be visualized with Paraview [DONE]
# (Mitch/Gagik/Spiros) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for “smart lookup table for MC kernel”, produce 3D results and refactor the code:
## (Mitch) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] [DONE]
## (Spiros) Refactor Gagik's code, use VTK library and add comments [DONE]
## '''(Mitch/Gagik) Produce results using 3D tesselations [TODO]'''
# (Charles) in parallel work on a method for "smart lookup table"
## [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] [DONE], corrections, update, expansion in progress
## Compare with [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] and either consolidate the two or end up with two different methods. [TODO]

=== Week June 22 - 26 ===
# (Christian) Summary of CNF projects for 2019/20, [https://docs.google.com/presentation/d/1YuvSjHGvkB0I36gIxla58GxR-H3NtPd01w7ZtARDvuU/edit?usp=sharing CNF Summary Slides] [DONE]:
# (Charles/Gagik) Couple of Slides for use of adaptive tessellation in Monte Carlo and CFF approximation
# (Spiros) Creationg of a 4D Synthetic Image Generator
## HyperSphere (4D Sphere) [DONE]
## HyperCube (4D Cube) [DONE]
# (Mitch/Spiros) Parallelize Partons' code using OpenMP and submit jobs on Turing/Wahab.
## (Spiros) Help Mitch login and view files on Wahab [DONE]
## (Mitch/Spiros) Explore potential to parallelize Partons' code [TODO: Year 2021]
### It looks like requires more effort than our project could afford. It has to be moved as a task for next year.
## (Mitch) Explore potential to execute multiple jobs on Wahab [TODO]
### If this is hard as the item above might need to move for next year.
# (Mitch) Create write-up explanation of Gagiks Monte Carlo code [DONE]
##(Mitch/Spiros) Generalize MC Gagik's 2D code to 3D and consider potential higher dimensions [TODO: Year 2021]
# (Mitch) Re-run PARTONS at mesh points [DONE]
## Plot difference of original mesh to re-evaluated mesh in Paraview: Squared Difference [DONE]
## Plot new values on original tessellation points

=== Week June 29 - July 3 ===
# '''(O1)''' (Mitch/Gagik/Charles) Smart Lookup Table for Monte Carlo
## Compare Tessellation with either |f_a – f_b| metric or |f_a – f_b| / |f_a + f_b|
## First step is to redo PODM tessellation with same algorithm, but pass ln[Im[CFF]] instead of Im[CFF] to PODM
### In anticipation of 4D representations, calculate PARTONS values for full DVCS cross-section:
#### For discussion: Which variables to keep fixed, which variables to display
# '''(O2)''' (Spiros/Nikos) 3D/4D Tesselation for Nuclear Femtography
## Explore a new way to leverage 3D/4D I2M conversion and the new requirements for adaptivity relying on min I/O for PARTONS [Done]
### [https://crtc.cs.odu.edu/Internal:TetGen_CNF CNF Constained Mesher Prototype]
## (Christos/Spiros) Consider PDR worker initialization for initializing PODM and enabling remeshing or an existing mesh. [TODO: Year 2021]
### In the PDR.PODM framework after the initial mesh construction each worker receives a part of the mesh and refines it. During initialization one essentially starts from a serialized version of the mesh (similar to reading a file) and populates internal data structures. After all, is set, PODM works as usual.
### The same initialization method can be used here. Using this approach one can refine an existing mesh while keeping all previous vertex-based information.
### Keeping vertex-based information means than we can get produce adaptive results using just information of the new weights skipping thus the creation of intermediate images.
### As a further (future) step this approach can enable an "always in memory mesh" where the data are always in memory and being accessed by a common API from each component of the pipeline.
# '''(O3)''' (Spiros/Mitch/Charles) Visualization
## (Spiros) Explore a visualization option for 4D tesselations by extracting a 3D "slice" and then use ParaView to display results [TODO]
### Define what a 3D "slice" means in 4D space [TODO]
## (Mitch/Charles) Generate PARTON 4D and a 3D "slice" for these data, for validation of viz. [TODO]
### 4D (unpolarized cross-sections) differential in log(Q2), log(xB), t, phi [TODO]
## (Mitch/Kevin) Explore color palette options for displaying positive and negative values simultaneously [DONE]
# '''(O4)''' Integration with UVA and CNU
## Think about an on-line meeting on Monte Carlo Simulations in Nuclear Femtography?
## What is the status with UVA, are there any changes due to lack of additional funding?

=== Week July 6 - July 10 ===
# (Spiros / Mitch) Adaptivity Metrics
## Using local denominator
### max-min / mean (Not working)
### rms / mean (Not working)
### Note: Local denominators are not working well because of the fact that they perform local normalization which results in uniform gradation, and therefore a uniform mesh
## Using no denominator
### max-min: [https://crtc.cs.odu.edu/CNF:Mesh_Sizing_for_CNF_data#Method Original Method]
### Note: No denominators can work, but for each Image, the weight-limit needs to be tuned based on its weights.
## Using global denominator
### rms / globalMean (an idea which needs tweaking)
#### Note: not bounded
### rms / globalRms (Possibly working)
#### Note: not upper bounded [0, +oo)
### max-min / elementWeightRange
#### Note: bounded [0, 1]
### Note: Global denominators work, and the weight-limit is normalized based on the given image.
## [[CNF:Metric Figures | Metric Figures]]
## Useful Filter: [https://itk.org/Doxygen/html/classitk_1_1StatisticsImageFilter.html StatisticsImageFilter]

=== Week July 13 - July 17 ===
# (Spiros/Mitch/Wirawan) Software Engineering Aspects for [https://crtc.cs.odu.edu/CNF:CNF_Data_Generation CNF Data Generation]
## (Spiros/Mitch) Maintenance and Clarity (re-organized Mitch's code) [DONE]
## (Spiros/Wirawan) Improve End-User Productivity with Distributed Computing of Partons CNF Data Generation [TODO]
# (Spiros/Mitch/Charles) Design of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities]
## (Mitch/Charles) Identify Requirements [TODO]
## (Spiros) Design a library that satisfies the requirements [TODO with a supplement]
# (Spiros) Design of a templated software, [https://crtc.cs.odu.edu/CNF:Monte_Carlo_Event_Generator_using_a_Tessellation Monte Carlo Event Generator using a Tessellation] [TODO with a supplement]
## Re-organize Gagik's 2D code, CMI, templated for 2-3-4 dimensions, improve the complexity of search for given cell weight (from linear to binary) and parallelization using OpenMP
# (Spiros) Sizing function Modifications:
## Change way of calculating value for sampling points
### Old version: assign the value of sampling point using to the closest pixel value
### New version: assign the value of sampling point using interpolation over the image [DONE]
### Reason of change: The problem with the old way of assigning values to the sampling points is that there is a high possibility of 2 or more sampling points having the same assigned value. I think that we can solve this issue by assigning values using interpolation to be sure that every sampling point would have a unique assigned value. This way we would need fewer elements to be able to capture the gradation.
## Change Default max-Edge from Diagonal * 1/10 to Diagonal 2/10 [DONE]
### Reason of change: this way we create larger elements in regions that are not of interest
# (Spiros/Kevin/Mitch) Results:
## (Spiros/Kevin) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img GPDGK16_uH_img] (with new sizing function) [DONE]
### Mitch generated the data the previous week
## (Mitch) Generate a new tesselation with GPDGK16_uH_nxi_210 (with old sizing function) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img_nxi.3D211 GPDGK16_uH_img_nxi=211] [DONE]
# (Mitch/Charles/Spiros)Generate Monte Carlo events of unpolarized DVCS Cross-Section
## Generalize Gagiks monte carlo kernel into 3D or N-Dimensional [DONE]
## Implement "acceptance rejection" algorithm from [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
## [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation]
## Updated Document on Interpolation with Simplices: [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
### Plot in ROOT CFF monte carlo events from tessellation [DONE]
### Generate unpolarized cross-section tessellation (needs to be parallelized ~10min per point) [TODO]
## (Spiros/Mitch) Add needed methods from Spiros's library [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [TODO]
# (Mitch/Charles) Analyze CFF and Cross Section results
## Plot RMS deviation of cell points from CFF mesh
## Plot and fit t dependence of CFF at fixed value of Q2, calculate RMSD of fit, extract fit parameters
# (All) [https://docs.google.com/presentation/d/1z_7XDMlsOUpJg-0yk0kMJmjLJdG4y7wx8bBrc_MMrC0/edit?usp=sharing CNF Adaptivity Pipeline] [DONE] and good progress toward "Smart Lookup Table"[[File:Photo_Mid_Report_July16_2020.png|500px|Photo_Mid_Report_July16_2020.png]]

=== Week July 20 - July 24 ===
# (Spiros) Implementation of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [DONE]
# (Spiros) Interpolate Kevin's CDT3D meshes [https://odu.box.com/s/vpps3wl1k9szx213y95q6sj4mim36sts Box Folder] [DONE]
# (Mitch) Make flow-chart explanation of "smart look-up table" and Monte Carlo code [https://docs.google.com/presentation/d/1KeR3h6ReyzVARX0qnBKaht97GCy0pa-6ruFDkmhoHMU/edit?usp=sharing] [DONE]
## Write driver for point look-up [Done but needs testing]
# (Mitch/Kevin) Generate mesh from PARTONS values generated on the boundaries of phase space volume
# (Mitch/Charles) Compare the different meshes and evaluate the accuracy of the interpolations
## Using barycenter [[Media:CentroidError.png]] [DONE]
# (Mitch/Charles) Change of variables for CFF generation from: ξ-> XBj and t->t' . Reproduce mesh for new variables [DONE]

=== Week July 27 - July 31 ===
# (Spiros) New version of CRTC_I2M docker file and documentation. [DONE]
## The Changes for PODM3D are:
### --min-edge is now a parameter that expresses the percentage of the diagonal that will be used as min-edge. Default 1/ sqrt(3).
### (New parameter) --max-edge is a parameter that expresses the percentage of the diagonal that will be used as max-edge. Default 10.
### (New parameter) --parallel-mesh-results is a flag that computes the mesh results in parallel if more than 1 thread is used.
### (New parameter) --file-format is a parameter that defines the output format BINARY or ASCII. Default binary.
# (Mitch) Generate tessellations in XBj and t' for imaginary and ln(real) parts of CFF using new PODM3D docker
## Plot interpolation error at centroid
# (Mitch) Outline a code to compute DVCS cross section
## Understand/modify the Bethe Heitler CS code
## Work through the dirac algebra

=== Week Aug 3 - Aug 7 ===
# (Charles, Mitch) New sizing function S[f,g]
## f = Im[CFF], g = Re[CFF]
## for each simplex with points '''X'''(''i'') ''i=0,1,2,3,'' and functional values ''f(i), g(i)''
::::: [[File:SizingReIm.png]]
## New variables: Log10(xBj), Sqrt[t']/(0.5 GeV), Log2(Q2)
# (Charles, Mitch) Competition to our Tessellation and Smart Look-up Tables from FOAM structure in root.cern.ch software package
:: S. Jadach, Computer Physics Communications v.152, number 1 (2003) p.55 [http://www.sciencedirect.com/science/article/pii/S0010465502007555?via%3Dihub]
:: Preprint ArXiv.org: [https://arxiv.org/abs/physics/0203033]

== TODO with a potential supplement ==
# (Spiros) Compile a list of Utilities for pre- and post-processing functions for I2M conversion
## Examples should include: (i) fast search methods, (ii) smart lookup table functionality, etc.
# (All) Identify applications that could benefit from tessellations like nD numerical integration, data preservation, etc..
# (Spiros/Nikos) Explore Christian's request to compute 2D/3D function approximation for square/cube and a given analytic function defined on the square/cube

== TODO Year 2021 ==
# (Spiros/Mitch/Sean (REU)) Help Mitch parallelize Partons' code
# (Spiros) Template [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] to work for N-dimensions
# (Spiros) Develop a 2D/3D/4D Parallel Adaptive Delaunay Mesh Generator, where the input is a set of points

= Restricted Access (available to CNF Imaging Project i.e., CRTC/JLAB only) =
* [https://odu.box.com/s/ce6wc1ht1f96jx7lpafys1ue1piiyekc Shared box directory]
* [https://git-community.cs.odu.edu/crtc/Mesh-Generation/Parallel-Mesh-Generation/podm-superbuild PODM Docker image source files]
* [https://git-community.cs.odu.edu/crtc/websites/podm-documentation CRTC_I2M_Suite website build files]
* Adaptivity
** [[CNF:Mesh Sizing for CNF data]]
** [[CNF:CNF_Adaptivity]]
* [[CNF:Visualization for CNF data]]
* [[CNF:Machine Learning]]

* https://www.jlab.org/indico/event/335/
* [http://www.cs.odu.edu/crtc/videos/PODM3D.html Video of meshing procedure]

CNF:CNF

2020-07-31T15:05:11Z

Chyde: /* Week Aug 3 - Aug 7 */

= SURA CNF19-04 Project =
== Description ==
We propose an interdisciplinary project to leverage advanced computational methods from medical imaging for processing phase-space distributions in nuclear femtography experiments, with the aim to enable next-generation process simulations, data analyses, and physics model comparisons.

A detailed list of results for CNF cases received from JLAB are presented here:
[https://crtc.cs.odu.edu/CNF:Example_Meshes Example Meshes]

== Objectives of SURA CNF19-04 Project==
* (O1) Implement an n-dimensional mesh-based representation of phase space data using tessellation methods and test it in low-dimensional scenarios (n=3)
* (O2) Explore potential physics model comparisons enabled by the new technologies

== Short-term Deliverables (6 months) ==
<li style="display: inline-block;">
[[File: distributionquarks.png|thumb|right|350px| '''Distribution of the probability of quarks' existence based on the change in momentum''']]
# Post-processing of the output of the PARTONS GPD physics model for generation of NRDD/DICOM images and their segmentation (by July 1); -- [DONE]
# Generation of n-dimensional sequence of tessellations for numerical integration (by July 1); -- [DONE]
## software delivered to JLAB, May 2019: [https://crtc.cs.odu.edu/CRTC_I2M CRTC Image to Mesh Conversion Software Suite].
## software developed at JLAB to transform physics observable grids generated by the PARTONS framework to the data format used by ODU provided software.
# Use of Tesselation software gives the ability to view and analyze physics observables in a new way with modern tools. It also allows for fast, efficient Monte-Carlo generation of physics observables for event generation from tessellated objects. Computation of proton structures and physics observables are otherwise very computationally extensive. -- [IN PROGRESS]
## explore the option of generating graded meshes (by September).
# Experiment with 3D Slicer and Paraview open-source imaging and visualization systems to display visual representations of the entire space and/or m-slices, with m < n (by Sept. 30); -- [DONE]
## [http://www.cs.odu.edu/crtc/videos/paraview.html Imaging Demo using Paraview]
## [https://kitware.github.io/paraview-glance/doc/ Paraview Glance]
# Topical workshop including experts in imaging, exascale computing, uncertainty quantification, and nuclear physics to guide further developments (by Sept. 30). -- [DONE]
## Invited visitors and agenda is completed.
## The [https://cepm.cs.odu.edu/CNF_Imaging_Workshop CNF Imaging Workshop] took place on August 19th and 20th at JLab.
# [https://crtc.cs.odu.edu/CNF_Example_Meshes CNF mesh examples]
</li>

= SURA CNF20-001 Project =
== Objectives of SURA CNF20-001 Project==
(O1) Demonstrate that 3-dimensional tessellations can improve speed of basic nuclear femtography operations like Monte Carlo computations using a Nuclear Physics example

(O2) Extend the isotropic tessellations 4 dimensions Images (eg. 4D NRRD images)

(O3) Explore gradation in 4D tessellations using a given metric or sizing function

== Short-term Deliverables (3 months)==

'''August 15'''
* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Convert the output of PARTONS and UVA’s GPD generators into Nearly Raw Raster Data (NRRD) format (Liuiti, Heddle, Chrisochoides). This (ODU) group will be responsible for PARTONS and will assist UVA with GPD generators.
** Co-organize with Dr. Hyde as a chair a virtual workshop around mid-June on "The Integration of Imaging and Visualization in Femtography" (Hyde, Liuiti, Heddle, Chrisochoides)
* fine-tune existing 3D I2M conversion software tool and deliver a new Docker to JLab that enhances I/O and meets new requirements identified in the last six months (Chrisochoides/CS Gard. Student);
* pre-process 4D CNF data and create a 4D synthetic data set for developing the 4D triangulation method (Gavalian/Chrisochoides/Computer Science (CS) Grad. Student);
'''September 30, 2020:'''

* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Tesselation of Compton Form Factors using PARTONS and UVA GPD generators (Hyde, Liuiti, Chrisochoides)
* create 4D triangulation algorithm and code as a prelude to future physics implementations (Chrisochodes/CS Gard. Student);
* 3D-visualization plugins in ParaView of the flavor-dependent Compton form factors (Hyde/Chrisochoides/Physics and CS Gard. Students);
* “smart 3-dimensional lookup table” based on an '''adaptive or graded''' mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Physics Grad. Student);

== September's Workshop content ==
=== (Charles, Mitch) Mathematics/Physics ===
=== (Spiros, Kevin, Nikos) Mesh Generations ===
=== (Mitch, Spiros) Smart Lookup tables ===
=== (Κevin, Spiros) Visualization ===

== Smart look-up tables ==

Objective: “smart 3-dimensional lookup table” based on adaptive mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Physics Grad. Student)

=== Timetable for paper on "smart lookup table" for fast MC simulations ===
# Define Region of Interest (RoI)
## Use NRRD image (done with CNF19-004): might be inefficient, but the definition of RoI is outside the scope of the paper
## Use a cube or closed 3D surface (to be tested, it can be done within a week): very efficient way to define the RoI, as well as it is known.
## use sparse and course set of points in a broader area and slowly converge to the RoI with as many points and their tessellation are required by a given metric.
### need to define a metric (Charles/Mitch): preliminary ideas by mid-August and finalize metric by end of August
# Implement smart lookup table using tessellation generated from (1)
## reproduce Gagik's results
### Mitch: understand the code and write a one-page description (Gagik to supervise the effort): mid of July, report progress in mid-report
### Mitch/Charles define (if there is a need) a new way that might involve UVA's data fitting method: a proposal by end of July.
#define an example problem pertinent to CNF/IEC where "smart lookup table for fast MC simulations''' are the dominant term in the execution time (Charles/Christian/Gagik)
## Putting Things Alltogether (end of August the latest first week of Sept.)
# Finish paper by end of September (All, Charles/Christian will define the skeleton and assign sections to CS and Physic subgroups)

=== Relevant Papers ===
(Note: Spiros will help to maintain links to all papers)
# [https://www.nature.com/articles/s41586-019-0925-9 Nature paper from JLab Nuclear Physics], [https://arxiv.org/pdf/2004.12065.pdf PDF]
# [https://www.sciencedirect.com/science/article/pii/S0021999117300670 Physics motivated example paper on tessellations from Journal of Computational Physics]
# [https://onlinelibrary.wiley.com/doi/abs/10.1002/jcc.21973 Paper relevant to tessellation and Monte Carlo calculations from Journal of Computational Chemistry]

==Weekly Reports==

=== Week May 17 - 22 ===
# (Michell/Spiros) Mitch needs to get the I2M Docker and become familiar with its usage [DONE]
# (All) Get to know the team: Michell (Physics) and the CS students that will be assisting in the API for the tessellation (Spiros) and ParaView for Visualization (Kevin) [DONE]
# (Charles/Michell/Nikos) Setup a proposal for a time table for this aspect of the project it will be fine-tuned and finalized in the first official meeting [DONE]
# (All) Talk about the wiki page we need to set up for our weekly reports [DONE]

=== Week May 25 - 30 ===
# (Spiros) Smooth transition Michell to use CRTC I2M conversion [DONE]
# (Mitch) Comfortable using CRTC's I2M conversion Docker, User Guided, read VTK tessellation file, etc.. [DONE]
# (Kevin) Identify 3D ParaView Plugins that we might need to display results [DONE]
# (Charles) Identify problem(s) to be addressed with the UVA and PARTON models [TODO]
# (Charles/Chistian/Gagik) Examples of target Journals we want to consider for paper submission [DONE]
# (Christos) Slides from 05-22 [https://docs.google.com/presentation/d/1yz8dxVXO82rFCtD9KWjG1PBvvP5VikAxTz07qoM3IqU here] [DONE]

=== Week June 1 - 6 ===
# (Spiros) Add binary IO for output meshes. [DONE]
# (Mitch/Gagik/Spiros) Finish converting PARTONS output data into NRRD format for PODM. [DONE]
# (Kevin) Practice utilizing and applying custom functions on data within Paraview [DONE]
## Examples: [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data Visualization page]
# (Charles) Why use NRRD format if it is optimal to calculate on non-uniform grid?
## (Spiros) because PODM currently supports images that are uniform grids. [DONE]

=== Week June 8 - 12 ===
# (Mitch/Charles) Compute PARTONS points at vertices of simplices,
## Question: Does the tesselation software store the interpolated values at the vertices or the simplex barycentres?
### Vertices [DONE]
## Construct difference of interpolation values at vertices with new computed PARTONS values [DONE]
# (Spiros/Nikos) Explore ways of producing the ith step of adaptive tessellation using Mitch's new values on the (i-1)th tessellation
## (Spiros) By creating Images out of the meshes using interpolation: [DONE]
### [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software]
# (Mitch/Kevin/Charles) Help display Mitch's 3D data using predefined labels, etc..
## Experiment with 2D image of CFF(xi,t) at fixed Q2 vs. 3D image of CFF(xi,t,Q2)
### Linear vs. log axis. [DONE]
### Axis labels: convert (x,y,z), to (xi,t,CFF) or (xi,t,Q2) with color CFF scale [DONE]
### [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data#Other_Options_in_Paraview Instructions Available Here]
## Change PARTONS mesh to equal steps in log(xi) and log(Q2) [DONE]
# (Mitch/Gagik) Reproduce either Reimann or Lebesgue Integral calculations using [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for 2D [DONE]

=== Week June 15 - 19 ===
# (Spiros) Develop a generic interpolation filter for Mitch and write a high-level description (including VTK/ITK kernels used) to assist for future modifications
## [https://odu.app.box.com/folder/115714696781 Code folder] of [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software] [DONE]
## Fomulation of [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] [DONE]
## Compare [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] with [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] of Charles [DONE]
# (Spiros/Mitch) finish up the API for passing data image and vtk data to PARTON and close the loop
## (Spiros) Develop a function that reads and converts an image to a 3D lattice [DONE]
## (Spiros) Develop a function that reads the points and their weights of a tessellation [DONE]
## (Mitch) Close the loop [TODO]
# (Spiros) Convert partons data to nrrd properly, so that they can be visualized with Paraview [DONE]
# (Mitch/Gagik/Spiros) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for “smart lookup table for MC kernel”, produce 3D results and refactor the code:
## (Mitch) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] [DONE]
## (Spiros) Refactor Gagik's code, use VTK library and add comments [DONE]
## '''(Mitch/Gagik) Produce results using 3D tesselations [TODO]'''
# (Charles) in parallel work on a method for "smart lookup table"
## [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] [DONE], corrections, update, expansion in progress
## Compare with [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] and either consolidate the two or end up with two different methods. [TODO]

=== Week June 22 - 26 ===
# (Christian) Summary of CNF projects for 2019/20, [https://docs.google.com/presentation/d/1YuvSjHGvkB0I36gIxla58GxR-H3NtPd01w7ZtARDvuU/edit?usp=sharing CNF Summary Slides] [DONE]:
# (Charles/Gagik) Couple of Slides for use of adaptive tessellation in Monte Carlo and CFF approximation
# (Spiros) Creationg of a 4D Synthetic Image Generator
## HyperSphere (4D Sphere) [DONE]
## HyperCube (4D Cube) [DONE]
# (Mitch/Spiros) Parallelize Partons' code using OpenMP and submit jobs on Turing/Wahab.
## (Spiros) Help Mitch login and view files on Wahab [DONE]
## (Mitch/Spiros) Explore potential to parallelize Partons' code [TODO: Year 2021]
### It looks like requires more effort than our project could afford. It has to be moved as a task for next year.
## (Mitch) Explore potential to execute multiple jobs on Wahab [TODO]
### If this is hard as the item above might need to move for next year.
# (Mitch) Create write-up explanation of Gagiks Monte Carlo code [DONE]
##(Mitch/Spiros) Generalize MC Gagik's 2D code to 3D and consider potential higher dimensions [TODO: Year 2021]
# (Mitch) Re-run PARTONS at mesh points [DONE]
## Plot difference of original mesh to re-evaluated mesh in Paraview: Squared Difference [DONE]
## Plot new values on original tessellation points

=== Week June 29 - July 3 ===
# '''(O1)''' (Mitch/Gagik/Charles) Smart Lookup Table for Monte Carlo
## Compare Tessellation with either |f_a – f_b| metric or |f_a – f_b| / |f_a + f_b|
## First step is to redo PODM tessellation with same algorithm, but pass ln[Im[CFF]] instead of Im[CFF] to PODM
### In anticipation of 4D representations, calculate PARTONS values for full DVCS cross-section:
#### For discussion: Which variables to keep fixed, which variables to display
# '''(O2)''' (Spiros/Nikos) 3D/4D Tesselation for Nuclear Femtography
## Explore a new way to leverage 3D/4D I2M conversion and the new requirements for adaptivity relying on min I/O for PARTONS [Done]
### [https://crtc.cs.odu.edu/Internal:TetGen_CNF CNF Constained Mesher Prototype]
## (Christos/Spiros) Consider PDR worker initialization for initializing PODM and enabling remeshing or an existing mesh. [TODO: Year 2021]
### In the PDR.PODM framework after the initial mesh construction each worker receives a part of the mesh and refines it. During initialization one essentially starts from a serialized version of the mesh (similar to reading a file) and populates internal data structures. After all, is set, PODM works as usual.
### The same initialization method can be used here. Using this approach one can refine an existing mesh while keeping all previous vertex-based information.
### Keeping vertex-based information means than we can get produce adaptive results using just information of the new weights skipping thus the creation of intermediate images.
### As a further (future) step this approach can enable an "always in memory mesh" where the data are always in memory and being accessed by a common API from each component of the pipeline.
# '''(O3)''' (Spiros/Mitch/Charles) Visualization
## (Spiros) Explore a visualization option for 4D tesselations by extracting a 3D "slice" and then use ParaView to display results [TODO]
### Define what a 3D "slice" means in 4D space [TODO]
## (Mitch/Charles) Generate PARTON 4D and a 3D "slice" for these data, for validation of viz. [TODO]
### 4D (unpolarized cross-sections) differential in log(Q2), log(xB), t, phi [TODO]
## (Mitch/Kevin) Explore color palette options for displaying positive and negative values simultaneously [DONE]
# '''(O4)''' Integration with UVA and CNU
## Think about an on-line meeting on Monte Carlo Simulations in Nuclear Femtography?
## What is the status with UVA, are there any changes due to lack of additional funding?

