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Commit bfe6bebc authored by Gervaise Henry's avatar Gervaise Henry :cowboy:
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Fix ends force

parent 3026d63e
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2 merge requests!76Develop,!71Seqwho
Pipeline #9330 failed with stages
in 8 minutes and 57 seconds
...@@ -266,7 +266,7 @@ process getData { ...@@ -266,7 +266,7 @@ process getData {
echo -e "LOG: unzipped" >> ${repRID}.getData.log echo -e "LOG: unzipped" >> ${repRID}.getData.log
# bag fetch fastq's only and rename by repRID # bag fetch fastq's only and rename by repRID
if [ "${params.fastqsForce}" != "" ] if [ "${params.endsForce}" != "" ]
then then
echo -e "LOG: fetching replicate bdbag" >> ${repRID}.getData.log echo -e "LOG: fetching replicate bdbag" >> ${repRID}.getData.log
fastqCount=\$(sh ${script_bdbagFetch} \${replicate::-13} ${repRID}) fastqCount=\$(sh ${script_bdbagFetch} \${replicate::-13} ${repRID})
...@@ -302,7 +302,7 @@ if (fastqsForce != "") { ...@@ -302,7 +302,7 @@ if (fastqsForce != "") {
fastqs_parseMetadata fastqs_parseMetadata
fastqs_fastqc fastqs_fastqc
} }
fastqsForce.count().into{ fastqsForce.count().into {
fastqCount fastqCount
} }
} else { } else {
......
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