From b0eb119bd8eefd31b73dd38ccffc6c4539c61456 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Thu, 17 Dec 2020 10:48:22 -0600
Subject: [PATCH] Add date to input/output bag
---
workflow/rna-seq.nf | 14 ++++++++++++--
1 file changed, 12 insertions(+), 2 deletions(-)
diff --git a/workflow/rna-seq.nf b/workflow/rna-seq.nf
index cc71d85..d875803 100644
--- a/workflow/rna-seq.nf
+++ b/workflow/rna-seq.nf
@@ -177,6 +177,13 @@ process getBag {
echo -e "LOG: fetching bag for ${repRID} in GUDMAP" >> ${repRID}.getBag.log
deriva-download-cli ${source} --catalog 2 ${replicateExportConfig} . rid=${repRID}
echo -e "LOG: fetched" >> ${repRID}.getBag.log
+
+ name=\$(ls *.zip)
+ name=\$(basename \${name} | cut -d "." -f1)
+ yr=\$(date +'%Y')
+ mn=\$(date +'%m')
+ dy=\$(date +'%d')
+ mv \${name}.zip \${name}_\${yr}\${mn}\${dy}.zip
"""
}
@@ -1538,8 +1545,11 @@ process outputBag {
echo -e "**Run ID:** ${repRID}" >> runDetails.md
echo LOG: runDetails.md created >> ${repRID}.outputBag.log
- unzip Execution_Run_${executionRunRID}.zip
- mv Execution_Run_${executionRunRID} ${repRID}_Output_Bag
+ unzip Execution_Run_${executionRunRID}.zip
+ yr=\$(date +'%Y')
+ mn=\$(date +'%m')
+ dy=\$(date +'%d')
+ mv Execution_Run_${executionRunRID} ${repRID}_Output_Bag_\${yr}\${mn}\${dy}
loc=./${repRID}_Output_Bag/data/assets/Study/${studyRID}/Experiment/${expRID}/Replicate/${repRID}/Execution_Run/${executionRunRID}/Output_Files/
mkdir -p \${loc}
cp runDetails.md \${loc}
--
GitLab