=== Week July 6 - July 10 ===
# (Spiros / Mitch) Adaptivity Metrics
## Using local denominator
### max-min / mean (Not working)
### rms / mean (Not working)
### Note: Local denominators are not working well because of the fact that they perform local normalization which results in uniform gradation, and therefore a uniform mesh
## Using no denominator
### max-min: [https://crtc.cs.odu.edu/CNF:Mesh_Sizing_for_CNF_data#Method Original Method]
### Note: No denominators can work, but for each Image, the weight-limit needs to be tuned based on its weights.
## Using global denominator
### rms / globalMean (an idea which needs tweaking)
#### Note: not bounded
### rms / globalRms (Possibly working)
#### Note: not upper bounded [0, +oo)
### max-min / elementWeightRange
#### Note: bounded [0, 1]
### Note: Global denominators work, and the weight-limit is normalized based on the given image.
## [[CNF:Metric Figures | Metric Figures]]
## Useful Filter: [https://itk.org/Doxygen/html/classitk_1_1StatisticsImageFilter.html StatisticsImageFilter]

=== Week July 13 - July 17 ===
# (Spiros/Mitch/Wirawan) Software Engineering Aspects for [https://crtc.cs.odu.edu/CNF:CNF_Data_Generation CNF Data Generation]
## (Spiros/Mitch) Maintenance and Clarity (re-organized Mitch's code) [DONE]
## (Spiros/Wirawan) Improve End-User Productivity with Distributed Computing of Partons CNF Data Generation [TODO]
# (Spiros/Mitch/Charles) Design of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities]
## (Mitch/Charles) Identify Requirements [TODO]
## (Spiros) Design a library that satisfies the requirements [TODO with a supplement]
# (Spiros) Design of a templated software, [https://crtc.cs.odu.edu/CNF:Monte_Carlo_Event_Generator_using_a_Tessellation Monte Carlo Event Generator using a Tessellation] [TODO with a supplement]
## Re-organize Gagik's 2D code, CMI, templated for 2-3-4 dimensions, improve the complexity of search for given cell weight (from linear to binary) and parallelization using OpenMP
# (Spiros) Sizing function Modifications:
## Change way of calculating value for sampling points
### Old version: assign the value of sampling point using to the closest pixel value
### New version: assign the value of sampling point using interpolation over the image [DONE]
### Reason of change: The problem with the old way of assigning values to the sampling points is that there is a high possibility of 2 or more sampling points having the same assigned value. I think that we can solve this issue by assigning values using interpolation to be sure that every sampling point would have a unique assigned value. This way we would need fewer elements to be able to capture the gradation.
## Change Default max-Edge from Diagonal * 1/10 to Diagonal 2/10 [DONE]
### Reason of change: this way we create larger elements in regions that are not of interest
# (Spiros/Kevin/Mitch) Results:
## (Spiros/Kevin) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img GPDGK16_uH_img] (with new sizing function) [DONE]
### Mitch generated the data the previous week
## (Mitch) Generate a new tesselation with GPDGK16_uH_nxi_210 (with old sizing function) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img_nxi.3D211 GPDGK16_uH_img_nxi=211] [DONE]
# (Mitch/Charles/Spiros)Generate Monte Carlo events of unpolarized DVCS Cross-Section
## Generalize Gagiks monte carlo kernel into 3D or N-Dimensional [DONE]
## Implement "acceptance rejection" algorithm from [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
## [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation]
## Updated Document on Interpolation with Simplices: [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
### Plot in ROOT CFF monte carlo events from tessellation [DONE]
### Generate unpolarized cross-section tessellation (needs to be parallelized ~10min per point) [TODO]
## (Spiros/Mitch) Add needed methods from Spiros's library [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [TODO]
# (Mitch/Charles) Analyze CFF and Cross Section results
## Plot RMS deviation of cell points from CFF mesh
## Plot and fit t dependence of CFF at fixed value of Q2, calculate RMSD of fit, extract fit parameters
# (All) [https://docs.google.com/presentation/d/1z_7XDMlsOUpJg-0yk0kMJmjLJdG4y7wx8bBrc_MMrC0/edit?usp=sharing CNF Adaptivity Pipeline] [DONE] and good progress toward "Smart Lookup Table"[[File:Photo_Mid_Report_July16_2020.png|500px|Photo_Mid_Report_July16_2020.png]]

=== Week July 20 - July 24 ===
# (Spiros) Implementation of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [DONE]
# (Spiros) Interpolate Kevin's CDT3D meshes [https://odu.box.com/s/vpps3wl1k9szx213y95q6sj4mim36sts Box Folder] [DONE]
# (Mitch) Make flow-chart explanation of "smart look-up table" and Monte Carlo code [https://docs.google.com/presentation/d/1KeR3h6ReyzVARX0qnBKaht97GCy0pa-6ruFDkmhoHMU/edit?usp=sharing] [DONE]
## Write driver for point look-up [Done but needs testing]
# (Mitch/Kevin) Generate mesh from PARTONS values generated on the boundaries of phase space volume
# (Mitch/Charles) Compare the different meshes and evaluate the accuracy of the interpolations
## Using barycenter [[Media:CentroidError.png]] [DONE]
# (Mitch/Charles) Change of variables for CFF generation from: ξ-> XBj and t->t' . Reproduce mesh for new variables [DONE]

=== Week July 27 - July 31 ===
# (Spiros) New version of CRTC_I2M docker file and documentation. [DONE]
## The Changes for PODM3D are:
### --min-edge is now a parameter that expresses the percentage of the diagonal that will be used as min-edge. Default 1/ sqrt(3).
### (New parameter) --max-edge is a parameter that expresses the percentage of the diagonal that will be used as max-edge. Default 10.
### (New parameter) --parallel-mesh-results is a flag that computes the mesh results in parallel if more than 1 thread is used.
### (New parameter) --file-format is a parameter that defines the output format BINARY or ASCII. Default binary.
# (Mitch) Generate tessellations in XBj and t' for imaginary and ln(real) parts of CFF using new PODM3D docker
## Plot interpolation error at centroid
# (Mitch) Outline a code to compute DVCS cross section
## Understand/modify the Bethe Heitler CS code
## Work through the dirac algebra

=== Week Aug 3 - Aug 7 ===
# (Charles, Mitch) New sizing function S[f,g]
## f = Im[CFF], g = Re[CFF]
## for each simplex with points '''X'''(''i'') ''i=0,1,2,3,'' and functional values ''f(i), g(i)''
::::: [[File:SizingReIm.png]]
# (Charles, Mitch) Competition to our Tessellation and Smart Look-up Tables from FOAM structure in root.cern.ch software package
:: S. Jadach, Computer Physics Communications v.152, number 1 (2003) p.55 [http://www.sciencedirect.com/science/article/pii/S0010465502007555?via%3Dihub]
:: Preprint ArXiv.org: [https://arxiv.org/abs/physics/0203033]

== TODO with a potential supplement ==
# (Spiros) Compile a list of Utilities for pre- and post-processing functions for I2M conversion
## Examples should include: (i) fast search methods, (ii) smart lookup table functionality, etc.
# (All) Identify applications that could benefit from tessellations like nD numerical integration, data preservation, etc..
# (Spiros/Nikos) Explore Christian's request to compute 2D/3D function approximation for square/cube and a given analytic function defined on the square/cube

== TODO Year 2021 ==
# (Spiros/Mitch/Sean (REU)) Help Mitch parallelize Partons' code
# (Spiros) Template [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] to work for N-dimensions
# (Spiros) Develop a 2D/3D/4D Parallel Adaptive Delaunay Mesh Generator, where the input is a set of points

= Restricted Access (available to CNF Imaging Project i.e., CRTC/JLAB only) =
* [https://odu.box.com/s/ce6wc1ht1f96jx7lpafys1ue1piiyekc Shared box directory]
* [https://git-community.cs.odu.edu/crtc/Mesh-Generation/Parallel-Mesh-Generation/podm-superbuild PODM Docker image source files]
* [https://git-community.cs.odu.edu/crtc/websites/podm-documentation CRTC_I2M_Suite website build files]
* Adaptivity
** [[CNF:Mesh Sizing for CNF data]]
** [[CNF:CNF_Adaptivity]]
* [[CNF:Visualization for CNF data]]
* [[CNF:Machine Learning]]

* https://www.jlab.org/indico/event/335/
* [http://www.cs.odu.edu/crtc/videos/PODM3D.html Video of meshing procedure]

CNF:CNF

2020-07-31T15:04:06Z

Chyde: /* Week Aug 3 - Aug 7 */

= SURA CNF19-04 Project =
== Description ==
We propose an interdisciplinary project to leverage advanced computational methods from medical imaging for processing phase-space distributions in nuclear femtography experiments, with the aim to enable next-generation process simulations, data analyses, and physics model comparisons.

A detailed list of results for CNF cases received from JLAB are presented here:
[https://crtc.cs.odu.edu/CNF:Example_Meshes Example Meshes]

== Objectives of SURA CNF19-04 Project==
* (O1) Implement an n-dimensional mesh-based representation of phase space data using tessellation methods and test it in low-dimensional scenarios (n=3)
* (O2) Explore potential physics model comparisons enabled by the new technologies

== Short-term Deliverables (6 months) ==
<li style="display: inline-block;">
[[File: distributionquarks.png|thumb|right|350px| '''Distribution of the probability of quarks' existence based on the change in momentum''']]
# Post-processing of the output of the PARTONS GPD physics model for generation of NRDD/DICOM images and their segmentation (by July 1); -- [DONE]
# Generation of n-dimensional sequence of tessellations for numerical integration (by July 1); -- [DONE]
## software delivered to JLAB, May 2019: [https://crtc.cs.odu.edu/CRTC_I2M CRTC Image to Mesh Conversion Software Suite].
## software developed at JLAB to transform physics observable grids generated by the PARTONS framework to the data format used by ODU provided software.
# Use of Tesselation software gives the ability to view and analyze physics observables in a new way with modern tools. It also allows for fast, efficient Monte-Carlo generation of physics observables for event generation from tessellated objects. Computation of proton structures and physics observables are otherwise very computationally extensive. -- [IN PROGRESS]
## explore the option of generating graded meshes (by September).
# Experiment with 3D Slicer and Paraview open-source imaging and visualization systems to display visual representations of the entire space and/or m-slices, with m < n (by Sept. 30); -- [DONE]
## [http://www.cs.odu.edu/crtc/videos/paraview.html Imaging Demo using Paraview]
## [https://kitware.github.io/paraview-glance/doc/ Paraview Glance]
# Topical workshop including experts in imaging, exascale computing, uncertainty quantification, and nuclear physics to guide further developments (by Sept. 30). -- [DONE]
## Invited visitors and agenda is completed.
## The [https://cepm.cs.odu.edu/CNF_Imaging_Workshop CNF Imaging Workshop] took place on August 19th and 20th at JLab.
# [https://crtc.cs.odu.edu/CNF_Example_Meshes CNF mesh examples]
</li>

= SURA CNF20-001 Project =
== Objectives of SURA CNF20-001 Project==
(O1) Demonstrate that 3-dimensional tessellations can improve speed of basic nuclear femtography operations like Monte Carlo computations using a Nuclear Physics example

(O2) Extend the isotropic tessellations 4 dimensions Images (eg. 4D NRRD images)

(O3) Explore gradation in 4D tessellations using a given metric or sizing function

== Short-term Deliverables (3 months)==

'''August 15'''
* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Convert the output of PARTONS and UVA’s GPD generators into Nearly Raw Raster Data (NRRD) format (Liuiti, Heddle, Chrisochoides). This (ODU) group will be responsible for PARTONS and will assist UVA with GPD generators.
** Co-organize with Dr. Hyde as a chair a virtual workshop around mid-June on "The Integration of Imaging and Visualization in Femtography" (Hyde, Liuiti, Heddle, Chrisochoides)
* fine-tune existing 3D I2M conversion software tool and deliver a new Docker to JLab that enhances I/O and meets new requirements identified in the last six months (Chrisochoides/CS Gard. Student);
* pre-process 4D CNF data and create a 4D synthetic data set for developing the 4D triangulation method (Gavalian/Chrisochoides/Computer Science (CS) Grad. Student);
'''September 30, 2020:'''

* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Tesselation of Compton Form Factors using PARTONS and UVA GPD generators (Hyde, Liuiti, Chrisochoides)
* create 4D triangulation algorithm and code as a prelude to future physics implementations (Chrisochodes/CS Gard. Student);
* 3D-visualization plugins in ParaView of the flavor-dependent Compton form factors (Hyde/Chrisochoides/Physics and CS Gard. Students);
* “smart 3-dimensional lookup table” based on an '''adaptive or graded''' mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Physics Grad. Student);

== September's Workshop content ==
=== (Charles, Mitch) Mathematics/Physics ===
=== (Spiros, Kevin, Nikos) Mesh Generations ===
=== (Mitch, Spiros) Smart Lookup tables ===
=== (Κevin, Spiros) Visualization ===

== Smart look-up tables ==

Objective: “smart 3-dimensional lookup table” based on adaptive mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Physics Grad. Student)

=== Timetable for paper on "smart lookup table" for fast MC simulations ===
# Define Region of Interest (RoI)
## Use NRRD image (done with CNF19-004): might be inefficient, but the definition of RoI is outside the scope of the paper
## Use a cube or closed 3D surface (to be tested, it can be done within a week): very efficient way to define the RoI, as well as it is known.
## use sparse and course set of points in a broader area and slowly converge to the RoI with as many points and their tessellation are required by a given metric.
### need to define a metric (Charles/Mitch): preliminary ideas by mid-August and finalize metric by end of August
# Implement smart lookup table using tessellation generated from (1)
## reproduce Gagik's results
### Mitch: understand the code and write a one-page description (Gagik to supervise the effort): mid of July, report progress in mid-report
### Mitch/Charles define (if there is a need) a new way that might involve UVA's data fitting method: a proposal by end of July.
#define an example problem pertinent to CNF/IEC where "smart lookup table for fast MC simulations''' are the dominant term in the execution time (Charles/Christian/Gagik)
## Putting Things Alltogether (end of August the latest first week of Sept.)
# Finish paper by end of September (All, Charles/Christian will define the skeleton and assign sections to CS and Physic subgroups)

=== Relevant Papers ===
(Note: Spiros will help to maintain links to all papers)
# [https://www.nature.com/articles/s41586-019-0925-9 Nature paper from JLab Nuclear Physics], [https://arxiv.org/pdf/2004.12065.pdf PDF]
# [https://www.sciencedirect.com/science/article/pii/S0021999117300670 Physics motivated example paper on tessellations from Journal of Computational Physics]
# [https://onlinelibrary.wiley.com/doi/abs/10.1002/jcc.21973 Paper relevant to tessellation and Monte Carlo calculations from Journal of Computational Chemistry]

==Weekly Reports==

=== Week May 17 - 22 ===
# (Michell/Spiros) Mitch needs to get the I2M Docker and become familiar with its usage [DONE]
# (All) Get to know the team: Michell (Physics) and the CS students that will be assisting in the API for the tessellation (Spiros) and ParaView for Visualization (Kevin) [DONE]
# (Charles/Michell/Nikos) Setup a proposal for a time table for this aspect of the project it will be fine-tuned and finalized in the first official meeting [DONE]
# (All) Talk about the wiki page we need to set up for our weekly reports [DONE]

=== Week May 25 - 30 ===
# (Spiros) Smooth transition Michell to use CRTC I2M conversion [DONE]
# (Mitch) Comfortable using CRTC's I2M conversion Docker, User Guided, read VTK tessellation file, etc.. [DONE]
# (Kevin) Identify 3D ParaView Plugins that we might need to display results [DONE]
# (Charles) Identify problem(s) to be addressed with the UVA and PARTON models [TODO]
# (Charles/Chistian/Gagik) Examples of target Journals we want to consider for paper submission [DONE]
# (Christos) Slides from 05-22 [https://docs.google.com/presentation/d/1yz8dxVXO82rFCtD9KWjG1PBvvP5VikAxTz07qoM3IqU here] [DONE]

=== Week June 1 - 6 ===
# (Spiros) Add binary IO for output meshes. [DONE]
# (Mitch/Gagik/Spiros) Finish converting PARTONS output data into NRRD format for PODM. [DONE]
# (Kevin) Practice utilizing and applying custom functions on data within Paraview [DONE]
## Examples: [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data Visualization page]
# (Charles) Why use NRRD format if it is optimal to calculate on non-uniform grid?
## (Spiros) because PODM currently supports images that are uniform grids. [DONE]

=== Week June 8 - 12 ===
# (Mitch/Charles) Compute PARTONS points at vertices of simplices,
## Question: Does the tesselation software store the interpolated values at the vertices or the simplex barycentres?
### Vertices [DONE]
## Construct difference of interpolation values at vertices with new computed PARTONS values [DONE]
# (Spiros/Nikos) Explore ways of producing the ith step of adaptive tessellation using Mitch's new values on the (i-1)th tessellation
## (Spiros) By creating Images out of the meshes using interpolation: [DONE]
### [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software]
# (Mitch/Kevin/Charles) Help display Mitch's 3D data using predefined labels, etc..
## Experiment with 2D image of CFF(xi,t) at fixed Q2 vs. 3D image of CFF(xi,t,Q2)
### Linear vs. log axis. [DONE]
### Axis labels: convert (x,y,z), to (xi,t,CFF) or (xi,t,Q2) with color CFF scale [DONE]
### [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data#Other_Options_in_Paraview Instructions Available Here]
## Change PARTONS mesh to equal steps in log(xi) and log(Q2) [DONE]
# (Mitch/Gagik) Reproduce either Reimann or Lebesgue Integral calculations using [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for 2D [DONE]

=== Week June 15 - 19 ===
# (Spiros) Develop a generic interpolation filter for Mitch and write a high-level description (including VTK/ITK kernels used) to assist for future modifications
## [https://odu.app.box.com/folder/115714696781 Code folder] of [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software] [DONE]
## Fomulation of [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] [DONE]
## Compare [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] with [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] of Charles [DONE]
# (Spiros/Mitch) finish up the API for passing data image and vtk data to PARTON and close the loop
## (Spiros) Develop a function that reads and converts an image to a 3D lattice [DONE]
## (Spiros) Develop a function that reads the points and their weights of a tessellation [DONE]
## (Mitch) Close the loop [TODO]
# (Spiros) Convert partons data to nrrd properly, so that they can be visualized with Paraview [DONE]
# (Mitch/Gagik/Spiros) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for “smart lookup table for MC kernel”, produce 3D results and refactor the code:
## (Mitch) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] [DONE]
## (Spiros) Refactor Gagik's code, use VTK library and add comments [DONE]
## '''(Mitch/Gagik) Produce results using 3D tesselations [TODO]'''
# (Charles) in parallel work on a method for "smart lookup table"
## [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] [DONE], corrections, update, expansion in progress
## Compare with [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] and either consolidate the two or end up with two different methods. [TODO]

=== Week June 22 - 26 ===
# (Christian) Summary of CNF projects for 2019/20, [https://docs.google.com/presentation/d/1YuvSjHGvkB0I36gIxla58GxR-H3NtPd01w7ZtARDvuU/edit?usp=sharing CNF Summary Slides] [DONE]:
# (Charles/Gagik) Couple of Slides for use of adaptive tessellation in Monte Carlo and CFF approximation
# (Spiros) Creationg of a 4D Synthetic Image Generator
## HyperSphere (4D Sphere) [DONE]
## HyperCube (4D Cube) [DONE]
# (Mitch/Spiros) Parallelize Partons' code using OpenMP and submit jobs on Turing/Wahab.
## (Spiros) Help Mitch login and view files on Wahab [DONE]
## (Mitch/Spiros) Explore potential to parallelize Partons' code [TODO: Year 2021]
### It looks like requires more effort than our project could afford. It has to be moved as a task for next year.
## (Mitch) Explore potential to execute multiple jobs on Wahab [TODO]
### If this is hard as the item above might need to move for next year.
# (Mitch) Create write-up explanation of Gagiks Monte Carlo code [DONE]
##(Mitch/Spiros) Generalize MC Gagik's 2D code to 3D and consider potential higher dimensions [TODO: Year 2021]
# (Mitch) Re-run PARTONS at mesh points [DONE]
## Plot difference of original mesh to re-evaluated mesh in Paraview: Squared Difference [DONE]
## Plot new values on original tessellation points

=== Week June 29 - July 3 ===
# '''(O1)''' (Mitch/Gagik/Charles) Smart Lookup Table for Monte Carlo
## Compare Tessellation with either |f_a – f_b| metric or |f_a – f_b| / |f_a + f_b|
## First step is to redo PODM tessellation with same algorithm, but pass ln[Im[CFF]] instead of Im[CFF] to PODM
### In anticipation of 4D representations, calculate PARTONS values for full DVCS cross-section:
#### For discussion: Which variables to keep fixed, which variables to display
# '''(O2)''' (Spiros/Nikos) 3D/4D Tesselation for Nuclear Femtography
## Explore a new way to leverage 3D/4D I2M conversion and the new requirements for adaptivity relying on min I/O for PARTONS [Done]
### [https://crtc.cs.odu.edu/Internal:TetGen_CNF CNF Constained Mesher Prototype]
## (Christos/Spiros) Consider PDR worker initialization for initializing PODM and enabling remeshing or an existing mesh. [TODO: Year 2021]
### In the PDR.PODM framework after the initial mesh construction each worker receives a part of the mesh and refines it. During initialization one essentially starts from a serialized version of the mesh (similar to reading a file) and populates internal data structures. After all, is set, PODM works as usual.
### The same initialization method can be used here. Using this approach one can refine an existing mesh while keeping all previous vertex-based information.
### Keeping vertex-based information means than we can get produce adaptive results using just information of the new weights skipping thus the creation of intermediate images.
### As a further (future) step this approach can enable an "always in memory mesh" where the data are always in memory and being accessed by a common API from each component of the pipeline.
# '''(O3)''' (Spiros/Mitch/Charles) Visualization
## (Spiros) Explore a visualization option for 4D tesselations by extracting a 3D "slice" and then use ParaView to display results [TODO]
### Define what a 3D "slice" means in 4D space [TODO]
## (Mitch/Charles) Generate PARTON 4D and a 3D "slice" for these data, for validation of viz. [TODO]
### 4D (unpolarized cross-sections) differential in log(Q2), log(xB), t, phi [TODO]
## (Mitch/Kevin) Explore color palette options for displaying positive and negative values simultaneously [DONE]
# '''(O4)''' Integration with UVA and CNU
## Think about an on-line meeting on Monte Carlo Simulations in Nuclear Femtography?
## What is the status with UVA, are there any changes due to lack of additional funding?

