From effe7d20efe983053c8958ff59ffe966cb88ec51 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Thu, 14 Jan 2021 15:28:16 -0600
Subject: [PATCH] Fix script name
---
workflow/rna-seq.nf | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/workflow/rna-seq.nf b/workflow/rna-seq.nf
index 0747219..fb7158f 100644
--- a/workflow/rna-seq.nf
+++ b/workflow/rna-seq.nf
@@ -2317,13 +2317,13 @@ process failPreExecutionRun_species {
echo \${exist} >> ${repRID}.failPreExecutionRun_species.log
if [ "\${exist}" == "[]" ]
then
- rid=\$(python3 ${script_uploadExecutionRun_failPreExecutionRun} -r ${repRID} -w \${workflow} -g \${genome} -i ${inputBagRID} -s Error -d "\${errorDetails}" -o ${source} -c \${cookie} -u F)
+ rid=\$(python3 ${script_uploadExecutionRun} -r ${repRID} -w \${workflow} -g \${genome} -i ${inputBagRID} -s Error -d "\${errorDetails}" -o ${source} -c \${cookie} -u F)
echo LOG: execution run RID uploaded - \${rid} >> ${repRID}.failPreExecutionRun_species.log
else
rid=\$(echo \${exist} | grep -o '\\"RID\\":\\".*\\",\\"RCT')
rid=\${rid:7:-6}
echo \${rid} >> ${repRID}.failPreExecutionRun_species.log
- executionRun_rid==\$(python3 ${script_uploadExecutionRun_failPreExecutionRun} -r ${repRID} -w \${workflow} -g \${genome} -i ${inputBagRID} -s Error -d "\${errorDetails}" -o ${source} -c \${cookie} -u \${rid})
+ executionRun_rid==\$(python3 ${script_uploadExecutionRun} -r ${repRID} -w \${workflow} -g \${genome} -i ${inputBagRID} -s Error -d "\${errorDetails}" -o ${source} -c \${cookie} -u \${rid})
echo LOG: execution run RID updated - \${executionRun_rid} >> ${repRID}.failPreExecutionRun_species.log
fi
--
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