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Commit 1781d6d0 authored by Schiffer, Christian's avatar Schiffer, Christian
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fix annotation pattern

parent e27fd95b
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......@@ -20,7 +20,7 @@ export OUTPUT_SPACING=16
# Set annotation directory (assume we are in the experiment folder)
export ATLAS_ANNOTATION_DIR=$(pwd)/annotations/
export ATLAS_ANNOTATION_FILE="B${BRAIN}_{slice:04d}_annotations.hdf5"
export ATLAS_ANNOTATION_FILE="B{brain:02d}_{slice:04d}_annotations.hdf5"
# Make prediction and run evaluation
srun --cpus-per-task 4 atlas dl predict $(pwd) --verbose --output-spacing ${OUTPUT_SPACING} --overwrite --save-argmax
......
......@@ -19,7 +19,7 @@ export SCRATCH_USER=/p/scratch/cjinm16/schiffer1/
# Set annotation directory (assume we are in the experiment folder)
export ATLAS_ANNOTATION_DIR=$(pwd)/annotations/
export ATLAS_ANNOTATION_FILE="B${BRAIN}_{slice:04d}_annotations.hdf5"
export ATLAS_ANNOTATION_FILE="B{brain:02d}_{slice:04d}_annotations.hdf5"
# Some more variables
INPUT_SPACING=1
......
......@@ -19,7 +19,7 @@ export SCRATCH_USER=/p/scratch/cjinm16/schiffer1/
# Set annotation directory (assume we are in the experiment folder)
export ATLAS_ANNOTATION_DIR=$(pwd)/annotations/
export ATLAS_ANNOTATION_FILE="B${BRAIN}_{slice:04d}_annotations.hdf5"
export ATLAS_ANNOTATION_FILE="B{brain:02d}_{slice:04d}_annotations.hdf5"
# Some more variables
INPUT_SPACING=1
......
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