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ci: use system nextflow installation #408

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Feb 13, 2024
Merged

ci: use system nextflow installation #408

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2 changes: 0 additions & 2 deletions .tests/jenkins/Jenkinsfile
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Original file line number Diff line number Diff line change
Expand Up @@ -34,7 +34,6 @@ pipeline {
git clone https://github.com/clinical-genomics-uppsala/GMS560_config
snakemake -s ../workflow/Snakefile --profile ../.tests/jenkins/profile --configfiles GMS560_config/config/config_production_pipeline.yaml config/config.yaml -w 60 --notemp --keep-incomplete
git clone https://github.com/clinical-genomics-uppsala/validation_workflow.git
module load nextflow
nextflow run validation_workflow/validate_result.nf
'''
}
Expand Down Expand Up @@ -63,7 +62,6 @@ pipeline {
git clone https://github.com/clinical-genomics-uppsala/GMS560_config
snakemake -s ../workflow/Snakefile --profile ../.tests/jenkins/profile --configfiles GMS560_config/config/config_production_pipeline.yaml config/config.yaml -w 60 --notemp --keep-incomplete
git clone https://github.com/clinical-genomics-uppsala/validation_workflow.git
module load nextflow
nextflow run validation_workflow/validate_result.nf
'''
}
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