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Commit 6bedccc4 authored by Gervaise Henry's avatar Gervaise Henry :cowboy:
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Move endsManual in parseMetadata process from spike to stranded

parent 529dadea
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2 merge requests!37v0.0.1,!16Resolve "process_getRef"
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workflow/rna-seq.nf
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......@@ -140,11 +140,11 @@ process parseMetadata {
echo "LOG: endedness manually detected: \${endsManual}" >>${repRID}.parseMetadata.err
# Get strandedness metadata
stranded=\$(python3 ${script_parseMeta} -r ${repRID} -m "${experimentSettingsMeta}" -p stranded)
stranded=\$(python3 ${script_parseMeta} -r ${repRID} -m "${experimentSettingsMeta}" -p stranded -e \${endsManual})
echo "LOG: strandedness metadata parsed: \${stranded}" >>${repRID}.parseMetadata.err
# Get spike-in metadata
spike=\$(python3 ${script_parseMeta} -r ${repRID} -m "${experimentSettingsMeta}" -p spike -e \${endsManual})
spike=\$(python3 ${script_parseMeta} -r ${repRID} -m "${experimentSettingsMeta}" -p spike)
echo "LOG: spike-in metadata parsed: \${spike}" >>${repRID}.parseMetadata.err
# Get species metadata
......
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