Skip to content
Snippets Groups Projects
Commit 7d2108a5 authored by Jonathan Gesell's avatar Jonathan Gesell
Browse files

Corrected typo in makeFeatureCounts test.

parent 28f1a97f
2 merge requests!37v0.0.1,!22Resolve "process_count"
Pipeline #6305 canceled with stages
in 4 minutes and 3 seconds
Hide whitespace changes
Inline Side-by-side
Showing
with 1 addition and 1 deletion
.gitlab-ci.yml
+ 1
− 1
View file @ 7d2108a5
......@@ -80,7 +80,7 @@ makeBigWig:
makeFeatureCounts:
stage: unit
script:
- singularity run 'docker://bicf/subread2:2.0.0' featureCounts -R SAM -p -G /project/BICF/BICF_Core/shared/gudmap/references/GRCh38.p12.v31/genome.fna -T `nproc` -s 1 -a /project/BICF/BICF_Core/shared/gudmap/references/GRCh38.p12.v31/genome.gtf -o Q-Y5JA_1M.se.featureCounts -g 'gene name' --primary --ignoreDup -B ./test_data/bam/small/Q-Y5JA_1M.se.sorted.deduped.bam
- singularity run 'docker://bicf/subread2:2.0.0' featureCounts -R SAM -p -G /project/BICF/BICF_Core/shared/gudmap/references/GRCh38.p12.v31/genome.fna -T `nproc` -s 1 -a /project/BICF/BICF_Core/shared/gudmap/references/GRCh38.p12.v31/genome.gtf -o Q-Y5JA_1M.se.featureCounts -g 'gene_name' --primary --ignoreDup -B ./test_data/bam/small/Q-Y5JA_1M.se.sorted.deduped.bam
- singularity run 'docker://bicf/subread2:2.0.0' Rscript ./workflow/scripts/calculateTPM.R --count Q-Y5JA_1M.se.featureCounts
- pytest -m makeFeatureCounts
......
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment