From 49be41237bb239e248a0ef352f28890d2a7b6e76 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Mon, 4 Jan 2021 18:58:52 -0600
Subject: [PATCH] Fix fail lint
---
workflow/rna-seq.nf | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/workflow/rna-seq.nf b/workflow/rna-seq.nf
index 64a5d1b..b622e04 100644
--- a/workflow/rna-seq.nf
+++ b/workflow/rna-seq.nf
@@ -2019,7 +2019,7 @@ process failExecutionRun {
pipelineError_details=\$(echo \${pipelineError_details}"Species: submitted value = \"${speciesMeta}\" while inferred value = \"${speciesInfer}\". ")
#pipelineError_details=\$(echo \${pipelineError_details}"|*Species*|${speciesMeta}|"${speciesInfer}|\n ")
fi
- pipelineError_details=\$(echo "\${pipelineError_details::-1}"
+ pipelineError_details=\$(echo "\${pipelineError_details::-1}")
rid=\$(python3 ${script_uploadExecutionRun_failExecutionRun} -r ${repRID} -w \${workflow} -g \${genome} -i ${inputBagRID} -s Error -d "\${pipelineError_details}" -o ${source} -c \${cookie} -u ${executionRunRID})
echo LOG: execution run RID marked as error - \${rid} >> ${repRID}.finalizeExecutionRun.log
fi
--
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