Internal:PODM CNF

Things TODO

1. Create scripts to run the image easily. ✔
2. Test:
   1. Linux ✔
   2. Windows ✔
   3. MacOS
3. Add Linear Interpolation Code as default output ✔
   1. Code is ready need to be integrated with PODM ✔
4. Segment automatically nrrd data ✔
   1. i.e. iterate with ITK Gajik's image and convert values !=0 -> 1 ✔
   2. Should be done as preproceccing step in PODM and it should be ON by default ✔
5. add Volume grading command line option (ON and OFF for now) ( right now there is a macro, convert it to input flag OFF by default) ✔
6. nrrd images do not visualize well in paraview -> add convert_image tool in the docker image. ( available at /RC/group/RC_NIKOS/Christos/convert_image.git ) so that the users can convert their raw data and visualize them in paraview, add runscript (or option in runscript) for that✔
7. add memory limit flag for docker inside the python script
8. Create User Documentation ✔
9. explain better delta ?
10. Clean up text output ✔
11. segmentation can be easily be implemented in parallel just by using the Multithreaded ITK template [1] (maybe also linear interpolation ?) (low priority)