From 917a5f7fd34df7f53b94cfc95a68b7abd678df13 Mon Sep 17 00:00:00 2001
From: "Gervaise H. Henry" <gervaise.henry@utsouthwestern.edu>
Date: Tue, 14 Jan 2020 12:11:22 -0600
Subject: [PATCH] Update .gitlab-ci.yml
---
.gitlab-ci.yml | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/.gitlab-ci.yml b/.gitlab-ci.yml
index 4d7f37b..d1a71e5 100644
--- a/.gitlab-ci.yml
+++ b/.gitlab-ci.yml
@@ -21,13 +21,13 @@ getData:
- singularity run 'docker://bicf/gudmaprbkfilexfer:1.1' sh ./workflow/scripts/bdbagFetch.sh Replicate_16-1ZX4 16-1ZX4
trimData_se:
- tage: unit
+ stage: unit
script:
- if [ `nproc` -gt 8 ]; then ncore=8; else ncore=`nproc`; fi
- singularity run 'docker://bicf/trimgalore:1.1' trim_galore --gzip -q 25 --illumina --length 35 --basename 16-1ZX4 -j ${ncore} ./test_data/fastq/16-1ZX4.R1.fastq.gz
trimData_pe:
- tage: unit
+ stage: unit
script:
- if [ `nproc` -gt 8 ]; then ncore=8; else ncore=`nproc`; fi
- singularity run 'docker://bicf/trimgalore:1.1' trim_galore --gzip -q 25 --illumina --length 35 --paired --basename Q-Y5JA -j ${ncore} ./test_data/fastq/Q-Y5JA.R1.fastq.gz ./test_data/fastq/Q-Y5JA.R2.fastq.gz
\ No newline at end of file
--
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