From 0dc106d1cfacfd3176b896887b29055f74b7256c Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Mon, 7 Dec 2020 10:18:36 -0600
Subject: [PATCH] Fix upload output bag ci unit test
---
.gitlab-ci.yml | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index f62f838..5f39bc8 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -288,7 +288,7 @@ uploadInputBag:
script:
- ln -sfn `readlink -e ./test_data/auth/credential.json` ./credential.json
- >
- if [ `deriva-hatrac-cli --host dev.gudmap.org ls /hatrac/resources/rnaseq/pipeline/input_bag/ | grep -q '/TEST$'` ]; then
+ if [ `singularity run 'docker://gudmaprbk/deriva1.3:1.0.0' deriva-hatrac-cli --host dev.gudmap.org ls /hatrac/resources/rnaseq/pipeline/input_bag/ | grep -q '/TEST$'` ]; 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
@@ -367,7 +367,7 @@ uploadOutputBag:
script:
- ln -sfn `readlink -e ./test_data/auth/credential.json` ./credential.json
- >
- if [ `deriva-hatrac-cli --host dev.gudmap.org ls /hatrac/resources/rnaseq/pipeline/output_bag/ | grep -q '/TEST$'` ]; then
+ if [ `singularity run 'docker://gudmaprbk/deriva1.3:1.0.0' deriva-hatrac-cli --host dev.gudmap.org ls /hatrac/resources/rnaseq/pipeline/output_bag/ | grep -q '/TEST$'` ]; then
singularity run 'docker://gudmaprbk/deriva1.3:1.0.0' deriva-hatrac-cli --host dev.gudmap.org mkdir /hatrac/resources/rnaseq/pipeline/output_bag/TEST
echo /hatrac/resources/rnaseq/pipeline/output_bag/TEST created
else
--
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