=== Week July 6 - July 10 ===
# (Spiros / Mitch) Adaptivity Metrics
## Using local denominator
### max-min / mean (Not working)
### rms / mean (Not working)
### Note: Local denominators are not working well because of the fact that they perform local normalization which results in uniform gradation, and therefore a uniform mesh
## Using no denominator
### max-min: [https://crtc.cs.odu.edu/CNF:Mesh_Sizing_for_CNF_data#Method Original Method]
### Note: No denominators can work, but for each Image, the weight-limit needs to be tuned based on its weights.
## Using global denominator
### rms / globalMean (an idea which needs tweaking)
#### Note: not bounded
### rms / globalRms (Possibly working)
#### Note: not upper bounded [0, +oo)
### max-min / elementWeightRange
#### Note: bounded [0, 1]
### Note: Global denominators work, and the weight-limit is normalized based on the given image.
## [[CNF:Metric Figures | Metric Figures]]
## Useful Filter: [https://itk.org/Doxygen/html/classitk_1_1StatisticsImageFilter.html StatisticsImageFilter]

=== Week July 13 - July 17 ===
# (Spiros/Mitch/Wirawan) Software Engineering Aspects for [https://crtc.cs.odu.edu/CNF:CNF_Data_Generation CNF Data Generation]
## (Spiros/Mitch) Maintenance and Clarity (re-organized Mitch's code) [DONE]
## (Spiros/Wirawan) Improve End-User Productivity with Distributed Computing of Partons CNF Data Generation [TODO]
# (Spiros/Mitch/Charles) Design of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities]
## (Mitch/Charles) Identify Requirements [TODO]
## (Spiros) Design a library that satisfies the requirements [TODO with a supplement]
# (Spiros) Design of a templated software, [https://crtc.cs.odu.edu/CNF:Monte_Carlo_Event_Generator_using_a_Tessellation Monte Carlo Event Generator using a Tessellation] [TODO with a supplement]
## Re-organize Gagik's 2D code, CMI, templated for 2-3-4 dimensions, improve the complexity of search for given cell weight (from linear to binary) and parallelization using OpenMP
# (Spiros) Sizing function Modifications:
## Change way of calculating value for sampling points
### Old version: assign the value of sampling point using to the closest pixel value
### New version: assign the value of sampling point using interpolation over the image [DONE]
### Reason of change: The problem with the old way of assigning values to the sampling points is that there is a high possibility of 2 or more sampling points having the same assigned value. I think that we can solve this issue by assigning values using interpolation to be sure that every sampling point would have a unique assigned value. This way we would need fewer elements to be able to capture the gradation.
## Change Default max-Edge from Diagonal * 1/10 to Diagonal 2/10 [DONE]
### Reason of change: this way we create larger elements in regions that are not of interest
# (Spiros/Kevin/Mitch) Results:
## (Spiros/Kevin) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img GPDGK16_uH_img] (with new sizing function) [DONE]
### Mitch generated the data the previous week
## (Mitch) Generate a new tesselation with GPDGK16_uH_nxi_210 (with old sizing function) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img_nxi.3D211 GPDGK16_uH_img_nxi=211] [DONE]
# (Mitch/Charles/Spiros)Generate Monte Carlo events of unpolarized DVCS Cross-Section
## Generalize Gagiks monte carlo kernel into 3D or N-Dimensional [DONE]
## Implement "acceptance rejection" algorithm from [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
## [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation]
## Updated Document on Interpolation with Simplices: [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
### Plot in ROOT CFF monte carlo events from tessellation [DONE]
### Generate unpolarized cross-section tessellation (needs to be parallelized ~10min per point) [TODO]
## (Spiros/Mitch) Add needed methods from Spiros's library [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [TODO]
# (Mitch/Charles) Analyze CFF and Cross Section results
## Plot RMS deviation of cell points from CFF mesh
## Plot and fit t dependence of CFF at fixed value of Q2, calculate RMSD of fit, extract fit parameters
# (All) [https://docs.google.com/presentation/d/1z_7XDMlsOUpJg-0yk0kMJmjLJdG4y7wx8bBrc_MMrC0/edit?usp=sharing CNF Adaptivity Pipeline] [DONE] and good progress toward "Smart Lookup Table"[[File:Photo_Mid_Report_July16_2020.png|500px|Photo_Mid_Report_July16_2020.png]]

=== Week July 20 - July 24 ===
# (Spiros) Implementation of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [DONE]
# (Spiros) Interpolate Kevin's CDT3D meshes [https://odu.box.com/s/vpps3wl1k9szx213y95q6sj4mim36sts Box Folder] [DONE]
# (Mitch) Make flow-chart explanation of "smart look-up table" and Monte Carlo code [https://docs.google.com/presentation/d/1KeR3h6ReyzVARX0qnBKaht97GCy0pa-6ruFDkmhoHMU/edit?usp=sharing] [DONE]
## Write driver for point look-up [Done but needs testing]
# (Mitch/Kevin) Generate mesh from PARTONS values generated on the boundaries of phase space volume
# (Mitch/Charles) Compare the different meshes and evaluate the accuracy of the interpolations
## Using barycenter [[Media:CentroidError.png]] [DONE]
# (Mitch/Charles) Change of variables for CFF generation from: ξ-> XBj and t->t' . Reproduce mesh for new variables [DONE]

=== Week July 27 - July 31 ===
# (Spiros) New version of CRTC_I2M docker file and documentation. [DONE]
## The Changes for PODM3D are:
### --min-edge is now a parameter that expresses the percentage of the diagonal that will be used as min-edge. Default 1/ sqrt(3).
### (New parameter) --max-edge is a parameter that expresses the percentage of the diagonal that will be used as max-edge. Default 10.
### (New parameter) --parallel-mesh-results is a flag that computes the mesh results in parallel if more than 1 thread is used.
### (New parameter) --file-format is a parameter that defines the output format BINARY or ASCII. Default binary.
# (Mitch) Generate tessellations in XBj and t' for imaginary and ln(real) parts of CFF using new PODM3D docker
## Plot interpolation error at centroid
# (Mitch) Outline a code to compute DVCS cross section
## Understand/modify the Bethe Heitler CS code
## Work through the dirac algebra

=== Week Aug 3 - Aug 7 ===
# (Charles, Mitch) New sizing function S[f,g]
## f = Im[CFF], g = Re[CFF]
## for each simplex with points '''X'''(''i'') ''i=0,1,2,3,'' and functional values ''f(i), g(i)''
::::: [[File:SizingReIm.png]]
# (Charles, Mitch) Competition to our Tessellation and Smart Look-up Tables from FOAM structure in root.cern.ch software package
:: S. Jadach, Computer Physics Communications v.152, number 1 (2003) p.55
:: [http://www.sciencedirect.com/science/article/pii/S0010465502007555?via%3Dihub]
:: [https://arxiv.org/abs/physics/0203033]

== TODO with a potential supplement ==
# (Spiros) Compile a list of Utilities for pre- and post-processing functions for I2M conversion
## Examples should include: (i) fast search methods, (ii) smart lookup table functionality, etc.
# (All) Identify applications that could benefit from tessellations like nD numerical integration, data preservation, etc..
# (Spiros/Nikos) Explore Christian's request to compute 2D/3D function approximation for square/cube and a given analytic function defined on the square/cube

== TODO Year 2021 ==
# (Spiros/Mitch/Sean (REU)) Help Mitch parallelize Partons' code
# (Spiros) Template [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] to work for N-dimensions
# (Spiros) Develop a 2D/3D/4D Parallel Adaptive Delaunay Mesh Generator, where the input is a set of points

= Restricted Access (available to CNF Imaging Project i.e., CRTC/JLAB only) =
* [https://odu.box.com/s/ce6wc1ht1f96jx7lpafys1ue1piiyekc Shared box directory]
* [https://git-community.cs.odu.edu/crtc/Mesh-Generation/Parallel-Mesh-Generation/podm-superbuild PODM Docker image source files]
* [https://git-community.cs.odu.edu/crtc/websites/podm-documentation CRTC_I2M_Suite website build files]
* Adaptivity
** [[CNF:Mesh Sizing for CNF data]]
** [[CNF:CNF_Adaptivity]]
* [[CNF:Visualization for CNF data]]
* [[CNF:Machine Learning]]

* https://www.jlab.org/indico/event/335/
* [http://www.cs.odu.edu/crtc/videos/PODM3D.html Video of meshing procedure]

CNF:CNF

2020-07-30T20:30:34Z

Chyde: /* Week Aug 3 - Aug 7 */

= SURA CNF19-04 Project =
== Description ==
We propose an interdisciplinary project to leverage advanced computational methods from medical imaging for processing phase-space distributions in nuclear femtography experiments, with the aim to enable next-generation process simulations, data analyses, and physics model comparisons.

A detailed list of results for CNF cases received from JLAB are presented here:
[https://crtc.cs.odu.edu/CNF:Example_Meshes Example Meshes]

== Objectives of SURA CNF19-04 Project==
* (O1) Implement an n-dimensional mesh-based representation of phase space data using tessellation methods and test it in low-dimensional scenarios (n=3)
* (O2) Explore potential physics model comparisons enabled by the new technologies

== Short-term Deliverables (6 months) ==
<li style="display: inline-block;">
[[File: distributionquarks.png|thumb|right|350px| '''Distribution of the probability of quarks' existence based on the change in momentum''']]
# Post-processing of the output of the PARTONS GPD physics model for generation of NRDD/DICOM images and their segmentation (by July 1); -- [DONE]
# Generation of n-dimensional sequence of tessellations for numerical integration (by July 1); -- [DONE]
## software delivered to JLAB, May 2019: [https://crtc.cs.odu.edu/CRTC_I2M CRTC Image to Mesh Conversion Software Suite].
## software developed at JLAB to transform physics observable grids generated by the PARTONS framework to the data format used by ODU provided software.
# Use of Tesselation software gives the ability to view and analyze physics observables in a new way with modern tools. It also allows for fast, efficient Monte-Carlo generation of physics observables for event generation from tessellated objects. Computation of proton structures and physics observables are otherwise very computationally extensive. -- [IN PROGRESS]
## explore the option of generating graded meshes (by September).
# Experiment with 3D Slicer and Paraview open-source imaging and visualization systems to display visual representations of the entire space and/or m-slices, with m < n (by Sept. 30); -- [DONE]
## [http://www.cs.odu.edu/crtc/videos/paraview.html Imaging Demo using Paraview]
## [https://kitware.github.io/paraview-glance/doc/ Paraview Glance]
# Topical workshop including experts in imaging, exascale computing, uncertainty quantification, and nuclear physics to guide further developments (by Sept. 30). -- [DONE]
## Invited visitors and agenda is completed.
## The [https://cepm.cs.odu.edu/CNF_Imaging_Workshop CNF Imaging Workshop] took place on August 19th and 20th at JLab.
# [https://crtc.cs.odu.edu/CNF_Example_Meshes CNF mesh examples]
</li>

= SURA CNF20-001 Project =
== Objectives of SURA CNF20-001 Project==
(O1) Demonstrate that 3-dimensional tessellations can improve speed of basic nuclear femtography operations like Monte Carlo computations using a Nuclear Physics example

(O2) Extend the isotropic tessellations 4 dimensions Images (eg. 4D NRRD images)

(O3) Explore gradation in 4D tessellations using a given metric or sizing function

== Short-term Deliverables (3 months)==

'''August 15'''
* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Convert the output of PARTONS and UVA’s GPD generators into Nearly Raw Raster Data (NRRD) format (Liuiti, Heddle, Chrisochoides). This (ODU) group will be responsible for PARTONS and will assist UVA with GPD generators.
** Co-organize with Dr. Hyde as a chair a virtual workshop around mid-June on "The Integration of Imaging and Visualization in Femtography" (Hyde, Liuiti, Heddle, Chrisochoides)
* fine-tune existing 3D I2M conversion software tool and deliver a new Docker to JLab that enhances I/O and meets new requirements identified in the last six months (Chrisochoides/CS Gard. Student);
* pre-process 4D CNF data and create a 4D synthetic data set for developing the 4D triangulation method (Gavalian/Chrisochoides/Computer Science (CS) Grad. Student);
'''September 30, 2020:'''

* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Tesselation of Compton Form Factors using PARTONS and UVA GPD generators (Hyde, Liuiti, Chrisochoides)
* create 4D triangulation algorithm and code as a prelude to future physics implementations (Chrisochodes/CS Gard. Student);
* 3D-visualization plugins in ParaView of the flavor-dependent Compton form factors (Hyde/Chrisochoides/Physics and CS Gard. Students);
* “smart 3-dimensional lookup table” based on an '''adaptive or graded''' mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Phyiscs Grad. Student);

== Smart look-up tables ==

Objective: “smart 3-dimensional lookup table” based on adaptive mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Physics Grad. Student)

=== Timetable for paper on "smart lookup table" for fast MC simulations ===
# Define Region of Interest (RoI)
## Use NRRD image (done with CNF19-004): might be inefficient, but the definition of RoI is outside the scope of the paper
## Use a cube or closed 3D surface (to be tested, it can be done within a week): very efficient way to define the RoI, as well as it is known.
## use sparse and course set of points in a broader area and slowly converge to the RoI with as many points and their tessellation are required by a given metric.
### need to define a metric (Charles/Mitch): preliminary ideas by mid-August and finalize metric by end of August
# Implement smart lookup table using tessellation generated from (1)
## reproduce Gagik's results
### Mitch: understand the code and write a one-page description (Gagik to supervise the effort): mid of July, report progress in mid-report
### Mitch/Charles define (if there is a need) a new way that might involve UVA's data fitting method: a proposal by end of July.
#define an example problem pertinent to CNF/IEC where "smart lookup table for fast MC simulations''' are the dominant term in the execution time (Charles/Christian/Gagik)
## Putting Things Alltogether (end of August the latest first week of Sept.)
# Finish paper by end of September (All, Charles/Christian will define the skeleton and assign sections to CS and Physic subgroups)

=== Relevant Papers ===
(Note: Spiros will help to maintain links to all papers)
# [https://www.nature.com/articles/s41586-019-0925-9 Nature paper from JLab Nuclear Physics], [https://arxiv.org/pdf/2004.12065.pdf PDF]
# [https://www.sciencedirect.com/science/article/pii/S0021999117300670 Physics motivated example paper on tessellations from Journal of Computational Physics]
# [https://onlinelibrary.wiley.com/doi/abs/10.1002/jcc.21973 Paper relevant to tessellation and Monte Carlo calculations from Journal of Computational Chemistry]

==Weekly Reports==

=== Week May 17 - 22 ===
# (Michell/Spiros) Mitch needs to get the I2M Docker and become familiar with its usage [DONE]
# (All) Get to know the team: Michell (Physics) and the CS students that will be assisting in the API for the tessellation (Spiros) and ParaView for Visualization (Kevin) [DONE]
# (Charles/Michell/Nikos) Setup a proposal for a time table for this aspect of the project it will be fine-tuned and finalized in the first official meeting [DONE]
# (All) Talk about the wiki page we need to set up for our weekly reports [DONE]

=== Week May 25 - 30 ===
# (Spiros) Smooth transition Michell to use CRTC I2M conversion [DONE]
# (Mitch) Comfortable using CRTC's I2M conversion Docker, User Guided, read VTK tessellation file, etc.. [DONE]
# (Kevin) Identify 3D ParaView Plugins that we might need to display results [DONE]
# (Charles) Identify problem(s) to be addressed with the UVA and PARTON models [TODO]
# (Charles/Chistian/Gagik) Examples of target Journals we want to consider for paper submission [DONE]
# (Christos) Slides from 05-22 [https://docs.google.com/presentation/d/1yz8dxVXO82rFCtD9KWjG1PBvvP5VikAxTz07qoM3IqU here] [DONE]

=== Week June 1 - 6 ===
# (Spiros) Add binary IO for output meshes. [DONE]
# (Mitch/Gagik/Spiros) Finish converting PARTONS output data into NRRD format for PODM. [DONE]
# (Kevin) Practice utilizing and applying custom functions on data within Paraview [DONE]
## Examples: [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data Visualization page]
# (Charles) Why use NRRD format if it is optimal to calculate on non-uniform grid?
## (Spiros) because PODM currently supports images that are uniform grids. [DONE]

=== Week June 8 - 12 ===
# (Mitch/Charles) Compute PARTONS points at vertices of simplices,
## Question: Does the tesselation software store the interpolated values at the vertices or the simplex barycentres?
### Vertices [DONE]
## Construct difference of interpolation values at vertices with new computed PARTONS values [DONE]
# (Spiros/Nikos) Explore ways of producing the ith step of adaptive tessellation using Mitch's new values on the (i-1)th tessellation
## (Spiros) By creating Images out of the meshes using interpolation: [DONE]
### [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software]
# (Mitch/Kevin/Charles) Help display Mitch's 3D data using predefined labels, etc..
## Experiment with 2D image of CFF(xi,t) at fixed Q2 vs. 3D image of CFF(xi,t,Q2)
### Linear vs. log axis. [DONE]
### Axis labels: convert (x,y,z), to (xi,t,CFF) or (xi,t,Q2) with color CFF scale [DONE]
### [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data#Other_Options_in_Paraview Instructions Available Here]
## Change PARTONS mesh to equal steps in log(xi) and log(Q2) [DONE]
# (Mitch/Gagik) Reproduce either Reimann or Lebesgue Integral calculations using [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for 2D [DONE]

=== Week June 15 - 19 ===
# (Spiros) Develop a generic interpolation filter for Mitch and write a high-level description (including VTK/ITK kernels used) to assist for future modifications
## [https://odu.app.box.com/folder/115714696781 Code folder] of [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software] [DONE]
## Fomulation of [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] [DONE]
## Compare [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] with [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] of Charles [DONE]
# (Spiros/Mitch) finish up the API for passing data image and vtk data to PARTON and close the loop
## (Spiros) Develop a function that reads and converts an image to a 3D lattice [DONE]
## (Spiros) Develop a function that reads the points and their weights of a tessellation [DONE]
## (Mitch) Close the loop [TODO]
# (Spiros) Convert partons data to nrrd properly, so that they can be visualized with Paraview [DONE]
# (Mitch/Gagik/Spiros) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for “smart lookup table for MC kernel”, produce 3D results and refactor the code:
## (Mitch) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] [DONE]
## (Spiros) Refactor Gagik's code, use VTK library and add comments [DONE]
## '''(Mitch/Gagik) Produce results using 3D tesselations [TODO]'''
# (Charles) in parallel work on a method for "smart lookup table"
## [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] [DONE], corrections, update, expansion in progress
## Compare with [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] and either consolidate the two or end up with two different methods. [TODO]

=== Week June 22 - 26 ===
# (Christian) Summary of CNF projects for 2019/20, [https://docs.google.com/presentation/d/1YuvSjHGvkB0I36gIxla58GxR-H3NtPd01w7ZtARDvuU/edit?usp=sharing CNF Summary Slides] [DONE]:
# (Charles/Gagik) Couple of Slides for use of adaptive tessellation in Monte Carlo and CFF approximation
# (Spiros) Creationg of a 4D Synthetic Image Generator
## HyperSphere (4D Sphere) [DONE]
## HyperCube (4D Cube) [DONE]
# (Mitch/Spiros) Parallelize Partons' code using OpenMP and submit jobs on Turing/Wahab.
## (Spiros) Help Mitch login and view files on Wahab [DONE]
## (Mitch/Spiros) Explore potential to parallelize Partons' code [TODO: Year 2021]
### It looks like requires more effort than our project could afford. It has to be moved as a task for next year.
## (Mitch) Explore potential to execute multiple jobs on Wahab [TODO]
### If this is hard as the item above might need to move for next year.
# (Mitch) Create write-up explanation of Gagiks Monte Carlo code [DONE]
##(Mitch/Spiros) Generalize MC Gagik's 2D code to 3D and consider potential higher dimensions [TODO: Year 2021]
# (Mitch) Re-run PARTONS at mesh points [DONE]
## Plot difference of original mesh to re-evaluated mesh in Paraview: Squared Difference [DONE]
## Plot new values on original tessellation points

=== Week June 29 - July 3 ===
# '''(O1)''' (Mitch/Gagik/Charles) Smart Lookup Table for Monte Carlo
## Compare Tessellation with either |f_a – f_b| metric or |f_a – f_b| / |f_a + f_b|
## First step is to redo PODM tessellation with same algorithm, but pass ln[Im[CFF]] instead of Im[CFF] to PODM
### In anticipation of 4D representations, calculate PARTONS values for full DVCS cross-section:
#### For discussion: Which variables to keep fixed, which variables to display
# '''(O2)''' (Spiros/Nikos) 3D/4D Tesselation for Nuclear Femtography
## Explore a new way to leverage 3D/4D I2M conversion and the new requirements for adaptivity relying on min I/O for PARTONS [Done]
### [https://crtc.cs.odu.edu/Internal:TetGen_CNF CNF Constained Mesher Prototype]
## (Christos/Spiros) Consider PDR worker initialization for initializing PODM and enabling remeshing or an existing mesh. [TODO: Year 2021]
### In the PDR.PODM framework after the initial mesh construction each worker receives a part of the mesh and refines it. During initialization one essentially starts from a serialized version of the mesh (similar to reading a file) and populates internal data structures. After all, is set, PODM works as usual.
### The same initialization method can be used here. Using this approach one can refine an existing mesh while keeping all previous vertex-based information.
### Keeping vertex-based information means than we can get produce adaptive results using just information of the new weights skipping thus the creation of intermediate images.
### As a further (future) step this approach can enable an "always in memory mesh" where the data are always in memory and being accessed by a common API from each component of the pipeline.
# '''(O3)''' (Spiros/Mitch/Charles) Visualization
## (Spiros) Explore a visualization option for 4D tesselations by extracting a 3D "slice" and then use ParaView to display results [TODO]
### Define what a 3D "slice" means in 4D space [TODO]
## (Mitch/Charles) Generate PARTON 4D and a 3D "slice" for these data, for validation of viz. [TODO]
### 4D (unpolarized cross-sections) differential in log(Q2), log(xB), t, phi [TODO]
## (Mitch/Kevin) Explore color palette options for displaying positive and negative values simultaneously [DONE]
# '''(O4)''' Integration with UVA and CNU
## Think about an on-line meeting on Monte Carlo Simulations in Nuclear Femtography?
## What is the status with UVA, are there any changes due to lack of additional funding?

