From e6fda1806d3ff3b4533c5af946e831ca3fc9691e Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Sun, 25 Jul 2021 16:47:20 -0500
Subject: [PATCH] Change seqwho ref location in ci
---
.gitlab-ci.yml | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index 4519e67..aa9e446 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -255,7 +255,7 @@ seqwho:
- seqwhoImg=$(cat nextflow.config | grep -oP "container = \K.*" | tr -d "'" | sort | uniq | grep seqwho | cut -d"/" -f2 | cut -d":" -f1)
- seqwhoVar=$(cat nextflow.config | grep -oP "container = \K.*" | tr -d "'" | sort | uniq | grep seqwho | cut -d"/" -f2 | cut -d":" -f2)
- echo ${dir}${seqwhoImg}_${seqwhoVar}.sif
- - wget -O SeqWho.ix https://cloud.biohpc.swmed.edu/index.php/s/eeNWqZz8jqN5zWY/download
+ - wget -O SeqWho.ix https://cloud.biohpc.swmed.edu/index.php/s/sP48taKmymSkJBM/download
- mkdir -p SeqWho_call_plots/test_data/fastq/small/
- singularity run ${dir}${seqwhoImg}_${seqwhoVar}.sif seqwho.py -f test_data/fastq/small/Q-Y5F6_1M.R1.fastq.gz -x SeqWho.ix
- pytest -m seqwho
--
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