Upload cmore_invertWarps.sh

OB_pipeline/cmore_invertWarps.sh

+#!/bin/bash
+
+#$ -cwd -j y
+#$ -r y
+
+echo `date`: Executing task ${SGE_TASK_ID} of job ${JOB_ID} on `hostname` as user ${USER}
+echo SGE_TASK_FIRST=${SGE_TASK_FIRST}, SGE_TASK_LAST=${SGE_TASK_LAST}, SGE_TASK_STEPSIZE=${SGE_TASK_STEPSIZE}
+
+. ~/.bash_profile
+. $MODULESHOME/init/bash
+module load fsl/6.0.3
+
+ID_PATH=$1
+REF_PATH=$2
+WARP_IN_PATH=$3
+WARP_OUT_PATH=$4
+
+IMG_IN_ID=$(awk 'NR=='${SGE_TASK_ID} ${ID_PATH})
+
+printf -v REF_PATH ${REF_PATH} ${IMG_IN_ID}
+printf -v WARP_IN_PATH ${WARP_IN_PATH} ${IMG_IN_ID}
+printf -v WARP_OUT_PATH ${WARP_OUT_PATH} ${IMG_IN_ID}
+
+echo "invwarp --ref=${REF_PATH} --warp=${WARP_IN_PATH} --out=${WARP_OUT_PATH}"
+invwarp --ref=${REF_PATH} --warp=${WARP_IN_PATH} --out=${WARP_OUT_PATH}
+
+rv=$?
+
+echo `date`: task complete
+exit $rv
\ No newline at end of file