=== Week July 6 - July 10 ===
# (Spiros / Mitch) Adaptivity Metrics
## Using local denominator
### max-min / mean (Not working)
### rms / mean (Not working)
### Note: Local denominators are not working well because of the fact that they perform local normalization which results in uniform gradation, and therefore a uniform mesh
## Using no denominator
### max-min: [https://crtc.cs.odu.edu/CNF:Mesh_Sizing_for_CNF_data#Method Original Method]
### Note: No denominators can work, but for each Image, the weight-limit needs to be tuned based on its weights.
## Using global denominator
### rms / globalMean (an idea which needs tweaking)
#### Note: not bounded
### rms / globalRms (Possibly working)
#### Note: not upper bounded [0, +oo)
### max-min / elementWeightRange
#### Note: bounded [0, 1]
### Note: Global denominators work, and the weight-limit is normalized based on the given image.
## [[CNF:Metric Figures | Metric Figures]]
## Useful Filter: [https://itk.org/Doxygen/html/classitk_1_1StatisticsImageFilter.html StatisticsImageFilter]

=== Week July 13 - July 17 ===
# (Spiros/Mitch/Wirawan) Software Engineering Aspects for [https://crtc.cs.odu.edu/CNF:CNF_Data_Generation CNF Data Generation]
## (Spiros/Mitch) Maintenance and Clarity (re-organized Mitch's code) [DONE]
## (Spiros/Wirawan) Improve End-User Productivity with Distributed Computing of Partons CNF Data Generation [TODO]
# (Spiros/Mitch/Charles) Design of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities]
## (Mitch/Charles) Identify Requirements [TODO]
## (Spiros) Design a library that satisfies the requirements [TODO with a supplement]
# (Spiros) Design of a templated software, [https://crtc.cs.odu.edu/CNF:Monte_Carlo_Event_Generator_using_a_Tessellation Monte Carlo Event Generator using a Tessellation] [TODO with a supplement]
## Re-organize Gagik's 2D code, CMI, templated for 2-3-4 dimensions, improve the complexity of search for given cell weight (from linear to binary) and parallelization using OpenMP
# (Spiros) Sizing function Modifications:
## Change way of calculating value for sampling points
### Old version: assign the value of sampling point using to the closest pixel value
### New version: assign the value of sampling point using interpolation over the image [DONE]
### Reason of change: The problem with the old way of assigning values to the sampling points is that there is a high possibility of 2 or more sampling points having the same assigned value. I think that we can solve this issue by assigning values using interpolation to be sure that every sampling point would have a unique assigned value. This way we would need fewer elements to be able to capture the gradation.
## Change Default max-Edge from Diagonal * 1/10 to Diagonal 2/10 [DONE]
### Reason of change: this way we create larger elements in regions that are not of interest
# (Spiros/Kevin/Mitch) Results:
## (Spiros/Kevin) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img GPDGK16_uH_img] (with new sizing function) [DONE]
### Mitch generated the data the previous week
## (Mitch) Generate a new tesselation with GPDGK16_uH_nxi_210 (with old sizing function) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img_nxi.3D211 GPDGK16_uH_img_nxi=211] [DONE]
# (Mitch/Charles/Spiros)Generate Monte Carlo events of unpolarized DVCS Cross-Section
## Generalize Gagiks monte carlo kernel into 3D or N-Dimensional [DONE]
## Implement "acceptance rejection" algorithm from [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
## [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation]
## Updated Document on Interpolation with Simplices: [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
### Plot in ROOT CFF monte carlo events from tessellation [DONE]
### Generate unpolarized cross-section tessellation (needs to be parallelized ~10min per point) [TODO]
## (Spiros/Mitch) Add needed methods from Spiros's library [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [TODO]
# (Mitch/Charles) Analyze CFF and Cross Section results
## Plot RMS deviation of cell points from CFF mesh
## Plot and fit t dependence of CFF at fixed value of Q2, calculate RMSD of fit, extract fit parameters
# (All) [https://docs.google.com/presentation/d/1z_7XDMlsOUpJg-0yk0kMJmjLJdG4y7wx8bBrc_MMrC0/edit?usp=sharing CNF Adaptivity Pipeline] [DONE] and good progress toward "Smart Lookup Table"[[File:Photo_Mid_Report_July16_2020.png|500px|Photo_Mid_Report_July16_2020.png]]

=== Week July 20 - July 24 ===
# (Spiros) Implementation of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [DONE]
# (Spiros) Interpolate Kevin's CDT3D meshes [https://odu.box.com/s/vpps3wl1k9szx213y95q6sj4mim36sts Box Folder] [DONE]
# (Mitch) Make flow-chart explanation of "smart look-up table" and Monte Carlo code [https://docs.google.com/presentation/d/1KeR3h6ReyzVARX0qnBKaht97GCy0pa-6ruFDkmhoHMU/edit?usp=sharing] [DONE]
## Write driver for point look-up [Done but needs testing]
# (Mitch/Kevin) Generate mesh from PARTONS values generated on the boundaries of phase space volume
# (Mitch/Charles) Compare the different meshes and evaluate the accuracy of the interpolations
## Using barycenter [[Media:CentroidError.png]] [DONE]
# (Mitch/Charles) Change of variables for CFF generation from: ξ-> XBj and t->t' . Reproduce mesh for new variables [DONE]

=== Week July 27 - July 31 ===
# (Spiros) New version of CRTC_I2M docker file and documentation. [DONE]
## The Changes for PODM3D are:
### --min-edge is now a parameter that expresses the percentage of the diagonal that will be used as min-edge. Default 1/ sqrt(3).
### (New parameter) --max-edge is a parameter that expresses the percentage of the diagonal that will be used as max-edge. Default 10.
### (New parameter) --parallel-mesh-results is a flag that computes the mesh results in parallel if more than 1 thread is used.
### (New parameter) --file-format is a parameter that defines the output format BINARY or ASCII. Default binary.
# (Mitch) Generate tessellations in XBj and t' for imaginary and ln(real) parts of CFF using new PODM3D docker
## Plot interpolation error at centroid
# (Mitch) Outline a code to compute DVCS cross section
## Understand/modify the Bethe Heitler CS code
## Work through the dirac algebra

=== Week Aug 3 - Aug 7 ===
# (Charles, Mitch) New sizing function S[f,g]
## f = Im[CFF], g = Re[CFF]
## for each simplex with points '''X'''(''i'') ''i=0,1,2,3,'' and functional values ''f(i), g(i)''
::::: [[File:SizingReIm.png]]

== TODO with a potential supplement ==
# (Spiros) Compile a list of Utilities for pre- and post-processing functions for I2M conversion
## Examples should include: (i) fast search methods, (ii) smart lookup table functionality, etc.
# (All) Identify applications that could benefit from tessellations like nD numerical integration, data preservation, etc..
# (Spiros/Nikos) Explore Christian's request to compute 2D/3D function approximation for square/cube and a given analytic function defined on the square/cube

== TODO Year 2021 ==
# (Spiros/Mitch/Sean (REU)) Help Mitch parallelize Partons' code
# (Spiros) Template [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] to work for N-dimensions
# (Spiros) Develop a 2D/3D/4D Parallel Adaptive Delaunay Mesh Generator, where the input is a set of points

= Restricted Access (available to CNF Imaging Project i.e., CRTC/JLAB only) =
* [https://odu.box.com/s/ce6wc1ht1f96jx7lpafys1ue1piiyekc Shared box directory]
* [https://git-community.cs.odu.edu/crtc/Mesh-Generation/Parallel-Mesh-Generation/podm-superbuild PODM Docker image source files]
* [https://git-community.cs.odu.edu/crtc/websites/podm-documentation CRTC_I2M_Suite website build files]
* Adaptivity
** [[CNF:Mesh Sizing for CNF data]]
** [[CNF:CNF_Adaptivity]]
* [[CNF:Visualization for CNF data]]
* [[CNF:Machine Learning]]

* https://www.jlab.org/indico/event/335/
* [http://www.cs.odu.edu/crtc/videos/PODM3D.html Video of meshing procedure]

CNF:CNF

2020-07-30T20:30:21Z

Chyde: /* Week Aug 3 - Aug 7 */

= SURA CNF19-04 Project =
== Description ==
We propose an interdisciplinary project to leverage advanced computational methods from medical imaging for processing phase-space distributions in nuclear femtography experiments, with the aim to enable next-generation process simulations, data analyses, and physics model comparisons.

A detailed list of results for CNF cases received from JLAB are presented here:
[https://crtc.cs.odu.edu/CNF:Example_Meshes Example Meshes]

== Objectives of SURA CNF19-04 Project==
* (O1) Implement an n-dimensional mesh-based representation of phase space data using tessellation methods and test it in low-dimensional scenarios (n=3)
* (O2) Explore potential physics model comparisons enabled by the new technologies

== Short-term Deliverables (6 months) ==
<li style="display: inline-block;">
[[File: distributionquarks.png|thumb|right|350px| '''Distribution of the probability of quarks' existence based on the change in momentum''']]
# Post-processing of the output of the PARTONS GPD physics model for generation of NRDD/DICOM images and their segmentation (by July 1); -- [DONE]
# Generation of n-dimensional sequence of tessellations for numerical integration (by July 1); -- [DONE]
## software delivered to JLAB, May 2019: [https://crtc.cs.odu.edu/CRTC_I2M CRTC Image to Mesh Conversion Software Suite].
## software developed at JLAB to transform physics observable grids generated by the PARTONS framework to the data format used by ODU provided software.
# Use of Tesselation software gives the ability to view and analyze physics observables in a new way with modern tools. It also allows for fast, efficient Monte-Carlo generation of physics observables for event generation from tessellated objects. Computation of proton structures and physics observables are otherwise very computationally extensive. -- [IN PROGRESS]
## explore the option of generating graded meshes (by September).
# Experiment with 3D Slicer and Paraview open-source imaging and visualization systems to display visual representations of the entire space and/or m-slices, with m < n (by Sept. 30); -- [DONE]
## [http://www.cs.odu.edu/crtc/videos/paraview.html Imaging Demo using Paraview]
## [https://kitware.github.io/paraview-glance/doc/ Paraview Glance]
# Topical workshop including experts in imaging, exascale computing, uncertainty quantification, and nuclear physics to guide further developments (by Sept. 30). -- [DONE]
## Invited visitors and agenda is completed.
## The [https://cepm.cs.odu.edu/CNF_Imaging_Workshop CNF Imaging Workshop] took place on August 19th and 20th at JLab.
# [https://crtc.cs.odu.edu/CNF_Example_Meshes CNF mesh examples]
</li>

= SURA CNF20-001 Project =
== Objectives of SURA CNF20-001 Project==
(O1) Demonstrate that 3-dimensional tessellations can improve speed of basic nuclear femtography operations like Monte Carlo computations using a Nuclear Physics example

(O2) Extend the isotropic tessellations 4 dimensions Images (eg. 4D NRRD images)

(O3) Explore gradation in 4D tessellations using a given metric or sizing function

== Short-term Deliverables (3 months)==

'''August 15'''
* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Convert the output of PARTONS and UVA’s GPD generators into Nearly Raw Raster Data (NRRD) format (Liuiti, Heddle, Chrisochoides). This (ODU) group will be responsible for PARTONS and will assist UVA with GPD generators.
** Co-organize with Dr. Hyde as a chair a virtual workshop around mid-June on "The Integration of Imaging and Visualization in Femtography" (Hyde, Liuiti, Heddle, Chrisochoides)
* fine-tune existing 3D I2M conversion software tool and deliver a new Docker to JLab that enhances I/O and meets new requirements identified in the last six months (Chrisochoides/CS Gard. Student);
* pre-process 4D CNF data and create a 4D synthetic data set for developing the 4D triangulation method (Gavalian/Chrisochoides/Computer Science (CS) Grad. Student);
'''September 30, 2020:'''

* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Tesselation of Compton Form Factors using PARTONS and UVA GPD generators (Hyde, Liuiti, Chrisochoides)
* create 4D triangulation algorithm and code as a prelude to future physics implementations (Chrisochodes/CS Gard. Student);
* 3D-visualization plugins in ParaView of the flavor-dependent Compton form factors (Hyde/Chrisochoides/Physics and CS Gard. Students);
* “smart 3-dimensional lookup table” based on an '''adaptive or graded''' mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Phyiscs Grad. Student);

== Smart look-up tables ==

Objective: “smart 3-dimensional lookup table” based on adaptive mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Physics Grad. Student)

=== Timetable for paper on "smart lookup table" for fast MC simulations ===
# Define Region of Interest (RoI)
## Use NRRD image (done with CNF19-004): might be inefficient, but the definition of RoI is outside the scope of the paper
## Use a cube or closed 3D surface (to be tested, it can be done within a week): very efficient way to define the RoI, as well as it is known.
## use sparse and course set of points in a broader area and slowly converge to the RoI with as many points and their tessellation are required by a given metric.
### need to define a metric (Charles/Mitch): preliminary ideas by mid-August and finalize metric by end of August
# Implement smart lookup table using tessellation generated from (1)
## reproduce Gagik's results
### Mitch: understand the code and write a one-page description (Gagik to supervise the effort): mid of July, report progress in mid-report
### Mitch/Charles define (if there is a need) a new way that might involve UVA's data fitting method: a proposal by end of July.
#define an example problem pertinent to CNF/IEC where "smart lookup table for fast MC simulations''' are the dominant term in the execution time (Charles/Christian/Gagik)
## Putting Things Alltogether (end of August the latest first week of Sept.)
# Finish paper by end of September (All, Charles/Christian will define the skeleton and assign sections to CS and Physic subgroups)

=== Relevant Papers ===
(Note: Spiros will help to maintain links to all papers)
# [https://www.nature.com/articles/s41586-019-0925-9 Nature paper from JLab Nuclear Physics], [https://arxiv.org/pdf/2004.12065.pdf PDF]
# [https://www.sciencedirect.com/science/article/pii/S0021999117300670 Physics motivated example paper on tessellations from Journal of Computational Physics]
# [https://onlinelibrary.wiley.com/doi/abs/10.1002/jcc.21973 Paper relevant to tessellation and Monte Carlo calculations from Journal of Computational Chemistry]

==Weekly Reports==

=== Week May 17 - 22 ===
# (Michell/Spiros) Mitch needs to get the I2M Docker and become familiar with its usage [DONE]
# (All) Get to know the team: Michell (Physics) and the CS students that will be assisting in the API for the tessellation (Spiros) and ParaView for Visualization (Kevin) [DONE]
# (Charles/Michell/Nikos) Setup a proposal for a time table for this aspect of the project it will be fine-tuned and finalized in the first official meeting [DONE]
# (All) Talk about the wiki page we need to set up for our weekly reports [DONE]

=== Week May 25 - 30 ===
# (Spiros) Smooth transition Michell to use CRTC I2M conversion [DONE]
# (Mitch) Comfortable using CRTC's I2M conversion Docker, User Guided, read VTK tessellation file, etc.. [DONE]
# (Kevin) Identify 3D ParaView Plugins that we might need to display results [DONE]
# (Charles) Identify problem(s) to be addressed with the UVA and PARTON models [TODO]
# (Charles/Chistian/Gagik) Examples of target Journals we want to consider for paper submission [DONE]
# (Christos) Slides from 05-22 [https://docs.google.com/presentation/d/1yz8dxVXO82rFCtD9KWjG1PBvvP5VikAxTz07qoM3IqU here] [DONE]

=== Week June 1 - 6 ===
# (Spiros) Add binary IO for output meshes. [DONE]
# (Mitch/Gagik/Spiros) Finish converting PARTONS output data into NRRD format for PODM. [DONE]
# (Kevin) Practice utilizing and applying custom functions on data within Paraview [DONE]
## Examples: [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data Visualization page]
# (Charles) Why use NRRD format if it is optimal to calculate on non-uniform grid?
## (Spiros) because PODM currently supports images that are uniform grids. [DONE]

=== Week June 8 - 12 ===
# (Mitch/Charles) Compute PARTONS points at vertices of simplices,
## Question: Does the tesselation software store the interpolated values at the vertices or the simplex barycentres?
### Vertices [DONE]
## Construct difference of interpolation values at vertices with new computed PARTONS values [DONE]
# (Spiros/Nikos) Explore ways of producing the ith step of adaptive tessellation using Mitch's new values on the (i-1)th tessellation
## (Spiros) By creating Images out of the meshes using interpolation: [DONE]
### [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software]
# (Mitch/Kevin/Charles) Help display Mitch's 3D data using predefined labels, etc..
## Experiment with 2D image of CFF(xi,t) at fixed Q2 vs. 3D image of CFF(xi,t,Q2)
### Linear vs. log axis. [DONE]
### Axis labels: convert (x,y,z), to (xi,t,CFF) or (xi,t,Q2) with color CFF scale [DONE]
### [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data#Other_Options_in_Paraview Instructions Available Here]
## Change PARTONS mesh to equal steps in log(xi) and log(Q2) [DONE]
# (Mitch/Gagik) Reproduce either Reimann or Lebesgue Integral calculations using [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for 2D [DONE]

=== Week June 15 - 19 ===
# (Spiros) Develop a generic interpolation filter for Mitch and write a high-level description (including VTK/ITK kernels used) to assist for future modifications
## [https://odu.app.box.com/folder/115714696781 Code folder] of [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software] [DONE]
## Fomulation of [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] [DONE]
## Compare [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] with [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] of Charles [DONE]
# (Spiros/Mitch) finish up the API for passing data image and vtk data to PARTON and close the loop
## (Spiros) Develop a function that reads and converts an image to a 3D lattice [DONE]
## (Spiros) Develop a function that reads the points and their weights of a tessellation [DONE]
## (Mitch) Close the loop [TODO]
# (Spiros) Convert partons data to nrrd properly, so that they can be visualized with Paraview [DONE]
# (Mitch/Gagik/Spiros) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for “smart lookup table for MC kernel”, produce 3D results and refactor the code:
## (Mitch) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] [DONE]
## (Spiros) Refactor Gagik's code, use VTK library and add comments [DONE]
## '''(Mitch/Gagik) Produce results using 3D tesselations [TODO]'''
# (Charles) in parallel work on a method for "smart lookup table"
## [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] [DONE], corrections, update, expansion in progress
## Compare with [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] and either consolidate the two or end up with two different methods. [TODO]

=== Week June 22 - 26 ===
# (Christian) Summary of CNF projects for 2019/20, [https://docs.google.com/presentation/d/1YuvSjHGvkB0I36gIxla58GxR-H3NtPd01w7ZtARDvuU/edit?usp=sharing CNF Summary Slides] [DONE]:
# (Charles/Gagik) Couple of Slides for use of adaptive tessellation in Monte Carlo and CFF approximation
# (Spiros) Creationg of a 4D Synthetic Image Generator
## HyperSphere (4D Sphere) [DONE]
## HyperCube (4D Cube) [DONE]
# (Mitch/Spiros) Parallelize Partons' code using OpenMP and submit jobs on Turing/Wahab.
## (Spiros) Help Mitch login and view files on Wahab [DONE]
## (Mitch/Spiros) Explore potential to parallelize Partons' code [TODO: Year 2021]
### It looks like requires more effort than our project could afford. It has to be moved as a task for next year.
## (Mitch) Explore potential to execute multiple jobs on Wahab [TODO]
### If this is hard as the item above might need to move for next year.
# (Mitch) Create write-up explanation of Gagiks Monte Carlo code [DONE]
##(Mitch/Spiros) Generalize MC Gagik's 2D code to 3D and consider potential higher dimensions [TODO: Year 2021]
# (Mitch) Re-run PARTONS at mesh points [DONE]
## Plot difference of original mesh to re-evaluated mesh in Paraview: Squared Difference [DONE]
## Plot new values on original tessellation points

=== Week June 29 - July 3 ===
# '''(O1)''' (Mitch/Gagik/Charles) Smart Lookup Table for Monte Carlo
## Compare Tessellation with either |f_a – f_b| metric or |f_a – f_b| / |f_a + f_b|
## First step is to redo PODM tessellation with same algorithm, but pass ln[Im[CFF]] instead of Im[CFF] to PODM
### In anticipation of 4D representations, calculate PARTONS values for full DVCS cross-section:
#### For discussion: Which variables to keep fixed, which variables to display
# '''(O2)''' (Spiros/Nikos) 3D/4D Tesselation for Nuclear Femtography
## Explore a new way to leverage 3D/4D I2M conversion and the new requirements for adaptivity relying on min I/O for PARTONS [Done]
### [https://crtc.cs.odu.edu/Internal:TetGen_CNF CNF Constained Mesher Prototype]
## (Christos/Spiros) Consider PDR worker initialization for initializing PODM and enabling remeshing or an existing mesh. [TODO: Year 2021]
### In the PDR.PODM framework after the initial mesh construction each worker receives a part of the mesh and refines it. During initialization one essentially starts from a serialized version of the mesh (similar to reading a file) and populates internal data structures. After all, is set, PODM works as usual.
### The same initialization method can be used here. Using this approach one can refine an existing mesh while keeping all previous vertex-based information.
### Keeping vertex-based information means than we can get produce adaptive results using just information of the new weights skipping thus the creation of intermediate images.
### As a further (future) step this approach can enable an "always in memory mesh" where the data are always in memory and being accessed by a common API from each component of the pipeline.
# '''(O3)''' (Spiros/Mitch/Charles) Visualization
## (Spiros) Explore a visualization option for 4D tesselations by extracting a 3D "slice" and then use ParaView to display results [TODO]
### Define what a 3D "slice" means in 4D space [TODO]
## (Mitch/Charles) Generate PARTON 4D and a 3D "slice" for these data, for validation of viz. [TODO]
### 4D (unpolarized cross-sections) differential in log(Q2), log(xB), t, phi [TODO]
## (Mitch/Kevin) Explore color palette options for displaying positive and negative values simultaneously [DONE]
# '''(O4)''' Integration with UVA and CNU
## Think about an on-line meeting on Monte Carlo Simulations in Nuclear Femtography?
## What is the status with UVA, are there any changes due to lack of additional funding?

=== Week July 6 - July 10 ===
# (Spiros / Mitch) Adaptivity Metrics
## Using local denominator
### max-min / mean (Not working)
### rms / mean (Not working)
### Note: Local denominators are not working well because of the fact that they perform local normalization which results in uniform gradation, and therefore a uniform mesh
## Using no denominator
### max-min: [https://crtc.cs.odu.edu/CNF:Mesh_Sizing_for_CNF_data#Method Original Method]
### Note: No denominators can work, but for each Image, the weight-limit needs to be tuned based on its weights.
## Using global denominator
### rms / globalMean (an idea which needs tweaking)
#### Note: not bounded
### rms / globalRms (Possibly working)
#### Note: not upper bounded [0, +oo)
### max-min / elementWeightRange
#### Note: bounded [0, 1]
### Note: Global denominators work, and the weight-limit is normalized based on the given image.
## [[CNF:Metric Figures | Metric Figures]]
## Useful Filter: [https://itk.org/Doxygen/html/classitk_1_1StatisticsImageFilter.html StatisticsImageFilter]

=== Week July 13 - July 17 ===
# (Spiros/Mitch/Wirawan) Software Engineering Aspects for [https://crtc.cs.odu.edu/CNF:CNF_Data_Generation CNF Data Generation]
## (Spiros/Mitch) Maintenance and Clarity (re-organized Mitch's code) [DONE]
## (Spiros/Wirawan) Improve End-User Productivity with Distributed Computing of Partons CNF Data Generation [TODO]
# (Spiros/Mitch/Charles) Design of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities]
## (Mitch/Charles) Identify Requirements [TODO]
## (Spiros) Design a library that satisfies the requirements [TODO with a supplement]
# (Spiros) Design of a templated software, [https://crtc.cs.odu.edu/CNF:Monte_Carlo_Event_Generator_using_a_Tessellation Monte Carlo Event Generator using a Tessellation] [TODO with a supplement]
## Re-organize Gagik's 2D code, CMI, templated for 2-3-4 dimensions, improve the complexity of search for given cell weight (from linear to binary) and parallelization using OpenMP
# (Spiros) Sizing function Modifications:
## Change way of calculating value for sampling points
### Old version: assign the value of sampling point using to the closest pixel value
### New version: assign the value of sampling point using interpolation over the image [DONE]
### Reason of change: The problem with the old way of assigning values to the sampling points is that there is a high possibility of 2 or more sampling points having the same assigned value. I think that we can solve this issue by assigning values using interpolation to be sure that every sampling point would have a unique assigned value. This way we would need fewer elements to be able to capture the gradation.
## Change Default max-Edge from Diagonal * 1/10 to Diagonal 2/10 [DONE]
### Reason of change: this way we create larger elements in regions that are not of interest
# (Spiros/Kevin/Mitch) Results:
## (Spiros/Kevin) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img GPDGK16_uH_img] (with new sizing function) [DONE]
### Mitch generated the data the previous week
## (Mitch) Generate a new tesselation with GPDGK16_uH_nxi_210 (with old sizing function) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img_nxi.3D211 GPDGK16_uH_img_nxi=211] [DONE]
# (Mitch/Charles/Spiros)Generate Monte Carlo events of unpolarized DVCS Cross-Section
## Generalize Gagiks monte carlo kernel into 3D or N-Dimensional [DONE]
## Implement "acceptance rejection" algorithm from [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
## [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation]
## Updated Document on Interpolation with Simplices: [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
### Plot in ROOT CFF monte carlo events from tessellation [DONE]
### Generate unpolarized cross-section tessellation (needs to be parallelized ~10min per point) [TODO]
## (Spiros/Mitch) Add needed methods from Spiros's library [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [TODO]
# (Mitch/Charles) Analyze CFF and Cross Section results
## Plot RMS deviation of cell points from CFF mesh
## Plot and fit t dependence of CFF at fixed value of Q2, calculate RMSD of fit, extract fit parameters
# (All) [https://docs.google.com/presentation/d/1z_7XDMlsOUpJg-0yk0kMJmjLJdG4y7wx8bBrc_MMrC0/edit?usp=sharing CNF Adaptivity Pipeline] [DONE] and good progress toward "Smart Lookup Table"[[File:Photo_Mid_Report_July16_2020.png|500px|Photo_Mid_Report_July16_2020.png]]

=== Week July 20 - July 24 ===
# (Spiros) Implementation of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [DONE]
# (Spiros) Interpolate Kevin's CDT3D meshes [https://odu.box.com/s/vpps3wl1k9szx213y95q6sj4mim36sts Box Folder] [DONE]
# (Mitch) Make flow-chart explanation of "smart look-up table" and Monte Carlo code [https://docs.google.com/presentation/d/1KeR3h6ReyzVARX0qnBKaht97GCy0pa-6ruFDkmhoHMU/edit?usp=sharing] [DONE]
## Write driver for point look-up [Done but needs testing]
# (Mitch/Kevin) Generate mesh from PARTONS values generated on the boundaries of phase space volume
# (Mitch/Charles) Compare the different meshes and evaluate the accuracy of the interpolations
## Using barycenter [[Media:CentroidError.png]] [DONE]
# (Mitch/Charles) Change of variables for CFF generation from: ξ-> XBj and t->t' . Reproduce mesh for new variables [DONE]

=== Week July 27 - July 31 ===
# (Spiros) New version of CRTC_I2M docker file and documentation. [DONE]
## The Changes for PODM3D are:
### --min-edge is now a parameter that expresses the percentage of the diagonal that will be used as min-edge. Default 1/ sqrt(3).
### (New parameter) --max-edge is a parameter that expresses the percentage of the diagonal that will be used as max-edge. Default 10.
### (New parameter) --parallel-mesh-results is a flag that computes the mesh results in parallel if more than 1 thread is used.
### (New parameter) --file-format is a parameter that defines the output format BINARY or ASCII. Default binary.
# (Mitch) Generate tessellations in XBj and t' for imaginary and ln(real) parts of CFF using new PODM3D docker
## Plot interpolation error at centroid
# (Mitch) Outline a code to compute DVCS cross section
## Understand/modify the Bethe Heitler CS code
## Work through the dirac algebra

=== Week Aug 3 - Aug 7 ===
# (Charles, Mitch) New sizing function S[f,g]
## f = Im[CFF], g = Re[CFF]
## for each simplex with points '''X'''(''i'') ''i=0,1,2,3,'' and functional values ''f(i), g(i)''
::: [[File:SizingReIm.png]]

== TODO with a potential supplement ==
# (Spiros) Compile a list of Utilities for pre- and post-processing functions for I2M conversion
## Examples should include: (i) fast search methods, (ii) smart lookup table functionality, etc.
# (All) Identify applications that could benefit from tessellations like nD numerical integration, data preservation, etc..
# (Spiros/Nikos) Explore Christian's request to compute 2D/3D function approximation for square/cube and a given analytic function defined on the square/cube

== TODO Year 2021 ==
# (Spiros/Mitch/Sean (REU)) Help Mitch parallelize Partons' code
# (Spiros) Template [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] to work for N-dimensions
# (Spiros) Develop a 2D/3D/4D Parallel Adaptive Delaunay Mesh Generator, where the input is a set of points

= Restricted Access (available to CNF Imaging Project i.e., CRTC/JLAB only) =
* [https://odu.box.com/s/ce6wc1ht1f96jx7lpafys1ue1piiyekc Shared box directory]
* [https://git-community.cs.odu.edu/crtc/Mesh-Generation/Parallel-Mesh-Generation/podm-superbuild PODM Docker image source files]
* [https://git-community.cs.odu.edu/crtc/websites/podm-documentation CRTC_I2M_Suite website build files]
* Adaptivity
** [[CNF:Mesh Sizing for CNF data]]
** [[CNF:CNF_Adaptivity]]
* [[CNF:Visualization for CNF data]]
* [[CNF:Machine Learning]]

* https://www.jlab.org/indico/event/335/
* [http://www.cs.odu.edu/crtc/videos/PODM3D.html Video of meshing procedure]

CNF:CNF

2020-07-30T20:27:45Z

Chyde: /* Week Aug 3 - Aug 7 */

= SURA CNF19-04 Project =
== Description ==
We propose an interdisciplinary project to leverage advanced computational methods from medical imaging for processing phase-space distributions in nuclear femtography experiments, with the aim to enable next-generation process simulations, data analyses, and physics model comparisons.

A detailed list of results for CNF cases received from JLAB are presented here:
[https://crtc.cs.odu.edu/CNF:Example_Meshes Example Meshes]

== Objectives of SURA CNF19-04 Project==
* (O1) Implement an n-dimensional mesh-based representation of phase space data using tessellation methods and test it in low-dimensional scenarios (n=3)
* (O2) Explore potential physics model comparisons enabled by the new technologies

== Short-term Deliverables (6 months) ==
<li style="display: inline-block;">
[[File: distributionquarks.png|thumb|right|350px| '''Distribution of the probability of quarks' existence based on the change in momentum''']]
# Post-processing of the output of the PARTONS GPD physics model for generation of NRDD/DICOM images and their segmentation (by July 1); -- [DONE]
# Generation of n-dimensional sequence of tessellations for numerical integration (by July 1); -- [DONE]
## software delivered to JLAB, May 2019: [https://crtc.cs.odu.edu/CRTC_I2M CRTC Image to Mesh Conversion Software Suite].
## software developed at JLAB to transform physics observable grids generated by the PARTONS framework to the data format used by ODU provided software.
# Use of Tesselation software gives the ability to view and analyze physics observables in a new way with modern tools. It also allows for fast, efficient Monte-Carlo generation of physics observables for event generation from tessellated objects. Computation of proton structures and physics observables are otherwise very computationally extensive. -- [IN PROGRESS]
## explore the option of generating graded meshes (by September).
# Experiment with 3D Slicer and Paraview open-source imaging and visualization systems to display visual representations of the entire space and/or m-slices, with m < n (by Sept. 30); -- [DONE]
## [http://www.cs.odu.edu/crtc/videos/paraview.html Imaging Demo using Paraview]
## [https://kitware.github.io/paraview-glance/doc/ Paraview Glance]
# Topical workshop including experts in imaging, exascale computing, uncertainty quantification, and nuclear physics to guide further developments (by Sept. 30). -- [DONE]
## Invited visitors and agenda is completed.
## The [https://cepm.cs.odu.edu/CNF_Imaging_Workshop CNF Imaging Workshop] took place on August 19th and 20th at JLab.
# [https://crtc.cs.odu.edu/CNF_Example_Meshes CNF mesh examples]
</li>

= SURA CNF20-001 Project =
== Objectives of SURA CNF20-001 Project==
(O1) Demonstrate that 3-dimensional tessellations can improve speed of basic nuclear femtography operations like Monte Carlo computations using a Nuclear Physics example

(O2) Extend the isotropic tessellations 4 dimensions Images (eg. 4D NRRD images)

(O3) Explore gradation in 4D tessellations using a given metric or sizing function

== Short-term Deliverables (3 months)==

'''August 15'''
* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Convert the output of PARTONS and UVA’s GPD generators into Nearly Raw Raster Data (NRRD) format (Liuiti, Heddle, Chrisochoides). This (ODU) group will be responsible for PARTONS and will assist UVA with GPD generators.
** Co-organize with Dr. Hyde as a chair a virtual workshop around mid-June on "The Integration of Imaging and Visualization in Femtography" (Hyde, Liuiti, Heddle, Chrisochoides)
* fine-tune existing 3D I2M conversion software tool and deliver a new Docker to JLab that enhances I/O and meets new requirements identified in the last six months (Chrisochoides/CS Gard. Student);
* pre-process 4D CNF data and create a 4D synthetic data set for developing the 4D triangulation method (Gavalian/Chrisochoides/Computer Science (CS) Grad. Student);
'''September 30, 2020:'''

* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Tesselation of Compton Form Factors using PARTONS and UVA GPD generators (Hyde, Liuiti, Chrisochoides)
* create 4D triangulation algorithm and code as a prelude to future physics implementations (Chrisochodes/CS Gard. Student);
* 3D-visualization plugins in ParaView of the flavor-dependent Compton form factors (Hyde/Chrisochoides/Physics and CS Gard. Students);
* “smart 3-dimensional lookup table” based on an '''adaptive or graded''' mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Phyiscs Grad. Student);

== Smart look-up tables ==

Objective: “smart 3-dimensional lookup table” based on adaptive mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Physics Grad. Student)

=== Timetable for paper on "smart lookup table" for fast MC simulations ===
# Define Region of Interest (RoI)
## Use NRRD image (done with CNF19-004): might be inefficient, but the definition of RoI is outside the scope of the paper
## Use a cube or closed 3D surface (to be tested, it can be done within a week): very efficient way to define the RoI, as well as it is known.
## use sparse and course set of points in a broader area and slowly converge to the RoI with as many points and their tessellation are required by a given metric.
### need to define a metric (Charles/Mitch): preliminary ideas by mid-August and finalize metric by end of August
# Implement smart lookup table using tessellation generated from (1)
## reproduce Gagik's results
### Mitch: understand the code and write a one-page description (Gagik to supervise the effort): mid of July, report progress in mid-report
### Mitch/Charles define (if there is a need) a new way that might involve UVA's data fitting method: a proposal by end of July.
#define an example problem pertinent to CNF/IEC where "smart lookup table for fast MC simulations''' are the dominant term in the execution time (Charles/Christian/Gagik)
## Putting Things Alltogether (end of August the latest first week of Sept.)
# Finish paper by end of September (All, Charles/Christian will define the skeleton and assign sections to CS and Physic subgroups)

=== Relevant Papers ===
(Note: Spiros will help to maintain links to all papers)
# [https://www.nature.com/articles/s41586-019-0925-9 Nature paper from JLab Nuclear Physics], [https://arxiv.org/pdf/2004.12065.pdf PDF]
# [https://www.sciencedirect.com/science/article/pii/S0021999117300670 Physics motivated example paper on tessellations from Journal of Computational Physics]
# [https://onlinelibrary.wiley.com/doi/abs/10.1002/jcc.21973 Paper relevant to tessellation and Monte Carlo calculations from Journal of Computational Chemistry]

==Weekly Reports==

=== Week May 17 - 22 ===
# (Michell/Spiros) Mitch needs to get the I2M Docker and become familiar with its usage [DONE]
# (All) Get to know the team: Michell (Physics) and the CS students that will be assisting in the API for the tessellation (Spiros) and ParaView for Visualization (Kevin) [DONE]
# (Charles/Michell/Nikos) Setup a proposal for a time table for this aspect of the project it will be fine-tuned and finalized in the first official meeting [DONE]
# (All) Talk about the wiki page we need to set up for our weekly reports [DONE]

=== Week May 25 - 30 ===
# (Spiros) Smooth transition Michell to use CRTC I2M conversion [DONE]
# (Mitch) Comfortable using CRTC's I2M conversion Docker, User Guided, read VTK tessellation file, etc.. [DONE]
# (Kevin) Identify 3D ParaView Plugins that we might need to display results [DONE]
# (Charles) Identify problem(s) to be addressed with the UVA and PARTON models [TODO]
# (Charles/Chistian/Gagik) Examples of target Journals we want to consider for paper submission [DONE]
# (Christos) Slides from 05-22 [https://docs.google.com/presentation/d/1yz8dxVXO82rFCtD9KWjG1PBvvP5VikAxTz07qoM3IqU here] [DONE]

=== Week June 1 - 6 ===
# (Spiros) Add binary IO for output meshes. [DONE]
# (Mitch/Gagik/Spiros) Finish converting PARTONS output data into NRRD format for PODM. [DONE]
# (Kevin) Practice utilizing and applying custom functions on data within Paraview [DONE]
## Examples: [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data Visualization page]
# (Charles) Why use NRRD format if it is optimal to calculate on non-uniform grid?
## (Spiros) because PODM currently supports images that are uniform grids. [DONE]

=== Week June 8 - 12 ===
# (Mitch/Charles) Compute PARTONS points at vertices of simplices,
## Question: Does the tesselation software store the interpolated values at the vertices or the simplex barycentres?
### Vertices [DONE]
## Construct difference of interpolation values at vertices with new computed PARTONS values [DONE]
# (Spiros/Nikos) Explore ways of producing the ith step of adaptive tessellation using Mitch's new values on the (i-1)th tessellation
## (Spiros) By creating Images out of the meshes using interpolation: [DONE]
### [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software]
# (Mitch/Kevin/Charles) Help display Mitch's 3D data using predefined labels, etc..
## Experiment with 2D image of CFF(xi,t) at fixed Q2 vs. 3D image of CFF(xi,t,Q2)
### Linear vs. log axis. [DONE]
### Axis labels: convert (x,y,z), to (xi,t,CFF) or (xi,t,Q2) with color CFF scale [DONE]
### [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data#Other_Options_in_Paraview Instructions Available Here]
## Change PARTONS mesh to equal steps in log(xi) and log(Q2) [DONE]
# (Mitch/Gagik) Reproduce either Reimann or Lebesgue Integral calculations using [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for 2D [DONE]

=== Week June 15 - 19 ===
# (Spiros) Develop a generic interpolation filter for Mitch and write a high-level description (including VTK/ITK kernels used) to assist for future modifications
## [https://odu.app.box.com/folder/115714696781 Code folder] of [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software] [DONE]
## Fomulation of [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] [DONE]
## Compare [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] with [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] of Charles [DONE]
# (Spiros/Mitch) finish up the API for passing data image and vtk data to PARTON and close the loop
## (Spiros) Develop a function that reads and converts an image to a 3D lattice [DONE]
## (Spiros) Develop a function that reads the points and their weights of a tessellation [DONE]
## (Mitch) Close the loop [TODO]
# (Spiros) Convert partons data to nrrd properly, so that they can be visualized with Paraview [DONE]
# (Mitch/Gagik/Spiros) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for “smart lookup table for MC kernel”, produce 3D results and refactor the code:
## (Mitch) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] [DONE]
## (Spiros) Refactor Gagik's code, use VTK library and add comments [DONE]
## '''(Mitch/Gagik) Produce results using 3D tesselations [TODO]'''
# (Charles) in parallel work on a method for "smart lookup table"
## [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] [DONE], corrections, update, expansion in progress
## Compare with [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] and either consolidate the two or end up with two different methods. [TODO]

=== Week June 22 - 26 ===
# (Christian) Summary of CNF projects for 2019/20, [https://docs.google.com/presentation/d/1YuvSjHGvkB0I36gIxla58GxR-H3NtPd01w7ZtARDvuU/edit?usp=sharing CNF Summary Slides] [DONE]:
# (Charles/Gagik) Couple of Slides for use of adaptive tessellation in Monte Carlo and CFF approximation
# (Spiros) Creationg of a 4D Synthetic Image Generator
## HyperSphere (4D Sphere) [DONE]
## HyperCube (4D Cube) [DONE]
# (Mitch/Spiros) Parallelize Partons' code using OpenMP and submit jobs on Turing/Wahab.
## (Spiros) Help Mitch login and view files on Wahab [DONE]
## (Mitch/Spiros) Explore potential to parallelize Partons' code [TODO: Year 2021]
### It looks like requires more effort than our project could afford. It has to be moved as a task for next year.
## (Mitch) Explore potential to execute multiple jobs on Wahab [TODO]
### If this is hard as the item above might need to move for next year.
# (Mitch) Create write-up explanation of Gagiks Monte Carlo code [DONE]
##(Mitch/Spiros) Generalize MC Gagik's 2D code to 3D and consider potential higher dimensions [TODO: Year 2021]
# (Mitch) Re-run PARTONS at mesh points [DONE]
## Plot difference of original mesh to re-evaluated mesh in Paraview: Squared Difference [DONE]
## Plot new values on original tessellation points

=== Week June 29 - July 3 ===
# '''(O1)''' (Mitch/Gagik/Charles) Smart Lookup Table for Monte Carlo
## Compare Tessellation with either |f_a – f_b| metric or |f_a – f_b| / |f_a + f_b|
## First step is to redo PODM tessellation with same algorithm, but pass ln[Im[CFF]] instead of Im[CFF] to PODM
### In anticipation of 4D representations, calculate PARTONS values for full DVCS cross-section:
#### For discussion: Which variables to keep fixed, which variables to display
# '''(O2)''' (Spiros/Nikos) 3D/4D Tesselation for Nuclear Femtography
## Explore a new way to leverage 3D/4D I2M conversion and the new requirements for adaptivity relying on min I/O for PARTONS [Done]
### [https://crtc.cs.odu.edu/Internal:TetGen_CNF CNF Constained Mesher Prototype]
## (Christos/Spiros) Consider PDR worker initialization for initializing PODM and enabling remeshing or an existing mesh. [TODO: Year 2021]
### In the PDR.PODM framework after the initial mesh construction each worker receives a part of the mesh and refines it. During initialization one essentially starts from a serialized version of the mesh (similar to reading a file) and populates internal data structures. After all, is set, PODM works as usual.
### The same initialization method can be used here. Using this approach one can refine an existing mesh while keeping all previous vertex-based information.
### Keeping vertex-based information means than we can get produce adaptive results using just information of the new weights skipping thus the creation of intermediate images.
### As a further (future) step this approach can enable an "always in memory mesh" where the data are always in memory and being accessed by a common API from each component of the pipeline.
# '''(O3)''' (Spiros/Mitch/Charles) Visualization
## (Spiros) Explore a visualization option for 4D tesselations by extracting a 3D "slice" and then use ParaView to display results [TODO]
### Define what a 3D "slice" means in 4D space [TODO]
## (Mitch/Charles) Generate PARTON 4D and a 3D "slice" for these data, for validation of viz. [TODO]
### 4D (unpolarized cross-sections) differential in log(Q2), log(xB), t, phi [TODO]
## (Mitch/Kevin) Explore color palette options for displaying positive and negative values simultaneously [DONE]
# '''(O4)''' Integration with UVA and CNU
## Think about an on-line meeting on Monte Carlo Simulations in Nuclear Femtography?
## What is the status with UVA, are there any changes due to lack of additional funding?

=== Week July 6 - July 10 ===
# (Spiros / Mitch) Adaptivity Metrics
## Using local denominator
### max-min / mean (Not working)
### rms / mean (Not working)
### Note: Local denominators are not working well because of the fact that they perform local normalization which results in uniform gradation, and therefore a uniform mesh
## Using no denominator
### max-min: [https://crtc.cs.odu.edu/CNF:Mesh_Sizing_for_CNF_data#Method Original Method]
### Note: No denominators can work, but for each Image, the weight-limit needs to be tuned based on its weights.
## Using global denominator
### rms / globalMean (an idea which needs tweaking)
#### Note: not bounded
### rms / globalRms (Possibly working)
#### Note: not upper bounded [0, +oo)
### max-min / elementWeightRange
#### Note: bounded [0, 1]
### Note: Global denominators work, and the weight-limit is normalized based on the given image.
## [[CNF:Metric Figures | Metric Figures]]
## Useful Filter: [https://itk.org/Doxygen/html/classitk_1_1StatisticsImageFilter.html StatisticsImageFilter]

=== Week July 13 - July 17 ===
# (Spiros/Mitch/Wirawan) Software Engineering Aspects for [https://crtc.cs.odu.edu/CNF:CNF_Data_Generation CNF Data Generation]
## (Spiros/Mitch) Maintenance and Clarity (re-organized Mitch's code) [DONE]
## (Spiros/Wirawan) Improve End-User Productivity with Distributed Computing of Partons CNF Data Generation [TODO]
# (Spiros/Mitch/Charles) Design of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities]
## (Mitch/Charles) Identify Requirements [TODO]
## (Spiros) Design a library that satisfies the requirements [TODO with a supplement]
# (Spiros) Design of a templated software, [https://crtc.cs.odu.edu/CNF:Monte_Carlo_Event_Generator_using_a_Tessellation Monte Carlo Event Generator using a Tessellation] [TODO with a supplement]
## Re-organize Gagik's 2D code, CMI, templated for 2-3-4 dimensions, improve the complexity of search for given cell weight (from linear to binary) and parallelization using OpenMP
# (Spiros) Sizing function Modifications:
## Change way of calculating value for sampling points
### Old version: assign the value of sampling point using to the closest pixel value
### New version: assign the value of sampling point using interpolation over the image [DONE]
### Reason of change: The problem with the old way of assigning values to the sampling points is that there is a high possibility of 2 or more sampling points having the same assigned value. I think that we can solve this issue by assigning values using interpolation to be sure that every sampling point would have a unique assigned value. This way we would need fewer elements to be able to capture the gradation.
## Change Default max-Edge from Diagonal * 1/10 to Diagonal 2/10 [DONE]
### Reason of change: this way we create larger elements in regions that are not of interest
# (Spiros/Kevin/Mitch) Results:
## (Spiros/Kevin) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img GPDGK16_uH_img] (with new sizing function) [DONE]
### Mitch generated the data the previous week
## (Mitch) Generate a new tesselation with GPDGK16_uH_nxi_210 (with old sizing function) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img_nxi.3D211 GPDGK16_uH_img_nxi=211] [DONE]
# (Mitch/Charles/Spiros)Generate Monte Carlo events of unpolarized DVCS Cross-Section
## Generalize Gagiks monte carlo kernel into 3D or N-Dimensional [DONE]
## Implement "acceptance rejection" algorithm from [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
## [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation]
## Updated Document on Interpolation with Simplices: [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
### Plot in ROOT CFF monte carlo events from tessellation [DONE]
### Generate unpolarized cross-section tessellation (needs to be parallelized ~10min per point) [TODO]
## (Spiros/Mitch) Add needed methods from Spiros's library [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [TODO]
# (Mitch/Charles) Analyze CFF and Cross Section results
## Plot RMS deviation of cell points from CFF mesh
## Plot and fit t dependence of CFF at fixed value of Q2, calculate RMSD of fit, extract fit parameters
# (All) [https://docs.google.com/presentation/d/1z_7XDMlsOUpJg-0yk0kMJmjLJdG4y7wx8bBrc_MMrC0/edit?usp=sharing CNF Adaptivity Pipeline] [DONE] and good progress toward "Smart Lookup Table"[[File:Photo_Mid_Report_July16_2020.png|500px|Photo_Mid_Report_July16_2020.png]]

