Changelog • fslr

Pushing back to CRAN after neurobase is back on.

Moved orient_rpi* functionality to neurobase rather than fslr due to dependencies.
Added fsl_std_file.

Added rpi* functionality that uses RNifti and is likely what we’d want to use.

Fixes bug with getForms (and therefore a lot of stuff) with FSL version 6.0 and greater.

Added quickshear_deface_image to remove faces based on the QuickShear method and nipy/quickshear.
Added mridefacer to add to the anonymization pipelines.
Added invert_xfm and other convert_xfm functionality.
Added fslreorient2std_mat to get the matrix output from fslreorient2std.

Added face_removal_mask for removal of faces, based on pydeface.
Fixed fslsmooth to return an output file if retimg = FALSE.

fixed bug in reverse_rpi_orient_file that was causing ERROR: Could not open file /usr/local/fsl/bin/fslswapdim: 107: [: =: unexpected operator error.
added topup to the exports.
added fsl_resample.
Added fsl_cluster. Removed cluster from exports due to conflicts.
added read_xfm for reading transformations.
Fixes mid_sagittal_align for flipping.
Removed matrixStats as unnecessary dependency.

Added functionality of topup and other DTI-based tools.
Tried to get susan to work properly.
Need to incorporate fsleyes in the future release.

Major changes

Changed default reading/writing to readnii/writenii

Major changes

Added readnii and writenii
Added ortho_diff

Major Changes

Moved functions such as cal_img to oro.nifti package. They are all legacies, such as cal_img still works, but calibrateImage and other camelCase functions have been made default.
Fixed fsl_biascorrect.