v2.1.0

FastSurfer Version 2.1.0

Finally, you waited and waited and now it is here :-) our new fresh and shiny FastSurfer Release 2.1. including Cerebnet for Cerebellum sub segmentation (currently only on 1mm resolution) https://doi.org/10.1016/j.neuroimage.2022.119703

What's Changed

• Introduce segstats.py script for fast partial volume computation by @dkuegler in #239
• Docs add Windows GPU and update tutorial by @agirodi in #244
• Surfreg script by @agirodi in #241
• Fix: Misleading QC failure message in run_fastsurfer.sh by @AhmedFaisal95 in #247
• Refactoring of features impacted by CerebNet by @dkuegler in #249
• Fixed generate_hdf5.py issues - generalization and bug fix by @LeHenschel in #251
• Fix/yaml files by @LeHenschel in #252
• Added optional LUT to map sagittal view to other classes by @LeHenschel in #253
• Performance optimization and refactoring of the core prediction loop by @dkuegler in #255
• Bugfix: Wrong number of parameters for "setup_logging" by @ClePol in #257
• Remove np.float, deprecated in numpy 1.20 and removed in 1.24 by @mscheltienne in #263
• Set default FASTSURFER_HOME by script path instead of PWD by @dkuegler in #269
• CerebNet support in FastSurfer by @dkuegler in #258
• Fixed bug in FastSurferVINN interpolation by @ClePol in #274
• Improving ability to import FastSurferCNN into other projects by @dkuegler in #275
• Added call to create jacobian_white measure directly in fastsurfer by @LeHenschel in #282
• Simplified competitive concatentation with torch.maximum by @LeHenschel in #292
• Documentation updates for FastSurfer 2.1 by @dkuegler in #293
• Fix: 3D interact in tutorial showing white screen by @agirodi in #300
• QC check: Ventricle-bg intersection volume by @AhmedFaisal95 in #299
• Create EDITING.md by @m-reuter in #304
• Fix the version comparison in reconsurf.sh by @dkuegler in #321

Full Changelog: v2.0.4...v2.1.0

Known Issues

• --no_fs_T1 flag does not work due to upper/lower case confusion
• seg-only GPU docker cannot load checkpoints

We will therefore not release 2.1.0 docker images and will apply patches to fix these issues and release 2.1.1 (next week).