=== Week July 20 - July 24 ===
# (Spiros) Implementation of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [DONE]
# (Spiros) Interpolate Kevin's CDT3D meshes [https://odu.box.com/s/vpps3wl1k9szx213y95q6sj4mim36sts Box Folder] [DONE]
# (Mitch) Make flow-chart explanation of "smart look-up table" and Monte Carlo code [https://docs.google.com/presentation/d/1KeR3h6ReyzVARX0qnBKaht97GCy0pa-6ruFDkmhoHMU/edit?usp=sharing] [DONE]
## Write driver for point look-up [Done but needs testing]
# (Mitch/Kevin) Generate mesh from PARTONS values generated on the boundaries of phase space volume
# (Mitch/Charles) Compare the different meshes and evaluate the accuracy of the interpolations
## Using barycenter [[Media:CentroidError.png]] [DONE]
# (Mitch/Charles) Change of variables for CFF generation from: ξ-> XBj and t->t' . Reproduce mesh for new variables [DONE]

=== Week July 27 - July 31 ===
# (Spiros) New version of CRTC_I2M docker file and documentation. [DONE]
## The Changes for PODM3D are:
### --min-edge is now a parameter that expresses the percentage of the diagonal that will be used as min-edge. Default 1/ sqrt(3).
### (New parameter) --max-edge is a parameter that expresses the percentage of the diagonal that will be used as max-edge. Default 10.
### (New parameter) --parallel-mesh-results is a flag that computes the mesh results in parallel if more than 1 thread is used.
### (New parameter) --file-format is a parameter that defines the output format BINARY or ASCII. Default binary.
# (Mitch) Generate tessellations in XBj and t' for imaginary and ln(real) parts of CFF using new PODM3D docker
## Plot interpolation error at centroid
# (Mitch) Outline a code to compute DVCS cross section
## Understand/modify the Bethe Heitler CS code
## Work through the dirac algebra

=== Week Aug 3 - Aug 7 ===
# (Charles, Mitch) New sizing function S[f,g]
## f = Im[CFF], g = Re[CFF]
## for each simplex with points '''X'''(''i'') ''i=0,1,2,3,'' and functional values ''f(i), g(i)''
*** [[File:SizingReIm.png]]

== TODO with a potential supplement ==
# (Spiros) Compile a list of Utilities for pre- and post-processing functions for I2M conversion
## Examples should include: (i) fast search methods, (ii) smart lookup table functionality, etc.
# (All) Identify applications that could benefit from tessellations like nD numerical integration, data preservation, etc..
# (Spiros/Nikos) Explore Christian's request to compute 2D/3D function approximation for square/cube and a given analytic function defined on the square/cube

== TODO Year 2021 ==
# (Spiros/Mitch/Sean (REU)) Help Mitch parallelize Partons' code
# (Spiros) Template [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] to work for N-dimensions
# (Spiros) Develop a 2D/3D/4D Parallel Adaptive Delaunay Mesh Generator, where the input is a set of points

= Restricted Access (available to CNF Imaging Project i.e., CRTC/JLAB only) =
* [https://odu.box.com/s/ce6wc1ht1f96jx7lpafys1ue1piiyekc Shared box directory]
* [https://git-community.cs.odu.edu/crtc/Mesh-Generation/Parallel-Mesh-Generation/podm-superbuild PODM Docker image source files]
* [https://git-community.cs.odu.edu/crtc/websites/podm-documentation CRTC_I2M_Suite website build files]
* Adaptivity
** [[CNF:Mesh Sizing for CNF data]]
** [[CNF:CNF_Adaptivity]]
* [[CNF:Visualization for CNF data]]
* [[CNF:Machine Learning]]

* https://www.jlab.org/indico/event/335/
* [http://www.cs.odu.edu/crtc/videos/PODM3D.html Video of meshing procedure]

CNF:CNF

2020-07-30T20:26:27Z

Chyde: /* Week Aug 3 - Aug 7 */

= SURA CNF19-04 Project =
== Description ==
We propose an interdisciplinary project to leverage advanced computational methods from medical imaging for processing phase-space distributions in nuclear femtography experiments, with the aim to enable next-generation process simulations, data analyses, and physics model comparisons.

A detailed list of results for CNF cases received from JLAB are presented here:
[https://crtc.cs.odu.edu/CNF:Example_Meshes Example Meshes]

== Objectives of SURA CNF19-04 Project==
* (O1) Implement an n-dimensional mesh-based representation of phase space data using tessellation methods and test it in low-dimensional scenarios (n=3)
* (O2) Explore potential physics model comparisons enabled by the new technologies

== Short-term Deliverables (6 months) ==
<li style="display: inline-block;">
[[File: distributionquarks.png|thumb|right|350px| '''Distribution of the probability of quarks' existence based on the change in momentum''']]
# Post-processing of the output of the PARTONS GPD physics model for generation of NRDD/DICOM images and their segmentation (by July 1); -- [DONE]
# Generation of n-dimensional sequence of tessellations for numerical integration (by July 1); -- [DONE]
## software delivered to JLAB, May 2019: [https://crtc.cs.odu.edu/CRTC_I2M CRTC Image to Mesh Conversion Software Suite].
## software developed at JLAB to transform physics observable grids generated by the PARTONS framework to the data format used by ODU provided software.
# Use of Tesselation software gives the ability to view and analyze physics observables in a new way with modern tools. It also allows for fast, efficient Monte-Carlo generation of physics observables for event generation from tessellated objects. Computation of proton structures and physics observables are otherwise very computationally extensive. -- [IN PROGRESS]
## explore the option of generating graded meshes (by September).
# Experiment with 3D Slicer and Paraview open-source imaging and visualization systems to display visual representations of the entire space and/or m-slices, with m < n (by Sept. 30); -- [DONE]
## [http://www.cs.odu.edu/crtc/videos/paraview.html Imaging Demo using Paraview]
## [https://kitware.github.io/paraview-glance/doc/ Paraview Glance]
# Topical workshop including experts in imaging, exascale computing, uncertainty quantification, and nuclear physics to guide further developments (by Sept. 30). -- [DONE]
## Invited visitors and agenda is completed.
## The [https://cepm.cs.odu.edu/CNF_Imaging_Workshop CNF Imaging Workshop] took place on August 19th and 20th at JLab.
# [https://crtc.cs.odu.edu/CNF_Example_Meshes CNF mesh examples]
</li>

= SURA CNF20-001 Project =
== Objectives of SURA CNF20-001 Project==
(O1) Demonstrate that 3-dimensional tessellations can improve speed of basic nuclear femtography operations like Monte Carlo computations using a Nuclear Physics example

(O2) Extend the isotropic tessellations 4 dimensions Images (eg. 4D NRRD images)

(O3) Explore gradation in 4D tessellations using a given metric or sizing function

== Short-term Deliverables (3 months)==

'''August 15'''
* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Convert the output of PARTONS and UVA’s GPD generators into Nearly Raw Raster Data (NRRD) format (Liuiti, Heddle, Chrisochoides). This (ODU) group will be responsible for PARTONS and will assist UVA with GPD generators.
** Co-organize with Dr. Hyde as a chair a virtual workshop around mid-June on "The Integration of Imaging and Visualization in Femtography" (Hyde, Liuiti, Heddle, Chrisochoides)
* fine-tune existing 3D I2M conversion software tool and deliver a new Docker to JLab that enhances I/O and meets new requirements identified in the last six months (Chrisochoides/CS Gard. Student);
* pre-process 4D CNF data and create a 4D synthetic data set for developing the 4D triangulation method (Gavalian/Chrisochoides/Computer Science (CS) Grad. Student);
'''September 30, 2020:'''

* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Tesselation of Compton Form Factors using PARTONS and UVA GPD generators (Hyde, Liuiti, Chrisochoides)
* create 4D triangulation algorithm and code as a prelude to future physics implementations (Chrisochodes/CS Gard. Student);
* 3D-visualization plugins in ParaView of the flavor-dependent Compton form factors (Hyde/Chrisochoides/Physics and CS Gard. Students);
* “smart 3-dimensional lookup table” based on an '''adaptive or graded''' mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Phyiscs Grad. Student);

== Smart look-up tables ==

Objective: “smart 3-dimensional lookup table” based on adaptive mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Physics Grad. Student)

=== Timetable for paper on "smart lookup table" for fast MC simulations ===
# Define Region of Interest (RoI)
## Use NRRD image (done with CNF19-004): might be inefficient, but the definition of RoI is outside the scope of the paper
## Use a cube or closed 3D surface (to be tested, it can be done within a week): very efficient way to define the RoI, as well as it is known.
## use sparse and course set of points in a broader area and slowly converge to the RoI with as many points and their tessellation are required by a given metric.
### need to define a metric (Charles/Mitch): preliminary ideas by mid-August and finalize metric by end of August
# Implement smart lookup table using tessellation generated from (1)
## reproduce Gagik's results
### Mitch: understand the code and write a one-page description (Gagik to supervise the effort): mid of July, report progress in mid-report
### Mitch/Charles define (if there is a need) a new way that might involve UVA's data fitting method: a proposal by end of July.
#define an example problem pertinent to CNF/IEC where "smart lookup table for fast MC simulations''' are the dominant term in the execution time (Charles/Christian/Gagik)
## Putting Things Alltogether (end of August the latest first week of Sept.)
# Finish paper by end of September (All, Charles/Christian will define the skeleton and assign sections to CS and Physic subgroups)

=== Relevant Papers ===
(Note: Spiros will help to maintain links to all papers)
# [https://www.nature.com/articles/s41586-019-0925-9 Nature paper from JLab Nuclear Physics], [https://arxiv.org/pdf/2004.12065.pdf PDF]
# [https://www.sciencedirect.com/science/article/pii/S0021999117300670 Physics motivated example paper on tessellations from Journal of Computational Physics]
# [https://onlinelibrary.wiley.com/doi/abs/10.1002/jcc.21973 Paper relevant to tessellation and Monte Carlo calculations from Journal of Computational Chemistry]

==Weekly Reports==

=== Week May 17 - 22 ===
# (Michell/Spiros) Mitch needs to get the I2M Docker and become familiar with its usage [DONE]
# (All) Get to know the team: Michell (Physics) and the CS students that will be assisting in the API for the tessellation (Spiros) and ParaView for Visualization (Kevin) [DONE]
# (Charles/Michell/Nikos) Setup a proposal for a time table for this aspect of the project it will be fine-tuned and finalized in the first official meeting [DONE]
# (All) Talk about the wiki page we need to set up for our weekly reports [DONE]

=== Week May 25 - 30 ===
# (Spiros) Smooth transition Michell to use CRTC I2M conversion [DONE]
# (Mitch) Comfortable using CRTC's I2M conversion Docker, User Guided, read VTK tessellation file, etc.. [DONE]
# (Kevin) Identify 3D ParaView Plugins that we might need to display results [DONE]
# (Charles) Identify problem(s) to be addressed with the UVA and PARTON models [TODO]
# (Charles/Chistian/Gagik) Examples of target Journals we want to consider for paper submission [DONE]
# (Christos) Slides from 05-22 [https://docs.google.com/presentation/d/1yz8dxVXO82rFCtD9KWjG1PBvvP5VikAxTz07qoM3IqU here] [DONE]

=== Week June 1 - 6 ===
# (Spiros) Add binary IO for output meshes. [DONE]
# (Mitch/Gagik/Spiros) Finish converting PARTONS output data into NRRD format for PODM. [DONE]
# (Kevin) Practice utilizing and applying custom functions on data within Paraview [DONE]
## Examples: [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data Visualization page]
# (Charles) Why use NRRD format if it is optimal to calculate on non-uniform grid?
## (Spiros) because PODM currently supports images that are uniform grids. [DONE]

=== Week June 8 - 12 ===
# (Mitch/Charles) Compute PARTONS points at vertices of simplices,
## Question: Does the tesselation software store the interpolated values at the vertices or the simplex barycentres?
### Vertices [DONE]
## Construct difference of interpolation values at vertices with new computed PARTONS values [DONE]
# (Spiros/Nikos) Explore ways of producing the ith step of adaptive tessellation using Mitch's new values on the (i-1)th tessellation
## (Spiros) By creating Images out of the meshes using interpolation: [DONE]
### [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software]
# (Mitch/Kevin/Charles) Help display Mitch's 3D data using predefined labels, etc..
## Experiment with 2D image of CFF(xi,t) at fixed Q2 vs. 3D image of CFF(xi,t,Q2)
### Linear vs. log axis. [DONE]
### Axis labels: convert (x,y,z), to (xi,t,CFF) or (xi,t,Q2) with color CFF scale [DONE]
### [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data#Other_Options_in_Paraview Instructions Available Here]
## Change PARTONS mesh to equal steps in log(xi) and log(Q2) [DONE]
# (Mitch/Gagik) Reproduce either Reimann or Lebesgue Integral calculations using [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for 2D [DONE]

=== Week June 15 - 19 ===
# (Spiros) Develop a generic interpolation filter for Mitch and write a high-level description (including VTK/ITK kernels used) to assist for future modifications
## [https://odu.app.box.com/folder/115714696781 Code folder] of [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software] [DONE]
## Fomulation of [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] [DONE]
## Compare [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] with [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] of Charles [DONE]
# (Spiros/Mitch) finish up the API for passing data image and vtk data to PARTON and close the loop
## (Spiros) Develop a function that reads and converts an image to a 3D lattice [DONE]
## (Spiros) Develop a function that reads the points and their weights of a tessellation [DONE]
## (Mitch) Close the loop [TODO]
# (Spiros) Convert partons data to nrrd properly, so that they can be visualized with Paraview [DONE]
# (Mitch/Gagik/Spiros) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for “smart lookup table for MC kernel”, produce 3D results and refactor the code:
## (Mitch) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] [DONE]
## (Spiros) Refactor Gagik's code, use VTK library and add comments [DONE]
## '''(Mitch/Gagik) Produce results using 3D tesselations [TODO]'''
# (Charles) in parallel work on a method for "smart lookup table"
## [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] [DONE], corrections, update, expansion in progress
## Compare with [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] and either consolidate the two or end up with two different methods. [TODO]

=== Week June 22 - 26 ===
# (Christian) Summary of CNF projects for 2019/20, [https://docs.google.com/presentation/d/1YuvSjHGvkB0I36gIxla58GxR-H3NtPd01w7ZtARDvuU/edit?usp=sharing CNF Summary Slides] [DONE]:
# (Charles/Gagik) Couple of Slides for use of adaptive tessellation in Monte Carlo and CFF approximation
# (Spiros) Creationg of a 4D Synthetic Image Generator
## HyperSphere (4D Sphere) [DONE]
## HyperCube (4D Cube) [DONE]
# (Mitch/Spiros) Parallelize Partons' code using OpenMP and submit jobs on Turing/Wahab.
## (Spiros) Help Mitch login and view files on Wahab [DONE]
## (Mitch/Spiros) Explore potential to parallelize Partons' code [TODO: Year 2021]
### It looks like requires more effort than our project could afford. It has to be moved as a task for next year.
## (Mitch) Explore potential to execute multiple jobs on Wahab [TODO]
### If this is hard as the item above might need to move for next year.
# (Mitch) Create write-up explanation of Gagiks Monte Carlo code [DONE]
##(Mitch/Spiros) Generalize MC Gagik's 2D code to 3D and consider potential higher dimensions [TODO: Year 2021]
# (Mitch) Re-run PARTONS at mesh points [DONE]
## Plot difference of original mesh to re-evaluated mesh in Paraview: Squared Difference [DONE]
## Plot new values on original tessellation points

=== Week June 29 - July 3 ===
# '''(O1)''' (Mitch/Gagik/Charles) Smart Lookup Table for Monte Carlo
## Compare Tessellation with either |f_a – f_b| metric or |f_a – f_b| / |f_a + f_b|
## First step is to redo PODM tessellation with same algorithm, but pass ln[Im[CFF]] instead of Im[CFF] to PODM
### In anticipation of 4D representations, calculate PARTONS values for full DVCS cross-section:
#### For discussion: Which variables to keep fixed, which variables to display
# '''(O2)''' (Spiros/Nikos) 3D/4D Tesselation for Nuclear Femtography
## Explore a new way to leverage 3D/4D I2M conversion and the new requirements for adaptivity relying on min I/O for PARTONS [Done]
### [https://crtc.cs.odu.edu/Internal:TetGen_CNF CNF Constained Mesher Prototype]
## (Christos/Spiros) Consider PDR worker initialization for initializing PODM and enabling remeshing or an existing mesh. [TODO: Year 2021]
### In the PDR.PODM framework after the initial mesh construction each worker receives a part of the mesh and refines it. During initialization one essentially starts from a serialized version of the mesh (similar to reading a file) and populates internal data structures. After all, is set, PODM works as usual.
### The same initialization method can be used here. Using this approach one can refine an existing mesh while keeping all previous vertex-based information.
### Keeping vertex-based information means than we can get produce adaptive results using just information of the new weights skipping thus the creation of intermediate images.
### As a further (future) step this approach can enable an "always in memory mesh" where the data are always in memory and being accessed by a common API from each component of the pipeline.
# '''(O3)''' (Spiros/Mitch/Charles) Visualization
## (Spiros) Explore a visualization option for 4D tesselations by extracting a 3D "slice" and then use ParaView to display results [TODO]
### Define what a 3D "slice" means in 4D space [TODO]
## (Mitch/Charles) Generate PARTON 4D and a 3D "slice" for these data, for validation of viz. [TODO]
### 4D (unpolarized cross-sections) differential in log(Q2), log(xB), t, phi [TODO]
## (Mitch/Kevin) Explore color palette options for displaying positive and negative values simultaneously [DONE]
# '''(O4)''' Integration with UVA and CNU
## Think about an on-line meeting on Monte Carlo Simulations in Nuclear Femtography?
## What is the status with UVA, are there any changes due to lack of additional funding?

=== Week July 6 - July 10 ===
# (Spiros / Mitch) Adaptivity Metrics
## Using local denominator
### max-min / mean (Not working)
### rms / mean (Not working)
### Note: Local denominators are not working well because of the fact that they perform local normalization which results in uniform gradation, and therefore a uniform mesh
## Using no denominator
### max-min: [https://crtc.cs.odu.edu/CNF:Mesh_Sizing_for_CNF_data#Method Original Method]
### Note: No denominators can work, but for each Image, the weight-limit needs to be tuned based on its weights.
## Using global denominator
### rms / globalMean (an idea which needs tweaking)
#### Note: not bounded
### rms / globalRms (Possibly working)
#### Note: not upper bounded [0, +oo)
### max-min / elementWeightRange
#### Note: bounded [0, 1]
### Note: Global denominators work, and the weight-limit is normalized based on the given image.
## [[CNF:Metric Figures | Metric Figures]]
## Useful Filter: [https://itk.org/Doxygen/html/classitk_1_1StatisticsImageFilter.html StatisticsImageFilter]

=== Week July 13 - July 17 ===
# (Spiros/Mitch/Wirawan) Software Engineering Aspects for [https://crtc.cs.odu.edu/CNF:CNF_Data_Generation CNF Data Generation]
## (Spiros/Mitch) Maintenance and Clarity (re-organized Mitch's code) [DONE]
## (Spiros/Wirawan) Improve End-User Productivity with Distributed Computing of Partons CNF Data Generation [TODO]
# (Spiros/Mitch/Charles) Design of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities]
## (Mitch/Charles) Identify Requirements [TODO]
## (Spiros) Design a library that satisfies the requirements [TODO with a supplement]
# (Spiros) Design of a templated software, [https://crtc.cs.odu.edu/CNF:Monte_Carlo_Event_Generator_using_a_Tessellation Monte Carlo Event Generator using a Tessellation] [TODO with a supplement]
## Re-organize Gagik's 2D code, CMI, templated for 2-3-4 dimensions, improve the complexity of search for given cell weight (from linear to binary) and parallelization using OpenMP
# (Spiros) Sizing function Modifications:
## Change way of calculating value for sampling points
### Old version: assign the value of sampling point using to the closest pixel value
### New version: assign the value of sampling point using interpolation over the image [DONE]
### Reason of change: The problem with the old way of assigning values to the sampling points is that there is a high possibility of 2 or more sampling points having the same assigned value. I think that we can solve this issue by assigning values using interpolation to be sure that every sampling point would have a unique assigned value. This way we would need fewer elements to be able to capture the gradation.
## Change Default max-Edge from Diagonal * 1/10 to Diagonal 2/10 [DONE]
### Reason of change: this way we create larger elements in regions that are not of interest
# (Spiros/Kevin/Mitch) Results:
## (Spiros/Kevin) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img GPDGK16_uH_img] (with new sizing function) [DONE]
### Mitch generated the data the previous week
## (Mitch) Generate a new tesselation with GPDGK16_uH_nxi_210 (with old sizing function) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img_nxi.3D211 GPDGK16_uH_img_nxi=211] [DONE]
# (Mitch/Charles/Spiros)Generate Monte Carlo events of unpolarized DVCS Cross-Section
## Generalize Gagiks monte carlo kernel into 3D or N-Dimensional [DONE]
## Implement "acceptance rejection" algorithm from [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
## [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation]
## Updated Document on Interpolation with Simplices: [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
### Plot in ROOT CFF monte carlo events from tessellation [DONE]
### Generate unpolarized cross-section tessellation (needs to be parallelized ~10min per point) [TODO]
## (Spiros/Mitch) Add needed methods from Spiros's library [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [TODO]
# (Mitch/Charles) Analyze CFF and Cross Section results
## Plot RMS deviation of cell points from CFF mesh
## Plot and fit t dependence of CFF at fixed value of Q2, calculate RMSD of fit, extract fit parameters
# (All) [https://docs.google.com/presentation/d/1z_7XDMlsOUpJg-0yk0kMJmjLJdG4y7wx8bBrc_MMrC0/edit?usp=sharing CNF Adaptivity Pipeline] [DONE] and good progress toward "Smart Lookup Table"[[File:Photo_Mid_Report_July16_2020.png|500px|Photo_Mid_Report_July16_2020.png]]

=== Week July 20 - July 24 ===
# (Spiros) Implementation of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [DONE]
# (Spiros) Interpolate Kevin's CDT3D meshes [https://odu.box.com/s/vpps3wl1k9szx213y95q6sj4mim36sts Box Folder] [DONE]
# (Mitch) Make flow-chart explanation of "smart look-up table" and Monte Carlo code [https://docs.google.com/presentation/d/1KeR3h6ReyzVARX0qnBKaht97GCy0pa-6ruFDkmhoHMU/edit?usp=sharing] [DONE]
## Write driver for point look-up [Done but needs testing]
# (Mitch/Kevin) Generate mesh from PARTONS values generated on the boundaries of phase space volume
# (Mitch/Charles) Compare the different meshes and evaluate the accuracy of the interpolations
## Using barycenter [[Media:CentroidError.png]] [DONE]
# (Mitch/Charles) Change of variables for CFF generation from: ξ-> XBj and t->t' . Reproduce mesh for new variables [DONE]

=== Week July 27 - July 31 ===
# (Spiros) New version of CRTC_I2M docker file and documentation. [DONE]
## The Changes for PODM3D are:
### --min-edge is now a parameter that expresses the percentage of the diagonal that will be used as min-edge. Default 1/ sqrt(3).
### (New parameter) --max-edge is a parameter that expresses the percentage of the diagonal that will be used as max-edge. Default 10.
### (New parameter) --parallel-mesh-results is a flag that computes the mesh results in parallel if more than 1 thread is used.
### (New parameter) --file-format is a parameter that defines the output format BINARY or ASCII. Default binary.
# (Mitch) Generate tessellations in XBj and t' for imaginary and ln(real) parts of CFF using new PODM3D docker
## Plot interpolation error at centroid
# (Mitch) Outline a code to compute DVCS cross section
## Understand/modify the Bethe Heitler CS code
## Work through the dirac algebra

=== Week Aug 3 - Aug 7 ===
# (Charles, Mitch) New sizing function S[f,g]
## f = Im[CFF], g = Re[CFF]
## for each simplex with points '''X'''(''i'') ''i=0,1,2,3,''
### [[File:SizingReIm.png]]
### ''<f> = [f(0)+f(1)+ f(2)+f(3)]/4''
### ''<f^2> = [f^2(0) + f^2(1) + f^2(2) + f^2(3) ]/4''
### ''rms[f] = Sqrt[<f^2> - <f^2>^2 ]''
### S[f,g] = rms[f]/Sqrt[<f^2>] + rms[g]/Sqrt[<g^2>]

== TODO with a potential supplement ==
# (Spiros) Compile a list of Utilities for pre- and post-processing functions for I2M conversion
## Examples should include: (i) fast search methods, (ii) smart lookup table functionality, etc.
# (All) Identify applications that could benefit from tessellations like nD numerical integration, data preservation, etc..
# (Spiros/Nikos) Explore Christian's request to compute 2D/3D function approximation for square/cube and a given analytic function defined on the square/cube

== TODO Year 2021 ==
# (Spiros/Mitch/Sean (REU)) Help Mitch parallelize Partons' code
# (Spiros) Template [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] to work for N-dimensions
# (Spiros) Develop a 2D/3D/4D Parallel Adaptive Delaunay Mesh Generator, where the input is a set of points

= Restricted Access (available to CNF Imaging Project i.e., CRTC/JLAB only) =
* [https://odu.box.com/s/ce6wc1ht1f96jx7lpafys1ue1piiyekc Shared box directory]
* [https://git-community.cs.odu.edu/crtc/Mesh-Generation/Parallel-Mesh-Generation/podm-superbuild PODM Docker image source files]
* [https://git-community.cs.odu.edu/crtc/websites/podm-documentation CRTC_I2M_Suite website build files]
* Adaptivity
** [[CNF:Mesh Sizing for CNF data]]
** [[CNF:CNF_Adaptivity]]
* [[CNF:Visualization for CNF data]]
* [[CNF:Machine Learning]]

* https://www.jlab.org/indico/event/335/
* [http://www.cs.odu.edu/crtc/videos/PODM3D.html Video of meshing procedure]

File:SizingReIm.png

2020-07-30T20:25:29Z

Chyde: Combined tessellation sizing function for Re[CFF] and Im[CFF]

Combined tessellation sizing function for Re[CFF] and Im[CFF]

CNF:CNF

2020-07-30T20:23:21Z

Chyde: /* Week Aug 3 - Aug 7 */

= SURA CNF19-04 Project =
== Description ==
We propose an interdisciplinary project to leverage advanced computational methods from medical imaging for processing phase-space distributions in nuclear femtography experiments, with the aim to enable next-generation process simulations, data analyses, and physics model comparisons.

