perklab / slicermatlabbridge Goto Github PK

The Matlab compiler allows building of an executable that can run Matlab modules (it just has to contain the commandserver .m files and all the custom algorithm .m files).
A helper tool could be developed to make the MCR package generation completely automatic.
Some changes would be needed in the MatlabCommander to support using multiple different MCR packages at the same (each package should run and communicate independently on different IP ports).

Module generation
Module execution
Parameter reading/writing

When an image is loaded using the MatlabBridge, currently IJKtoRAS information is stored in two places:

• in img.ijkToLpsTransform
• in a field in img.metaData

The field in img.metaData is not used, just left there, so remove it, and just keep the img.ijkToLpsTransform (and make sure the field is created in the written file)

Maybe also add an example describing how to get the spacing from the img.ijkToLpsTransform (and a note that directions shall not be ignored and add an example for getting LPS from IJK and IJK from LPS).

Migrated from https://app.assembla.com/spaces/slicerrt/tickets/465-remove-ijktoras-atrribute-from-matlab-image-metadata/details

Have an option in the Matlab commander to start a full-GUI matlab and add a breakpoint in the called function

Migrated from https://app.assembla.com/spaces/slicerrt/tickets/464-make-matlab-module-debugging-easier/details

Hello there,

I am reading a segmentation (saved as .nrrd file) from Slicer to Matlab by using the nrrdread function
(SlicerMatlabBridge/MatlabCommander/commandserver/nrrdread.m)

However, the segments are not entirely correct after I read them. It seems like their boundaries are not read precisely, i.e., the middle or interior parts are correct, but as I go through the boundaries there are some errors.

Any suggestions ? I am using Slicer 4.11 and Matlab 2020b.

Thanks !

MatlabBridge is not built for latest nightly and stable on Windows maybe because of test errors in an extension that it depends on (SlicerOpenIGTLink).

http://slicer.cdash.org/viewTest.php?onlyfailed&buildid=1456789