Bug squashed in tse apply transforms

thomshaw92 · Jul 15, 2020 · 839baa2 · 839baa2
1 parent f47ff4c
commit 839baa2
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/LASHiS.sh b/LASHiS.sh
@@ -672,8 +672,8 @@ do
 
         logCmd ${ANTSPATH}/antsApplyTransforms \
         -d 3 \
-        -i $OUTPUT_DIRECTORY_FOR_SINGLE_SUBJECT_ASHS/tse_${SUBJECT_COUNT}.nii.gz \
-        -r $OUTPUT_DIRECTORY_FOR_SINGLE_SUBJECT_ASHS/tse_${SUBJECT_COUNT}.nii.gz \
+        -i ${OUTPUT_DIR}/tse_${SUBJECT_COUNT}.nii.gz \
+        -r ${OUTPUT_DIR}/tse_${SUBJECT_COUNT}.nii.gz \
         -o ${OUTPUT_DIR}/resampled_t2_${SUBJECT_COUNT}.nii.gz \
         -t ${OUTPUT_DIRECTORY_FOR_SINGLE_SUBJECT_TEMPLATE}T_tse_native_chunk_both_sides_resliced_${SUBJECT_COUNT}${WARP_COUNT}Warp.nii.gz \
         -t ${OUTPUT_DIRECTORY_FOR_SINGLE_SUBJECT_TEMPLATE}T_tse_native_chunk_both_sides_resliced_${SUBJECT_COUNT}${WARP_COUNT}Affine.txt