FastSurfer v2.4.1 This hot fix release contains several fixes (the default pipeline is not affected): --allow_root was broken in run_fastsurfer and long_fastsurfer and now is fixed. the new longitudinal stream stopped when image geometries were not perfectly identical across time points (this usually indicates changes in the image acquisition or the pre-processing and can be a source of bias - i.e. measuring changes when there are none). It now gives a warning as intended and then continues. Please take the warning seriously and check why your image resolutions differ across time, even if the difference is small. adding a T2 for the hippothalamus segmentation did not work correctly and is fixed now. Also note, that we perform a registration to the T1 and for that currently you need to pass a freesurfer licenses even in the segmentation block (only when passing a T2 in addition to a T1). Further fixes in srun_fastsurfer and brun_fastsurfer. What's Changed Fix allow_root in run_fastsurfer and long_fastsurfer by @dkuegler in https://github.com/Deep-MI/FastSurfer/pull/658 run diff command in if statement to catch error by @m-reuter in https://github.com/Deep-MI/FastSurfer/pull/657 Fixes additional flags in srun_fastsurfer and T2 processing by @dkuegler in https://github.com/Deep-MI/FastSurfer/pull/656 Full Changelog: https://github.com/Deep-MI/FastSurfer/compare/v2.4.0...v2.4.1