From 6372ae6e544b52d605bbd94f0bbd44298d11984f Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Mon, 28 Dec 2020 12:44:04 -0600
Subject: [PATCH] Fix sed in uploadQC CI unit
---
.gitlab-ci.yml | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index ea38a76..85433d0 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -331,7 +331,7 @@ uploadQC:
cookie=$(cat credential.json | grep -A 1 '\"staging.gudmap.org\": {' | grep -o '\"cookie\": \".*\"') &&
cookie=${cookie:11:-1} &&
if [ "${exist}" != "[]" ]; then
- rids=$(echo ${exist} | grep -o '\"RID\":\".\{7\}' | sed 's/^.\{7\}\/\/') &&
+ rids=$(echo ${exist} | grep -o '\"RID\":\".\{7\}' | sed 's/^.\{7\}//') &&
for rid in ${rids}; do
singularity run 'docker://gudmaprbk/deriva1.3:1.0.0' python3 ./workflow/scripts/deleteEntry.py -r ${rid} -t mRNA_QC -o staging.gudmap.org -c ${cookie} &&
echo old mRNA QC RID deleted - ${rid}
--
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