change FASTSURFER_HOME to checkout dir

taha-abdullah · Aug 28, 2024 · f11aeda · f11aeda
1 parent 876d767
commit f11aeda
Showing 1 changed file with 1 addition and 0 deletions.
diff --git a/.github/workflows/quicktest_runner.yaml b/.github/workflows/quicktest_runner.yaml
@@ -128,6 +128,7 @@ jobs:
         echo "Running FastSurfer..."
         export FREESURFER_HOME=/freesurfer
         source $FREESURFER_HOME/SetUpFreeSurfer.sh
+        export FASTSURFER_HOME=$(pwd)
         ./brun_fastsurfer.sh --subject_list $RUNNER_FS_MRI_DATA/subjects_list.txt \
                              --sd $RUNNER_FS_OUTPUT \
                              --parallel --threads 4 --3T --parallel_subjects surf