Move input and output directory to root.

MASILab · Sep 8, 2022 · 6b68edc · 6b68edc
1 parent 8082e65
commit 6b68edc
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Showing 2 changed files with 5 additions and 5 deletions.
diff --git a/Dockerfile b/Dockerfile
@@ -105,8 +105,8 @@ ENV PATH="/opt/c3d-1.0.0-Linux-x86_64/bin:$PATH"
 
 ENV FREESURFER_HOME=/opt/freesurfer
 
-RUN mkdir /home/INPUTS && \
-    mkdir /home/OUTPUTS
+RUN mkdir /INPUTS && \
+    mkdir /OUTPUTS
 
 COPY src /home
 

diff --git a/src/pipeline.sh b/src/pipeline.sh
@@ -22,7 +22,7 @@ done
 # setup freesurfer
 source $FREESURFER_HOME/SetUpFreeSurfer.sh
 
-cd /home/INPUTS
+cd /INPUTS
 
 # check file existence
 if [ ! -f T1.nii.gz ]; then
@@ -35,8 +35,8 @@ if [ ! -f BOLD_d.nii.gz ]; then
     exit 1
 fi
 
-INPUTS_PATH=/home/INPUTS
-RESULTS_PATH=/home/OUTPUTS
+INPUTS_PATH=/INPUTS
+RESULTS_PATH=/OUTPUTS
 
 if [ $skull_stripped ]; then
     T1_ATLAS_PATH=/home/mni_icbm152_t1_tal_nlin_asym_09c_mask.nii.gz