A detailed list of results for CNF cases received from JLAB are presented here:
[https://crtc.cs.odu.edu/CNF:Example_Meshes Example Meshes]

== Objectives of SURA CNF19-04 Project==
* (O1) Implement an n-dimensional mesh-based representation of phase space data using tessellation methods and test it in low-dimensional scenarios (n=3)
* (O2) Explore potential physics model comparisons enabled by the new technologies

== Short-term Deliverables (6 months) ==
<li style="display: inline-block;">
[[File: distributionquarks.png|thumb|right|350px| '''Distribution of the probability of quarks' existence based on the change in momentum''']]
# Post-processing of the output of the PARTONS GPD physics model for generation of NRDD/DICOM images and their segmentation (by July 1); -- [DONE]
# Generation of n-dimensional sequence of tessellations for numerical integration (by July 1); -- [DONE]
## software delivered to JLAB, May 2019: [https://crtc.cs.odu.edu/CRTC_I2M CRTC Image to Mesh Conversion Software Suite].
## software developed at JLAB to transform physics observable grids generated by the PARTONS framework to the data format used by ODU provided software.
# Use of Tesselation software gives the ability to view and analyze physics observables in a new way with modern tools. It also allows for fast, efficient Monte-Carlo generation of physics observables for event generation from tessellated objects. Computation of proton structures and physics observables are otherwise very computationally extensive. -- [IN PROGRESS]
## explore the option of generating graded meshes (by September).
# Experiment with 3D Slicer and Paraview open-source imaging and visualization systems to display visual representations of the entire space and/or m-slices, with m < n (by Sept. 30); -- [DONE]
## [http://www.cs.odu.edu/crtc/videos/paraview.html Imaging Demo using Paraview]
## [https://kitware.github.io/paraview-glance/doc/ Paraview Glance]
# Topical workshop including experts in imaging, exascale computing, uncertainty quantification, and nuclear physics to guide further developments (by Sept. 30). -- [DONE]
## Invited visitors and agenda is completed.
## The [https://cepm.cs.odu.edu/CNF_Imaging_Workshop CNF Imaging Workshop] took place on August 19th and 20th at JLab.
# [https://crtc.cs.odu.edu/CNF_Example_Meshes CNF mesh examples]
</li>

= SURA CNF20-001 Project =
== Objectives of SURA CNF20-001 Project==
(O1) Demonstrate that 3-dimensional tessellations can improve speed of basic nuclear femtography operations like Monte Carlo computations using a Nuclear Physics example

(O2) Extend the isotropic tessellations 4 dimensions Images (eg. 4D NRRD images)

(O3) Explore gradation in 4D tessellations using a given metric or sizing function

== Short-term Deliverables (3 months)==

'''August 15'''
* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Convert the output of PARTONS and UVA’s GPD generators into Nearly Raw Raster Data (NRRD) format (Liuiti, Heddle, Chrisochoides). This (ODU) group will be responsible for PARTONS and will assist UVA with GPD generators.
** Co-organize with Dr. Hyde as a chair a virtual workshop around mid-June on "The Integration of Imaging and Visualization in Femtography" (Hyde, Liuiti, Heddle, Chrisochoides)
* fine-tune existing 3D I2M conversion software tool and deliver a new Docker to JLab that enhances I/O and meets new requirements identified in the last six months (Chrisochoides/CS Gard. Student);
* pre-process 4D CNF data and create a 4D synthetic data set for developing the 4D triangulation method (Gavalian/Chrisochoides/Computer Science (CS) Grad. Student);
'''September 30, 2020:'''

* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Tesselation of Compton Form Factors using PARTONS and UVA GPD generators (Hyde, Liuiti, Chrisochoides)
* create 4D triangulation algorithm and code as a prelude to future physics implementations (Chrisochodes/CS Gard. Student);
* 3D-visualization plugins in ParaView of the flavor-dependent Compton form factors (Hyde/Chrisochoides/Physics and CS Gard. Students);
* “smart 3-dimensional lookup table” based on an '''adaptive or graded''' mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Phyiscs Grad. Student);

== Smart look-up tables ==

Objective: “smart 3-dimensional lookup table” based on adaptive mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Physics Grad. Student)

=== Timetable for paper on "smart lookup table" for fast MC simulations ===
# Define Region of Interest (RoI)
## Use NRRD image (done with CNF19-004): might be inefficient, but the definition of RoI is outside the scope of the paper
## Use a cube or closed 3D surface (to be tested, it can be done within a week): very efficient way to define the RoI, as well as it is known.
## use sparse and course set of points in a broader area and slowly converge to the RoI with as many points and their tessellation are required by a given metric.
### need to define a metric (Charles/Mitch): preliminary ideas by mid-August and finalize metric by end of August
# Implement smart lookup table using tessellation generated from (1)
## reproduce Gagik's results
### Mitch: understand the code and write a one-page description (Gagik to supervise the effort): mid of July, report progress in mid-report
### Mitch/Charles define (if there is a need) a new way that might involve UVA's data fitting method: a proposal by end of July.
#define an example problem pertinent to CNF/IEC where "smart lookup table for fast MC simulations''' are the dominant term in the execution time (Charles/Christian/Gagik)
## Putting Things Alltogether (end of August the latest first week of Sept.)
# Finish paper by end of September (All, Charles/Christian will define the skeleton and assign sections to CS and Physic subgroups)

=== Relevant Papers ===
(Note: Spiros will help to maintain links to all papers)
# [https://www.nature.com/articles/s41586-019-0925-9 Nature paper from JLab Nuclear Physics], [https://arxiv.org/pdf/2004.12065.pdf PDF]
# [https://www.sciencedirect.com/science/article/pii/S0021999117300670 Physics motivated example paper on tessellations from Journal of Computational Physics]
# [https://onlinelibrary.wiley.com/doi/abs/10.1002/jcc.21973 Paper relevant to tessellation and Monte Carlo calculations from Journal of Computational Chemistry]

==Weekly Reports==

=== Week May 17 - 22 ===
# (Michell/Spiros) Mitch needs to get the I2M Docker and become familiar with its usage [DONE]
# (All) Get to know the team: Michell (Physics) and the CS students that will be assisting in the API for the tessellation (Spiros) and ParaView for Visualization (Kevin) [DONE]
# (Charles/Michell/Nikos) Setup a proposal for a time table for this aspect of the project it will be fine-tuned and finalized in the first official meeting [DONE]
# (All) Talk about the wiki page we need to set up for our weekly reports [DONE]

=== Week May 25 - 30 ===
# (Spiros) Smooth transition Michell to use CRTC I2M conversion [DONE]
# (Mitch) Comfortable using CRTC's I2M conversion Docker, User Guided, read VTK tessellation file, etc.. [DONE]
# (Kevin) Identify 3D ParaView Plugins that we might need to display results [DONE]
# (Charles) Identify problem(s) to be addressed with the UVA and PARTON models [TODO]
# (Charles/Chistian/Gagik) Examples of target Journals we want to consider for paper submission [DONE]
# (Christos) Slides from 05-22 [https://docs.google.com/presentation/d/1yz8dxVXO82rFCtD9KWjG1PBvvP5VikAxTz07qoM3IqU here] [DONE]

=== Week June 1 - 6 ===
# (Spiros) Add binary IO for output meshes. [DONE]
# (Mitch/Gagik/Spiros) Finish converting PARTONS output data into NRRD format for PODM. [DONE]
# (Kevin) Practice utilizing and applying custom functions on data within Paraview [DONE]
## Examples: [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data Visualization page]
# (Charles) Why use NRRD format if it is optimal to calculate on non-uniform grid?
## (Spiros) because PODM currently supports images that are uniform grids. [DONE]

=== Week June 8 - 12 ===
# (Mitch/Charles) Compute PARTONS points at vertices of simplices,
## Question: Does the tesselation software store the interpolated values at the vertices or the simplex barycentres?
### Vertices [DONE]
## Construct difference of interpolation values at vertices with new computed PARTONS values [DONE]
# (Spiros/Nikos) Explore ways of producing the ith step of adaptive tessellation using Mitch's new values on the (i-1)th tessellation
## (Spiros) By creating Images out of the meshes using interpolation: [DONE]
### [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software]
# (Mitch/Kevin/Charles) Help display Mitch's 3D data using predefined labels, etc..
## Experiment with 2D image of CFF(xi,t) at fixed Q2 vs. 3D image of CFF(xi,t,Q2)
### Linear vs. log axis. [DONE]
### Axis labels: convert (x,y,z), to (xi,t,CFF) or (xi,t,Q2) with color CFF scale [DONE]
### [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data#Other_Options_in_Paraview Instructions Available Here]
## Change PARTONS mesh to equal steps in log(xi) and log(Q2) [DONE]
# (Mitch/Gagik) Reproduce either Reimann or Lebesgue Integral calculations using [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for 2D [DONE]

=== Week June 15 - 19 ===
# (Spiros) Develop a generic interpolation filter for Mitch and write a high-level description (including VTK/ITK kernels used) to assist for future modifications
## [https://odu.app.box.com/folder/115714696781 Code folder] of [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software] [DONE]
## Fomulation of [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] [DONE]
## Compare [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] with [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] of Charles [DONE]
# (Spiros/Mitch) finish up the API for passing data image and vtk data to PARTON and close the loop
## (Spiros) Develop a function that reads and converts an image to a 3D lattice [DONE]
## (Spiros) Develop a function that reads the points and their weights of a tessellation [DONE]
## (Mitch) Close the loop [TODO]
# (Spiros) Convert partons data to nrrd properly, so that they can be visualized with Paraview [DONE]
# (Mitch/Gagik/Spiros) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for “smart lookup table for MC kernel”, produce 3D results and refactor the code:
## (Mitch) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] [DONE]
## (Spiros) Refactor Gagik's code, use VTK library and add comments [DONE]
## '''(Mitch/Gagik) Produce results using 3D tesselations [TODO]'''
# (Charles) in parallel work on a method for "smart lookup table"
## [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] [DONE], corrections, update, expansion in progress
## Compare with [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] and either consolidate the two or end up with two different methods. [TODO]

=== Week June 22 - 26 ===
# (Christian) Summary of CNF projects for 2019/20, [https://docs.google.com/presentation/d/1YuvSjHGvkB0I36gIxla58GxR-H3NtPd01w7ZtARDvuU/edit?usp=sharing CNF Summary Slides] [DONE]:
# (Charles/Gagik) Couple of Slides for use of adaptive tessellation in Monte Carlo and CFF approximation
# (Spiros) Creationg of a 4D Synthetic Image Generator
## HyperSphere (4D Sphere) [DONE]
## HyperCube (4D Cube) [DONE]
# (Mitch/Spiros) Parallelize Partons' code using OpenMP and submit jobs on Turing/Wahab.
## (Spiros) Help Mitch login and view files on Wahab [DONE]
## (Mitch/Spiros) Explore potential to parallelize Partons' code [TODO: Year 2021]
### It looks like requires more effort than our project could afford. It has to be moved as a task for next year.
## (Mitch) Explore potential to execute multiple jobs on Wahab [TODO]
### If this is hard as the item above might need to move for next year.
# (Mitch) Create write-up explanation of Gagiks Monte Carlo code [DONE]
##(Mitch/Spiros) Generalize MC Gagik's 2D code to 3D and consider potential higher dimensions [TODO: Year 2021]
# (Mitch) Re-run PARTONS at mesh points [DONE]
## Plot difference of original mesh to re-evaluated mesh in Paraview: Squared Difference [DONE]
## Plot new values on original tessellation points

=== Week June 29 - July 3 ===
# '''(O1)''' (Mitch/Gagik/Charles) Smart Lookup Table for Monte Carlo
## Compare Tessellation with either |f_a – f_b| metric or |f_a – f_b| / |f_a + f_b|
## First step is to redo PODM tessellation with same algorithm, but pass ln[Im[CFF]] instead of Im[CFF] to PODM
### In anticipation of 4D representations, calculate PARTONS values for full DVCS cross-section:
#### For discussion: Which variables to keep fixed, which variables to display
# '''(O2)''' (Spiros/Nikos) 3D/4D Tesselation for Nuclear Femtography
## Explore a new way to leverage 3D/4D I2M conversion and the new requirements for adaptivity relying on min I/O for PARTONS [Done]
### [https://crtc.cs.odu.edu/Internal:TetGen_CNF CNF Constained Mesher Prototype]
## (Christos/Spiros) Consider PDR worker initialization for initializing PODM and enabling remeshing or an existing mesh. [TODO: Year 2021]
### In the PDR.PODM framework after the initial mesh construction each worker receives a part of the mesh and refines it. During initialization one essentially starts from a serialized version of the mesh (similar to reading a file) and populates internal data structures. After all, is set, PODM works as usual.
### The same initialization method can be used here. Using this approach one can refine an existing mesh while keeping all previous vertex-based information.
### Keeping vertex-based information means than we can get produce adaptive results using just information of the new weights skipping thus the creation of intermediate images.
### As a further (future) step this approach can enable an "always in memory mesh" where the data are always in memory and being accessed by a common API from each component of the pipeline.
# '''(O3)''' (Spiros/Mitch/Charles) Visualization
## (Spiros) Explore a visualization option for 4D tesselations by extracting a 3D "slice" and then use ParaView to display results [TODO]
### Define what a 3D "slice" means in 4D space [TODO]
## (Mitch/Charles) Generate PARTON 4D and a 3D "slice" for these data, for validation of viz. [TODO]
### 4D (unpolarized cross-sections) differential in log(Q2), log(xB), t, phi [TODO]
## (Mitch/Kevin) Explore color palette options for displaying positive and negative values simultaneously [DONE]
# '''(O4)''' Integration with UVA and CNU
## Think about an on-line meeting on Monte Carlo Simulations in Nuclear Femtography?
## What is the status with UVA, are there any changes due to lack of additional funding?

=== Week July 6 - July 10 ===
# (Spiros / Mitch) Adaptivity Metrics
## Using local denominator
### max-min / mean (Not working)
### rms / mean (Not working)
### Note: Local denominators are not working well because of the fact that they perform local normalization which results in uniform gradation, and therefore a uniform mesh
## Using no denominator
### max-min: [https://crtc.cs.odu.edu/CNF:Mesh_Sizing_for_CNF_data#Method Original Method]
### Note: No denominators can work, but for each Image, the weight-limit needs to be tuned based on its weights.
## Using global denominator
### rms / globalMean (an idea which needs tweaking)
#### Note: not bounded
### rms / globalRms (Possibly working)
#### Note: not upper bounded [0, +oo)
### max-min / elementWeightRange
#### Note: bounded [0, 1]
### Note: Global denominators work, and the weight-limit is normalized based on the given image.
## [[CNF:Metric Figures | Metric Figures]]
## Useful Filter: [https://itk.org/Doxygen/html/classitk_1_1StatisticsImageFilter.html StatisticsImageFilter]

=== Week July 13 - July 17 ===
# (Spiros/Mitch/Wirawan) Software Engineering Aspects for [https://crtc.cs.odu.edu/CNF:CNF_Data_Generation CNF Data Generation]
## (Spiros/Mitch) Maintenance and Clarity (re-organized Mitch's code) [DONE]
## (Spiros/Wirawan) Improve End-User Productivity with Distributed Computing of Partons CNF Data Generation [TODO]
# (Spiros/Mitch/Charles) Design of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities]
## (Mitch/Charles) Identify Requirements [TODO]
## (Spiros) Design a library that satisfies the requirements [TODO with a supplement]
# (Spiros) Design of a templated software, [https://crtc.cs.odu.edu/CNF:Monte_Carlo_Event_Generator_using_a_Tessellation Monte Carlo Event Generator using a Tessellation] [TODO with a supplement]
## Re-organize Gagik's 2D code, CMI, templated for 2-3-4 dimensions, improve the complexity of search for given cell weight (from linear to binary) and parallelization using OpenMP
# (Spiros) Sizing function Modifications:
## Change way of calculating value for sampling points
### Old version: assign the value of sampling point using to the closest pixel value
### New version: assign the value of sampling point using interpolation over the image [DONE]
### Reason of change: The problem with the old way of assigning values to the sampling points is that there is a high possibility of 2 or more sampling points having the same assigned value. I think that we can solve this issue by assigning values using interpolation to be sure that every sampling point would have a unique assigned value. This way we would need fewer elements to be able to capture the gradation.
## Change Default max-Edge from Diagonal * 1/10 to Diagonal 2/10 [DONE]
### Reason of change: this way we create larger elements in regions that are not of interest
# (Spiros/Kevin/Mitch) Results:
## (Spiros/Kevin) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img GPDGK16_uH_img] (with new sizing function) [DONE]
### Mitch generated the data the previous week
## (Mitch) Generate a new tesselation with GPDGK16_uH_nxi_210 (with old sizing function) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img_nxi.3D211 GPDGK16_uH_img_nxi=211] [DONE]
# (Mitch/Charles/Spiros)Generate Monte Carlo events of unpolarized DVCS Cross-Section
## Generalize Gagiks monte carlo kernel into 3D or N-Dimensional [DONE]
## Implement "acceptance rejection" algorithm from [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
## [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation]
## Updated Document on Interpolation with Simplices: [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
### Plot in ROOT CFF monte carlo events from tessellation [DONE]
### Generate unpolarized cross-section tessellation (needs to be parallelized ~10min per point) [TODO]
## (Spiros/Mitch) Add needed methods from Spiros's library [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [TODO]
# (Mitch/Charles) Analyze CFF and Cross Section results
## Plot RMS deviation of cell points from CFF mesh
## Plot and fit t dependence of CFF at fixed value of Q2, calculate RMSD of fit, extract fit parameters
# (All) [https://docs.google.com/presentation/d/1z_7XDMlsOUpJg-0yk0kMJmjLJdG4y7wx8bBrc_MMrC0/edit?usp=sharing CNF Adaptivity Pipeline] [DONE] and good progress toward "Smart Lookup Table"[[File:Photo_Mid_Report_July16_2020.png|500px|Photo_Mid_Report_July16_2020.png]]

=== Week July 20 - July 24 ===
# (Spiros) Implementation of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [DONE]
# (Spiros) Interpolate Kevin's CDT3D meshes [https://odu.box.com/s/vpps3wl1k9szx213y95q6sj4mim36sts Box Folder] [DONE]
# (Mitch) Make flow-chart explanation of "smart look-up table" and Monte Carlo code [https://docs.google.com/presentation/d/1KeR3h6ReyzVARX0qnBKaht97GCy0pa-6ruFDkmhoHMU/edit?usp=sharing] [DONE]
## Write driver for point look-up [Done but needs testing]
# (Mitch/Kevin) Generate mesh from PARTONS values generated on the boundaries of phase space volume
# (Mitch/Charles) Compare the different meshes and evaluate the accuracy of the interpolations
## Using barycenter [[Media:CentroidError.png]] [DONE]
# (Mitch/Charles) Change of variables for CFF generation from: ξ-> XBj and t->t' . Reproduce mesh for new variables [DONE]

=== Week July 27 - July 31 ===
# (Spiros) New version of CRTC_I2M docker file and documentation. [DONE]
## The Changes for PODM3D are:
### --min-edge is now a parameter that expresses the percentage of the diagonal that will be used as min-edge. Default 1/ sqrt(3).
### (New parameter) --max-edge is a parameter that expresses the percentage of the diagonal that will be used as max-edge. Default 10.
### (New parameter) --parallel-mesh-results is a flag that computes the mesh results in parallel if more than 1 thread is used.
### (New parameter) --file-format is a parameter that defines the output format BINARY or ASCII. Default binary.
# (Mitch) Generate tessellations in XBj and t' for imaginary and ln(real) parts of CFF using new PODM3D docker
## Plot interpolation error at centroid
# (Mitch) Outline a code to compute DVCS cross section
## Understand/modify the Bethe Heitler CS code
## Work through the dirac algebra

=== Week Aug 3 - Aug 7 ===
# (Charles, Mitch) New sizing function S[f,g]
## f = Im[CFF], g = Re[CFF]
## for each simplex with points '''X'''(''i'') ''i=0,1,2,3,''
### [[File:Example.png]]
### ''<f> = [f(0)+f(1)+ f(2)+f(3)]/4''
### ''<f^2> = [f^2(0) + f^2(1) + f^2(2) + f^2(3) ]/4''
### ''rms[f] = Sqrt[<f^2> - <f^2>^2 ]''
### S[f,g] = rms[f]/Sqrt[<f^2>] + rms[g]/Sqrt[<g^2>]

== TODO with a potential supplement ==
# (Spiros) Compile a list of Utilities for pre- and post-processing functions for I2M conversion
## Examples should include: (i) fast search methods, (ii) smart lookup table functionality, etc.
# (All) Identify applications that could benefit from tessellations like nD numerical integration, data preservation, etc..
# (Spiros/Nikos) Explore Christian's request to compute 2D/3D function approximation for square/cube and a given analytic function defined on the square/cube

== TODO Year 2021 ==
# (Spiros/Mitch/Sean (REU)) Help Mitch parallelize Partons' code
# (Spiros) Template [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] to work for N-dimensions
# (Spiros) Develop a 2D/3D/4D Parallel Adaptive Delaunay Mesh Generator, where the input is a set of points

= Restricted Access (available to CNF Imaging Project i.e., CRTC/JLAB only) =
* [https://odu.box.com/s/ce6wc1ht1f96jx7lpafys1ue1piiyekc Shared box directory]
* [https://git-community.cs.odu.edu/crtc/Mesh-Generation/Parallel-Mesh-Generation/podm-superbuild PODM Docker image source files]
* [https://git-community.cs.odu.edu/crtc/websites/podm-documentation CRTC_I2M_Suite website build files]
* Adaptivity
** [[CNF:Mesh Sizing for CNF data]]
** [[CNF:CNF_Adaptivity]]
* [[CNF:Visualization for CNF data]]
* [[CNF:Machine Learning]]

* https://www.jlab.org/indico/event/335/
* [http://www.cs.odu.edu/crtc/videos/PODM3D.html Video of meshing procedure]

CNF:CNF

2020-07-30T20:17:53Z

Chyde: /* Week Aug 3 - Aug 7 */

= SURA CNF19-04 Project =
== Description ==
We propose an interdisciplinary project to leverage advanced computational methods from medical imaging for processing phase-space distributions in nuclear femtography experiments, with the aim to enable next-generation process simulations, data analyses, and physics model comparisons.

