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Commit 917a5f7f authored by Gervaise Henry's avatar Gervaise Henry :cowboy:
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Update .gitlab-ci.yml

parent 69e5a3fa
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2 merge requests!37v0.0.1,!11Develop
Pipeline #5651 failed with stage
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......@@ -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
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