====== Can we start an InightSoftwareConsortium/itkMGHImageIO repository that is separate from this one as the preferred repo for this code? From a development standpoint this will be easier because itkMGHImageIO is now part of the standard ITK remote modules. I would suggest keeping the current repo hosted under the Slicer/ organization for historical purposes, but make one more merge request that replaces all the master head content with a single README file redirecting to the new InightSoftwareConsortium/itkMGHImageIO home.

The MGHIO file writing seems to have bugs when certain direction cosigns are used. There seems to be a bug in computing the correct origin to store in the .mgz file

TODO:

1. use freesurfer's mriconvert to read a reference.nii.gz file and write a proper reference.mgh file
2. write a test case that reads the nii.gz file, and writes a temporay test.mgh file
3. compare the test.mgh file to the reference.mgh file
4. read the reference.mgh file and compare to the reference.nii.gz file

HINTS:

Refactor the code to replace c-style arrays with itk::Vector and itk::Matrix, then use matrix operations to describe the mathemetics that need to occur.

For example when converting from RAS to LPS, multiply by a matrix:
LPS2RPS=
[ -1 0 0;
0 -1 0;
0 0 1]

https://surfer.nmr.mgh.harvard.edu/fswiki/CoordinateSystems?action=AttachFile&do=get&target=fscoordinates.pdf

itk::Point ( .GetVectorFromOrigin() )
itk::Vector
itk::Matrix

To enable automated package updates on release as documented:

https://itkpythonpackage.readthedocs.io/en/master/Build_ITK_Module_Python_packages.html#automate-pypi-package-uploads

@jcfr I do not have permissions to do this on the repository -- could you please add it?

====== Can we start an InightSoftwareConsortium/itkMGHImageIO repository that is separate from this one as the preferred repo for this code? From a development standpoint this will be easier because itkMGHImageIO is now part of the standard ITK remote modules. I would suggest keeping the current repo hosted under the Slicer/ organization for historical purposes, but make one more merge request that replaces all the master head content with a single README file redirecting to the new InightSoftwareConsortium/itkMGHImageIO home.