X-Git-Url: https://git.creatis.insa-lyon.fr/pubgit/?a=blobdiff_plain;f=cluster_tools%2Fgate_run_submit_cluster.sh;h=7f1568dcfd801ff1b5deeea8672c699090a9084c;hb=HEAD;hp=edd798bf62839fdbaccd39d28e828be2086d808e;hpb=1865f86b7420682f57e160c911cfebabbfaa8375;p=clitk.git

diff --git a/cluster_tools/gate_run_submit_cluster.sh b/cluster_tools/gate_run_submit_cluster.sh
index edd798b..7f1568d 100755
--- a/cluster_tools/gate_run_submit_cluster.sh
+++ b/cluster_tools/gate_run_submit_cluster.sh
@@ -50,9 +50,17 @@ test -f ${MACRODIR}/${MACROFILE} || error "invalid macro"
 if test "$(dnsdomainname)" = "in2p3.fr"
 then
     OUTPUTDIR=$(mktemp -d -p "${MACRODIR}" run.XXXX || error "can't create temp dir")
-    ssh -i ${HOME}/.ssh/ccin2p3 linux1.dg.creatis.insa-lyon.fr mkdir -p "cc/$(basename ${OUTPUTDIR})"
 else
-    OUTPUTDIR=$(mktemp --tmpdir=${MACRODIR} -d run.XXXX || error "can't create temp dir")
+    unamestr=`uname`
+    if [[ "$unamestr" == 'Darwin' ]]; then
+        ## On OSX (Darwin), mktemp version is different from Linux version . We
+        ## need the absolute folder here
+        OUTPUTDIR=$(mktemp -d run.XXXX || error "can't create temp dir")
+        OUTPUTDIR=${MACRODIR}/${OUTPUTDIR}
+    else
+        OUTPUTDIR=$(mktemp --tmpdir=${MACRODIR} -d run.XXXX || error "can't create temp dir")
+    fi
+    echo $OUTPUTDIR
 fi
 test -d ${OUTPUTDIR} || error "can't locate output dir"
 RUNID=${OUTPUTDIR##*.}
@@ -88,6 +96,7 @@ test -z "${PARAM}" || echo "param = ${PARAM}" >> "${PARAMFILE}"
 # Copy macros files (for log)
 mkdir ${OUTPUTDIR}/mac
 cp ${MACROFILE} ${OUTPUTDIR}/mac
+cp mac/* ${OUTPUTDIR}/mac/
 files=`grep "control/execute" ${MACROFILE} | cut -d " " -f 2`
 for i in $files
 do
@@ -96,22 +105,30 @@ done
 
 while test $NJOBS -gt 0; do
 
+    if [ "$PARAM" = "\"\"" ]
+    then
+        JPARAM="-a [JOB_ID,${NJOBS}]"
+    else
+        JPARAM="${PARAM} [JOB_ID,${NJOBS}]"
+    fi
+
     if test "${QSUB}" = "noqsub"
     then
         echo "Launching Gate log in ${OUTPUTDIR}/gate_${NJOBS}.log"
-        PARAM=\"${PARAM}\" INDEX=${NJOBS} INDEXMAX=${NJOBSMAX} OUTPUTDIR=${OUTPUTDIR}  RELEASEDIR=${RELEASEDIR} MACROFILE=${MACROFILE} MACRODIR=${MACRODIR} PBS_JOBID="local_${NJOBS}" bash "${JOBFILE}" > ${OUTPUTDIR}/gate_${NJOBS}.log &
+        PARAM=\"${JPARAM}\" INDEX=${NJOBS} INDEXMAX=${NJOBSMAX} OUTPUTDIR=${OUTPUTDIR}  RELEASEDIR=${RELEASEDIR} MACROFILE=${MACROFILE} MACRODIR=${MACRODIR} PBS_JOBID="local_${NJOBS}" bash "${JOBFILE}" > ${OUTPUTDIR}/gate_${NJOBS}.log &
     elif test "$(dnsdomainname)" = "in2p3.fr"
     then
         PROJECTGROUP=creatis
         qsub -o "${OUTPUTDIR}" \
-	     -l sps=1 \
+             -e "${OUTPUTDIR}" \
+             -l sps=1 \
              -N "gate.${RUNID}" \
-             -v "PARAM=\"${PARAM}\",INDEX=${NJOBS},INDEXMAX=${NJOBSMAX},OUTPUTDIR=${OUTPUTDIR},RELEASEDIR=${RELEASEDIR},MACROFILE=${MACROFILE},MACRODIR=${MACRODIR}" \
+             -v "PARAM=\"${JPARAM}\",INDEX=${NJOBS},INDEXMAX=${NJOBSMAX},OUTPUTDIR=${OUTPUTDIR},RELEASEDIR=${RELEASEDIR},MACROFILE=${MACROFILE},MACRODIR=${MACRODIR}" \
              "${JOBFILE}" || error "submission error"
     else
         qsub -N "gatejob.${RUNID}" -o "${OUTPUTDIR}" \
-	    -v "PARAM=${PARAM},INDEX=${NJOBS},INDEXMAX=${NJOBSMAX},OUTPUTDIR=${OUTPUTDIR},RELEASEDIR=${RELEASEDIR},MACROFILE=${MACROFILE},MACRODIR=${MACRODIR}" \
-	    "${JOBFILE}" || error "submission error"
+      -v "PARAM=${PARAM},INDEX=${NJOBS},INDEXMAX=${NJOBSMAX},OUTPUTDIR=${OUTPUTDIR},RELEASEDIR=${RELEASEDIR},MACROFILE=${MACROFILE},MACRODIR=${MACRODIR}" \
+      "${JOBFILE}" || error "submission error"
     fi
 
     let NJOBS--