From 901ff9706d7e796c61ee85ec76f97696efce6ae3 Mon Sep 17 00:00:00 2001 From: Magnus Wahlberg Date: Wed, 29 May 2024 14:33:03 +0200 Subject: [PATCH] add -p flag (#106) --- .github/workflows/run-pipeline.yml | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/.github/workflows/run-pipeline.yml b/.github/workflows/run-pipeline.yml index 47f02e8b..b2e3d469 100644 --- a/.github/workflows/run-pipeline.yml +++ b/.github/workflows/run-pipeline.yml @@ -82,7 +82,7 @@ jobs: python -m snakemake ${{ (inputs.dry_run && '-n') || '' }} \ -j 2 --directory ${{inputs.pipeline_directory}} \ ${{ (endsWith(inputs.pipeline_config, 'ml') && '--configfile') || '' }} ${{ inputs.pipeline_config }} \ - --snakefile ${{inputs.pipeline_file}} --show-failed-logs -F ${{ inputs.pipeline_extra_flags }} + --snakefile ${{inputs.pipeline_file}} --show-failed-logs -F -p ${{ inputs.pipeline_extra_flags }} shell: micromamba-shell {0} - name: Run post pipeline cmd if: inputs.postrun_cmd