From f85bba0211b2c017ada80d340e1b62fa32d66deb Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Mon, 30 Nov 2020 20:19:38 -0600
Subject: [PATCH] Finalize CI unit uploadInputBag
---
.gitlab-ci.yml | 3 ++-
1 file changed, 2 insertions(+), 1 deletion(-)
diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index 608b422..7264e8c 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -288,7 +288,8 @@ uploadInputBag:
script:
- ln -sfn `readlink -e ./test_data/auth/credential.json` ./credential.json
- >
- if [ -z "$(singularity run 'docker://gudmaprbk/deriva1.3:1.0.0' deriva-hatrac-cli --host dev.gudmap.org ls /hatrac/resources/rnaseq/pipeline/input_bag/ | grep -o '/TEST$')"" ]; then
+ hatrac=`singularity run 'docker://gudmaprbk/deriva1.3:1.0.0' deriva-hatrac-cli --host dev.gudmap.org ls /hatrac/resources/rnaseq/pipeline/input_bag/ | grep -o '/TEST$'` &&
+ if [ -z "${hatrac}" ]; then
singularity run 'docker://gudmaprbk/deriva1.3:1.0.0' deriva-hatrac-cli --host dev.gudmap.org mkdir /hatrac/resources/rnaseq/pipeline/input_bag/TEST
echo /hatrac/resources/rnaseq/pipeline/input_bag/TEST created
else
--
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