From fbcd08dcfcba94530f58850a459da2776311ce28 Mon Sep 17 00:00:00 2001 From: RoanKanninga Date: Sat, 16 Apr 2016 09:44:03 +0200 Subject: [PATCH] fixing gd or gaf group in CopyToResultsDir --- compute5/NGS_DNA/protocols/CopyToResultsDir.sh | 13 ++++++++++++- 1 file changed, 12 insertions(+), 1 deletion(-) diff --git a/compute5/NGS_DNA/protocols/CopyToResultsDir.sh b/compute5/NGS_DNA/protocols/CopyToResultsDir.sh index 0fc6f1c6..f86f6bd9 100755 --- a/compute5/NGS_DNA/protocols/CopyToResultsDir.sh +++ b/compute5/NGS_DNA/protocols/CopyToResultsDir.sh @@ -205,8 +205,19 @@ then elif [[ "${host}" == *"gd-node"* || "${host}" == "zinc-finger.gcc.rug.nl" ]] then + + if [[ "${logsDir}" == *"/groups/umcg-gd"* ]] + then + . ${EBROOTAUTOMATED}/parameters_gd.csv + elif [[ "${logsDir}" == *"/groups/umcg-gaf"* ]] + then + . ${EBROOTAUTOMATED}/parameters_gaf.csv + else + echo "unknown groupname please run in gaf or gd" + fi + touch ${logsDir}/${project}.pipeline.finished - . $EBROOTAUTOMATED/zinc-finger.gcc.rug.nl.cfg + . ${EBROOTAUTOMATED}/zinc-finger.gcc.rug.nl.cfg . $EBROOTAUTOMATED/sharedConfig.cfg echo "pipeline is finished, user ${ONTVANGER} has been mailed" printf "The results can be found: ${projectResultsDir}\n\nCheers from the GCC :)"| mail -s "NGS_DNA pipeline is finished for project ${project} on `date +%d/%m/%Y` `date +%H:%M`" ${ONTVANGER}