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rnaseq
Commit 87256997 authored by Brandi Cantarel's avatar Brandi Cantarel
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gitlab update

parent 1d13db11
Pipeline #1664 failed with stage
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    .gitlab-ci.yml
    View file @ 87256997
    ......@@ -7,6 +7,7 @@ variables:
    before_script:
    - module load nextflow/0.27.6
    - ln -s /project/shared/bicf_workflow_ref/workflow_testdata/rnaseq test_data
    stages:
    - integration
    ......@@ -14,13 +15,13 @@ stages:
    test_human:
    stage: integration
    script:
    - nextflow run workflow/main.nf --design test_data/design.rnaseq.txt --input test_data --output human_output
    - nextflow run workflow/main.nf --design /project/shared/bicf_workflow_ref/workflow_testdata/rnaseq/design.rnaseq.txt --input /project/shared/bicf_workflow_ref/workflow_testdata/rnaseq --output human_output
    artifacts:
    expire_in: 2 days
    test_mouse:
    stage: integration
    script:
    - nextflow run workflow/main.nf --input test_data --design test_data/mouse_se.design.txt --pairs se --fusion skip --genome /project/shared/bicf_workflow_ref/GRCm38 --markdups null --output mouse_output
    - nextflow run workflow/main.nf --input /project/shared/bicf_workflow_ref/workflow_testdata/rnaseq --design /project/shared/bicf_workflow_ref/workflow_testdata/mouse_se.design.txt --pairs se --fusion skip --genome /project/shared/bicf_workflow_ref/GRCm38 --markdups null --output mouse_output
    artifacts:
    expire_in: 2 days
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