Commit f1e9fed0 authored by Brandi Cantarel's avatar Brandi Cantarel

update ci

parent c997ca38
Pipeline #1675 failed with stage
in 164 minutes and 43 seconds
......@@ -15,13 +15,13 @@ stages:
test_human:
stage: integration
script:
- nextflow run -with-report human_report.html 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
- nextflow run -with-dag flowchart.png -with-timeline human_timeline.html -with-report human_report.html 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 -with-report mouse_report.html 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
- nextflow run -with-dag flowchart.png -with-timeline mouse_timeline.html -with-report mouse_report.html workflow/main.nf --input /project/shared/bicf_workflow_ref/workflow_testdata/rnaseq --design /project/shared/bicf_workflow_ref/workflow_testdata/rnaseq/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
......@@ -4,5 +4,3 @@ process.clusterOptions = '--hold'
trace.enabled = true
trace.file = 'pipeline_trace.txt'
trace.field = 'task_id,native_id,process,name,status,exit,submit,start,complete,duration,realtime'
report.enabled = true
report.file= 'report.html'
\ No newline at end of file
Markdown is supported
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