From 7b90b9dc437cb233c4b6638ad4b81c4d6ae461a1 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Tue, 23 Feb 2021 22:03:52 -0600
Subject: [PATCH] Fix seqwho version collection in ci
---
.gitlab-ci.yml | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index 49b09a1..cb06366 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -152,7 +152,7 @@ seqwho:
- schedules
script:
- wget -O SeqWho.ix https://cloud.biohpc.swmed.edu/index.php/s/eeNWqZz8jqN5zWY/download
- - singularity run 'docker://gudmaprbk/seqwho0.0.1:1.0.0' seqwho.py | grep -o Version.* > version_seqwho.txt
+ - singularity run 'docker://gudmaprbk/seqwho0.0.1:1.0.0' seqwho.py -h | grep -o Version.* > version_seqwho.txt
- singularity run 'docker://gudmaprbk/seqwho0.0.1:1.0.0' seqwho.py -f ./test_data/fastq/small/Q-Y5F6_1M.R1.fastq.gz -x SeqWho.ix
- pytest -m seqwho
artifacts:
--
GitLab