A detailed list of results for CNF cases received from JLAB are presented here:
[https://crtc.cs.odu.edu/CNF:Example_Meshes Example Meshes]

== Objectives of SURA CNF19-04 Project==
* (O1) Implement an n-dimensional mesh-based representation of phase space data using tessellation methods and test it in low-dimensional scenarios (n=3)
* (O2) Explore potential physics model comparisons enabled by the new technologies

== Short-term Deliverables (6 months) ==
<li style="display: inline-block;">
[[File: distributionquarks.png|thumb|right|350px| '''Distribution of the probability of quarks' existence based on the change in momentum''']]
# Post-processing of the output of the PARTONS GPD physics model for generation of NRDD/DICOM images and their segmentation (by July 1); -- [DONE]
# Generation of n-dimensional sequence of tessellations for numerical integration (by July 1); -- [DONE]
## software delivered to JLAB, May 2019: [https://crtc.cs.odu.edu/CRTC_I2M CRTC Image to Mesh Conversion Software Suite].
## software developed at JLAB to transform physics observable grids generated by the PARTONS framework to the data format used by ODU provided software.
# Use of Tesselation software gives the ability to view and analyze physics observables in a new way with modern tools. It also allows for fast, efficient Monte-Carlo generation of physics observables for event generation from tessellated objects. Computation of proton structures and physics observables are otherwise very computationally extensive. -- [IN PROGRESS]
## explore the option of generating graded meshes (by September).
# Experiment with 3D Slicer and Paraview open-source imaging and visualization systems to display visual representations of the entire space and/or m-slices, with m < n (by Sept. 30); -- [DONE]
## [http://www.cs.odu.edu/crtc/videos/paraview.html Imaging Demo using Paraview]
## [https://kitware.github.io/paraview-glance/doc/ Paraview Glance]
# Topical workshop including experts in imaging, exascale computing, uncertainty quantification, and nuclear physics to guide further developments (by Sept. 30). -- [DONE]
## Invited visitors and agenda is completed.
## The [https://cepm.cs.odu.edu/CNF_Imaging_Workshop CNF Imaging Workshop] took place on August 19th and 20th at JLab.
# [https://crtc.cs.odu.edu/CNF_Example_Meshes CNF mesh examples]
</li>

= SURA CNF20-001 Project =
== Objectives of SURA CNF20-001 Project==
(O1) Demonstrate that 3-dimensional tessellations can improve speed of basic nuclear femtography operations like Monte Carlo computations using a Nuclear Physics example

(O2) Extend the isotropic tessellations 4 dimensions Images (eg. 4D NRRD images)

(O3) Explore gradation in 4D tessellations using a given metric or sizing function

== Short-term Deliverables (3 months)==

'''August 15'''
* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Convert the output of PARTONS and UVA’s GPD generators into Nearly Raw Raster Data (NRRD) format (Liuiti, Heddle, Chrisochoides). This (ODU) group will be responsible for PARTONS and will assist UVA with GPD generators.
** Co-organize with Dr. Hyde as a chair a virtual workshop around mid-June on "The Integration of Imaging and Visualization in Femtography" (Hyde, Liuiti, Heddle, Chrisochoides)
* fine-tune existing 3D I2M conversion software tool and deliver a new Docker to JLab that enhances I/O and meets new requirements identified in the last six months (Chrisochoides/CS Gard. Student);
* pre-process 4D CNF data and create a 4D synthetic data set for developing the 4D triangulation method (Gavalian/Chrisochoides/Computer Science (CS) Grad. Student);
'''September 30, 2020:'''

* Integration with FEMT-006-03 (PI Dr. Heddle) and FEMT-006-05 (Dr. Liuiti):
** Tesselation of Compton Form Factors using PARTONS and UVA GPD generators (Hyde, Liuiti, Chrisochoides)
* create 4D triangulation algorithm and code as a prelude to future physics implementations (Chrisochodes/CS Gard. Student);
* 3D-visualization plugins in ParaView of the flavor-dependent Compton form factors (Hyde/Chrisochoides/Physics and CS Gard. Students);
* “smart 3-dimensional lookup table” based on an '''adaptive or graded''' mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Phyiscs Grad. Student);

== Smart look-up tables ==

Objective: “smart 3-dimensional lookup table” based on adaptive mesh-based tessellated representation of the CFFs for efficient evaluation of Monte Carlo simulations (Gavalian/Hyde/Physics Grad. Student)

=== Timetable for paper on "smart lookup table" for fast MC simulations ===
# Define Region of Interest (RoI)
## Use NRRD image (done with CNF19-004): might be inefficient, but the definition of RoI is outside the scope of the paper
## Use a cube or closed 3D surface (to be tested, it can be done within a week): very efficient way to define the RoI, as well as it is known.
## use sparse and course set of points in a broader area and slowly converge to the RoI with as many points and their tessellation are required by a given metric.
### need to define a metric (Charles/Mitch): preliminary ideas by mid-August and finalize metric by end of August
# Implement smart lookup table using tessellation generated from (1)
## reproduce Gagik's results
### Mitch: understand the code and write a one-page description (Gagik to supervise the effort): mid of July, report progress in mid-report
### Mitch/Charles define (if there is a need) a new way that might involve UVA's data fitting method: a proposal by end of July.
#define an example problem pertinent to CNF/IEC where "smart lookup table for fast MC simulations''' are the dominant term in the execution time (Charles/Christian/Gagik)
## Putting Things Alltogether (end of August the latest first week of Sept.)
# Finish paper by end of September (All, Charles/Christian will define the skeleton and assign sections to CS and Physic subgroups)

=== Relevant Papers ===
(Note: Spiros will help to maintain links to all papers)
# [https://www.nature.com/articles/s41586-019-0925-9 Nature paper from JLab Nuclear Physics], [https://arxiv.org/pdf/2004.12065.pdf PDF]
# [https://www.sciencedirect.com/science/article/pii/S0021999117300670 Physics motivated example paper on tessellations from Journal of Computational Physics]
# [https://onlinelibrary.wiley.com/doi/abs/10.1002/jcc.21973 Paper relevant to tessellation and Monte Carlo calculations from Journal of Computational Chemistry]

==Weekly Reports==

=== Week May 17 - 22 ===
# (Michell/Spiros) Mitch needs to get the I2M Docker and become familiar with its usage [DONE]
# (All) Get to know the team: Michell (Physics) and the CS students that will be assisting in the API for the tessellation (Spiros) and ParaView for Visualization (Kevin) [DONE]
# (Charles/Michell/Nikos) Setup a proposal for a time table for this aspect of the project it will be fine-tuned and finalized in the first official meeting [DONE]
# (All) Talk about the wiki page we need to set up for our weekly reports [DONE]

=== Week May 25 - 30 ===
# (Spiros) Smooth transition Michell to use CRTC I2M conversion [DONE]
# (Mitch) Comfortable using CRTC's I2M conversion Docker, User Guided, read VTK tessellation file, etc.. [DONE]
# (Kevin) Identify 3D ParaView Plugins that we might need to display results [DONE]
# (Charles) Identify problem(s) to be addressed with the UVA and PARTON models [TODO]
# (Charles/Chistian/Gagik) Examples of target Journals we want to consider for paper submission [DONE]
# (Christos) Slides from 05-22 [https://docs.google.com/presentation/d/1yz8dxVXO82rFCtD9KWjG1PBvvP5VikAxTz07qoM3IqU here] [DONE]

=== Week June 1 - 6 ===
# (Spiros) Add binary IO for output meshes. [DONE]
# (Mitch/Gagik/Spiros) Finish converting PARTONS output data into NRRD format for PODM. [DONE]
# (Kevin) Practice utilizing and applying custom functions on data within Paraview [DONE]
## Examples: [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data Visualization page]
# (Charles) Why use NRRD format if it is optimal to calculate on non-uniform grid?
## (Spiros) because PODM currently supports images that are uniform grids. [DONE]

=== Week June 8 - 12 ===
# (Mitch/Charles) Compute PARTONS points at vertices of simplices,
## Question: Does the tesselation software store the interpolated values at the vertices or the simplex barycentres?
### Vertices [DONE]
## Construct difference of interpolation values at vertices with new computed PARTONS values [DONE]
# (Spiros/Nikos) Explore ways of producing the ith step of adaptive tessellation using Mitch's new values on the (i-1)th tessellation
## (Spiros) By creating Images out of the meshes using interpolation: [DONE]
### [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software]
# (Mitch/Kevin/Charles) Help display Mitch's 3D data using predefined labels, etc..
## Experiment with 2D image of CFF(xi,t) at fixed Q2 vs. 3D image of CFF(xi,t,Q2)
### Linear vs. log axis. [DONE]
### Axis labels: convert (x,y,z), to (xi,t,CFF) or (xi,t,Q2) with color CFF scale [DONE]
### [https://crtc.cs.odu.edu/CNF:Visualization_for_CNF_data#Other_Options_in_Paraview Instructions Available Here]
## Change PARTONS mesh to equal steps in log(xi) and log(Q2) [DONE]
# (Mitch/Gagik) Reproduce either Reimann or Lebesgue Integral calculations using [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for 2D [DONE]

=== Week June 15 - 19 ===
# (Spiros) Develop a generic interpolation filter for Mitch and write a high-level description (including VTK/ITK kernels used) to assist for future modifications
## [https://odu.app.box.com/folder/115714696781 Code folder] of [https://crtc.cs.odu.edu/CNF:Weighted_Mesh_To_Image Weighted Mesh To Image Software] [DONE]
## Fomulation of [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] [DONE]
## Compare [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation] with [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] of Charles [DONE]
# (Spiros/Mitch) finish up the API for passing data image and vtk data to PARTON and close the loop
## (Spiros) Develop a function that reads and converts an image to a 3D lattice [DONE]
## (Spiros) Develop a function that reads the points and their weights of a tessellation [DONE]
## (Mitch) Close the loop [TODO]
# (Spiros) Convert partons data to nrrd properly, so that they can be visualized with Paraview [DONE]
# (Mitch/Gagik/Spiros) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] for “smart lookup table for MC kernel”, produce 3D results and refactor the code:
## (Mitch) Figure out the computational details of [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] [DONE]
## (Spiros) Refactor Gagik's code, use VTK library and add comments [DONE]
## '''(Mitch/Gagik) Produce results using 3D tesselations [TODO]'''
# (Charles) in parallel work on a method for "smart lookup table"
## [http://www.lions.odu.edu/~chyde/Research/TechnicalNotes/TessellationInterpolation.pdf Tessellation & Interpolation document] [DONE], corrections, update, expansion in progress
## Compare with [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] and either consolidate the two or end up with two different methods. [TODO]

=== Week June 22 - 26 ===
# (Christian) Summary of CNF projects for 2019/20, [https://docs.google.com/presentation/d/1YuvSjHGvkB0I36gIxla58GxR-H3NtPd01w7ZtARDvuU/edit?usp=sharing CNF Summary Slides] [DONE]:
# (Charles/Gagik) Couple of Slides for use of adaptive tessellation in Monte Carlo and CFF approximation
# (Spiros) Creationg of a 4D Synthetic Image Generator
## HyperSphere (4D Sphere) [DONE]
## HyperCube (4D Cube) [DONE]
# (Mitch/Spiros) Parallelize Partons' code using OpenMP and submit jobs on Turing/Wahab.
## (Spiros) Help Mitch login and view files on Wahab [DONE]
## (Mitch/Spiros) Explore potential to parallelize Partons' code [TODO: Year 2021]
### It looks like requires more effort than our project could afford. It has to be moved as a task for next year.
## (Mitch) Explore potential to execute multiple jobs on Wahab [TODO]
### If this is hard as the item above might need to move for next year.
# (Mitch) Create write-up explanation of Gagiks Monte Carlo code [DONE]
##(Mitch/Spiros) Generalize MC Gagik's 2D code to 3D and consider potential higher dimensions [TODO: Year 2021]
# (Mitch) Re-run PARTONS at mesh points [DONE]
## Plot difference of original mesh to re-evaluated mesh in Paraview: Squared Difference [DONE]
## Plot new values on original tessellation points

=== Week June 29 - July 3 ===
# '''(O1)''' (Mitch/Gagik/Charles) Smart Lookup Table for Monte Carlo
## Compare Tessellation with either |f_a – f_b| metric or |f_a – f_b| / |f_a + f_b|
## First step is to redo PODM tessellation with same algorithm, but pass ln[Im[CFF]] instead of Im[CFF] to PODM
### In anticipation of 4D representations, calculate PARTONS values for full DVCS cross-section:
#### For discussion: Which variables to keep fixed, which variables to display
# '''(O2)''' (Spiros/Nikos) 3D/4D Tesselation for Nuclear Femtography
## Explore a new way to leverage 3D/4D I2M conversion and the new requirements for adaptivity relying on min I/O for PARTONS [Done]
### [https://crtc.cs.odu.edu/Internal:TetGen_CNF CNF Constained Mesher Prototype]
## (Christos/Spiros) Consider PDR worker initialization for initializing PODM and enabling remeshing or an existing mesh. [TODO: Year 2021]
### In the PDR.PODM framework after the initial mesh construction each worker receives a part of the mesh and refines it. During initialization one essentially starts from a serialized version of the mesh (similar to reading a file) and populates internal data structures. After all, is set, PODM works as usual.
### The same initialization method can be used here. Using this approach one can refine an existing mesh while keeping all previous vertex-based information.
### Keeping vertex-based information means than we can get produce adaptive results using just information of the new weights skipping thus the creation of intermediate images.
### As a further (future) step this approach can enable an "always in memory mesh" where the data are always in memory and being accessed by a common API from each component of the pipeline.
# '''(O3)''' (Spiros/Mitch/Charles) Visualization
## (Spiros) Explore a visualization option for 4D tesselations by extracting a 3D "slice" and then use ParaView to display results [TODO]
### Define what a 3D "slice" means in 4D space [TODO]
## (Mitch/Charles) Generate PARTON 4D and a 3D "slice" for these data, for validation of viz. [TODO]
### 4D (unpolarized cross-sections) differential in log(Q2), log(xB), t, phi [TODO]
## (Mitch/Kevin) Explore color palette options for displaying positive and negative values simultaneously [DONE]
# '''(O4)''' Integration with UVA and CNU
## Think about an on-line meeting on Monte Carlo Simulations in Nuclear Femtography?
## What is the status with UVA, are there any changes due to lack of additional funding?

=== Week July 6 - July 10 ===
# (Spiros / Mitch) Adaptivity Metrics
## Using local denominator
### max-min / mean (Not working)
### rms / mean (Not working)
### Note: Local denominators are not working well because of the fact that they perform local normalization which results in uniform gradation, and therefore a uniform mesh
## Using no denominator
### max-min: [https://crtc.cs.odu.edu/CNF:Mesh_Sizing_for_CNF_data#Method Original Method]
### Note: No denominators can work, but for each Image, the weight-limit needs to be tuned based on its weights.
## Using global denominator
### rms / globalMean (an idea which needs tweaking)
#### Note: not bounded
### rms / globalRms (Possibly working)
#### Note: not upper bounded [0, +oo)
### max-min / elementWeightRange
#### Note: bounded [0, 1]
### Note: Global denominators work, and the weight-limit is normalized based on the given image.
## [[CNF:Metric Figures | Metric Figures]]
## Useful Filter: [https://itk.org/Doxygen/html/classitk_1_1StatisticsImageFilter.html StatisticsImageFilter]

=== Week July 13 - July 17 ===
# (Spiros/Mitch/Wirawan) Software Engineering Aspects for [https://crtc.cs.odu.edu/CNF:CNF_Data_Generation CNF Data Generation]
## (Spiros/Mitch) Maintenance and Clarity (re-organized Mitch's code) [DONE]
## (Spiros/Wirawan) Improve End-User Productivity with Distributed Computing of Partons CNF Data Generation [TODO]
# (Spiros/Mitch/Charles) Design of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities]
## (Mitch/Charles) Identify Requirements [TODO]
## (Spiros) Design a library that satisfies the requirements [TODO with a supplement]
# (Spiros) Design of a templated software, [https://crtc.cs.odu.edu/CNF:Monte_Carlo_Event_Generator_using_a_Tessellation Monte Carlo Event Generator using a Tessellation] [TODO with a supplement]
## Re-organize Gagik's 2D code, CMI, templated for 2-3-4 dimensions, improve the complexity of search for given cell weight (from linear to binary) and parallelization using OpenMP
# (Spiros) Sizing function Modifications:
## Change way of calculating value for sampling points
### Old version: assign the value of sampling point using to the closest pixel value
### New version: assign the value of sampling point using interpolation over the image [DONE]
### Reason of change: The problem with the old way of assigning values to the sampling points is that there is a high possibility of 2 or more sampling points having the same assigned value. I think that we can solve this issue by assigning values using interpolation to be sure that every sampling point would have a unique assigned value. This way we would need fewer elements to be able to capture the gradation.
## Change Default max-Edge from Diagonal * 1/10 to Diagonal 2/10 [DONE]
### Reason of change: this way we create larger elements in regions that are not of interest
# (Spiros/Kevin/Mitch) Results:
## (Spiros/Kevin) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img GPDGK16_uH_img] (with new sizing function) [DONE]
### Mitch generated the data the previous week
## (Mitch) Generate a new tesselation with GPDGK16_uH_nxi_210 (with old sizing function) [https://crtc.cs.odu.edu/CNF_Example_Meshes#GPDGK16_uH_img_nxi.3D211 GPDGK16_uH_img_nxi=211] [DONE]
# (Mitch/Charles/Spiros)Generate Monte Carlo events of unpolarized DVCS Cross-Section
## Generalize Gagiks monte carlo kernel into 3D or N-Dimensional [DONE]
## Implement "acceptance rejection" algorithm from [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
## [https://odu.box.com/s/m4xoofpqziz57jnvwlis9iqnm9toram5 VTK Interpolation]
## Updated Document on Interpolation with Simplices: [https://odu.box.com/s/1jrq704pytgxafz9tvoe12jmbsjuc9rg Tessellation & Interpolation document] [DONE]
### Plot in ROOT CFF monte carlo events from tessellation [DONE]
### Generate unpolarized cross-section tessellation (needs to be parallelized ~10min per point) [TODO]
## (Spiros/Mitch) Add needed methods from Spiros's library [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [TODO]
# (Mitch/Charles) Analyze CFF and Cross Section results
## Plot RMS deviation of cell points from CFF mesh
## Plot and fit t dependence of CFF at fixed value of Q2, calculate RMSD of fit, extract fit parameters
# (All) [https://docs.google.com/presentation/d/1z_7XDMlsOUpJg-0yk0kMJmjLJdG4y7wx8bBrc_MMrC0/edit?usp=sharing CNF Adaptivity Pipeline] [DONE] and good progress toward "Smart Lookup Table"[[File:Photo_Mid_Report_July16_2020.png|500px|Photo_Mid_Report_July16_2020.png]]

=== Week July 20 - July 24 ===
# (Spiros) Implementation of [https://crtc.cs.odu.edu/CNF:Smart_LookUp_Table_Utilities Smart LookUp Table Utilities] [DONE]
# (Spiros) Interpolate Kevin's CDT3D meshes [https://odu.box.com/s/vpps3wl1k9szx213y95q6sj4mim36sts Box Folder] [DONE]
# (Mitch) Make flow-chart explanation of "smart look-up table" and Monte Carlo code [https://docs.google.com/presentation/d/1KeR3h6ReyzVARX0qnBKaht97GCy0pa-6ruFDkmhoHMU/edit?usp=sharing] [DONE]
## Write driver for point look-up [Done but needs testing]
# (Mitch/Kevin) Generate mesh from PARTONS values generated on the boundaries of phase space volume
# (Mitch/Charles) Compare the different meshes and evaluate the accuracy of the interpolations
## Using barycenter [[Media:CentroidError.png]] [DONE]
# (Mitch/Charles) Change of variables for CFF generation from: ξ-> XBj and t->t' . Reproduce mesh for new variables [DONE]

=== Week July 27 - July 31 ===
# (Spiros) New version of CRTC_I2M docker file and documentation. [DONE]
## The Changes for PODM3D are:
### --min-edge is now a parameter that expresses the percentage of the diagonal that will be used as min-edge. Default 1/ sqrt(3).
### (New parameter) --max-edge is a parameter that expresses the percentage of the diagonal that will be used as max-edge. Default 10.
### (New parameter) --parallel-mesh-results is a flag that computes the mesh results in parallel if more than 1 thread is used.
### (New parameter) --file-format is a parameter that defines the output format BINARY or ASCII. Default binary.
# (Mitch) Generate tessellations in XBj and t' for imaginary and ln(real) parts of CFF using new PODM3D docker
## Plot interpolation error at centroid
# (Mitch) Outline a code to compute DVCS cross section
## Understand/modify the Bethe Heitler CS code
## Work through the dirac algebra

=== Week Aug 3 - Aug 7 ===
# (Charles, Mitch) New sizing function S[f,g]
## f = Im[CFF], g = Re[CFF]
## for each simplex with points '''X'''(''i'') ''i=0,1,2,3,''
### ''<f> = [f(0)+f(1)+ f(2)+f(3)]/4''
### ''<f^2> = [f^2(0) + f^2(1) + f^2(2) + f^2(3) ]/4''
### ''rms[f] = Sqrt[<f^2> - <f^2>^2 ]''
### S[f,g] = rms[f]/Sqrt[<f^2>] + rms[g]/Sqrt[<g^2>]

== TODO with a potential supplement ==
# (Spiros) Compile a list of Utilities for pre- and post-processing functions for I2M conversion
## Examples should include: (i) fast search methods, (ii) smart lookup table functionality, etc.
# (All) Identify applications that could benefit from tessellations like nD numerical integration, data preservation, etc..
# (Spiros/Nikos) Explore Christian's request to compute 2D/3D function approximation for square/cube and a given analytic function defined on the square/cube

== TODO Year 2021 ==
# (Spiros/Mitch/Sean (REU)) Help Mitch parallelize Partons' code
# (Spiros) Template [https://github.com/gavalian/clas12ai/blob/add-crtc-ml/cnf/main.cc Gagik's MC kernel] to work for N-dimensions
# (Spiros) Develop a 2D/3D/4D Parallel Adaptive Delaunay Mesh Generator, where the input is a set of points

= Restricted Access (available to CNF Imaging Project i.e., CRTC/JLAB only) =
* [https://odu.box.com/s/ce6wc1ht1f96jx7lpafys1ue1piiyekc Shared box directory]
* [https://git-community.cs.odu.edu/crtc/Mesh-Generation/Parallel-Mesh-Generation/podm-superbuild PODM Docker image source files]
* [https://git-community.cs.odu.edu/crtc/websites/podm-documentation CRTC_I2M_Suite website build files]
* Adaptivity
** [[CNF:Mesh Sizing for CNF data]]
** [[CNF:CNF_Adaptivity]]
* [[CNF:Visualization for CNF data]]
* [[CNF:Machine Learning]]

* https://www.jlab.org/indico/event/335/
* [http://www.cs.odu.edu/crtc/videos/PODM3D.html Video of meshing procedure]