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Resolve "process_getData"

Merged Gervaise Henry requested to merge 1-process_getData into develop
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@@ -8,7 +8,6 @@ params.outDir = "${baseDir}/../output"
@@ -8,7 +8,6 @@ params.outDir = "${baseDir}/../output"
// Parse input variables
// Parse input variables
deriva = file(params.deriva)
deriva = file(params.deriva)
deriva.copyTo('~/.bdbag/deriva-cookies.txt')
bdbag = Channel
bdbag = Channel
.fromPath(params.bdbag)
.fromPath(params.bdbag)
.ifEmpty { exit 1, "bdbag zip file not found: ${params.bdbag}" }
.ifEmpty { exit 1, "bdbag zip file not found: ${params.bdbag}" }
@@ -35,6 +34,8 @@ process splitData {
@@ -35,6 +34,8 @@ process splitData {
"""
"""
hostname
hostname
ulimit -a
ulimit -a
 
ln -sf `readlink -e ${deriva}` ~/.bdbag/deriva-cookies.txt
 
echo LOG: deriva cookie linked
study=`echo "${bdbag}" | cut -d'.' -f1`
study=`echo "${bdbag}" | cut -d'.' -f1`
echo LOG: \${study}
echo LOG: \${study}
unzip ${bdbag}
unzip ${bdbag}