renamed synthseg mri_synthseg (freesurfer#890)

* fixed posteriors * updated hypothalamic_subunits * use None shape for UNet input * cosmetic changes to hypo subunits * added SynthSeg * aligned SynthSR scripts to SynthSeg format * changed order between alignment and resampling in SynthSeg * changed mri_SynthSR to SynthSR * very small changes to hypo subunits * added resampling to hypo_seg and aligned prediction pipelines * harmonized inputs between hypo_seg, SynthSeg, and SynthSR * used consistent synthsr synthseg notations and used fs.fatal * used fs.fatal for hypo_seg * updated CMakeLists.txt * fixed cpu call * important debugging * enabled synthseg crop to be a list * renamed synthseg mri_synthseg
ayendiki · Oct 25, 2021 · 689f1d2 · 689f1d2
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commit 689f1d2
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Showing 12 changed files with 9 additions and 9 deletions.
diff --git a/CMakeLists.txt b/CMakeLists.txt
diff --git a/synthseg/CMakeLists.txt → mri_synthseg/CMakeLists.txt b/synthseg/CMakeLists.txt → mri_synthseg/CMakeLists.txt
diff --git a/synthseg/synthseg → mri_synthseg/mri_synthseg b/synthseg/synthseg → mri_synthseg/mri_synthseg
diff --git a/synthseg/synthseg_1.0.h5 → mri_synthseg/synthseg_1.0.h5 b/synthseg/synthseg_1.0.h5 → mri_synthseg/synthseg_1.0.h5
diff --git a/synthseg/synthseg_segmentation_labels.npy → ...synthseg/synthseg_segmentation_labels.npy b/synthseg/synthseg_segmentation_labels.npy → ...synthseg/synthseg_segmentation_labels.npy
diff --git a/synthseg/synthseg_segmentation_names.npy → mri_synthseg/synthseg_segmentation_names.npy b/synthseg/synthseg_segmentation_names.npy → mri_synthseg/synthseg_segmentation_names.npy
diff --git a/synthseg/synthseg_topological_classes.npy → ...synthseg/synthseg_topological_classes.npy b/synthseg/synthseg_topological_classes.npy → ...synthseg/synthseg_topological_classes.npy
diff --git a/synthsr/CMakeLists.txt → mri_synthsr/CMakeLists.txt b/synthsr/CMakeLists.txt → mri_synthsr/CMakeLists.txt
diff --git a/synthsr/synthsr → mri_synthsr/mri_synthsr b/synthsr/synthsr → mri_synthsr/mri_synthsr
diff --git a/synthsr/synthsr_hyperfine → mri_synthsr/mri_synthsr_hyperfine b/synthsr/synthsr_hyperfine → mri_synthsr/mri_synthsr_hyperfine
diff --git a/synthsr/synthsr_v10_210712.h5 → mri_synthsr/synthsr_v10_210712.h5 b/synthsr/synthsr_v10_210712.h5 → mri_synthsr/synthsr_v10_210712.h5
diff --git a/synthsr/synthsr_v10_210712_hyperfine.h5 → mri_synthsr/synthsr_v10_210712_hyperfine.h5 b/synthsr/synthsr_v10_210712_hyperfine.h5 → mri_synthsr/synthsr_v10_210712_hyperfine.h5