Bedtools not found while testing master branch
I was running the pipeline locally using the master branch and got an error message "tests/test_integration_workflow/test.local.sh: line 59: bedtools: command not found"
These are the steps:
git clone ssh://git@git.scicore.unibas.ch:2222/zavolan_group/pipelines/rhea.git
cd rhea/
conda activate rnaseq_pipeline
ml Singularity/2.6.1
nohup bash tests/test_integration_workflow/test.local.sh > integration_workflow_local.log
This is the execution log: integration_workflow_local.log
Edited by BIOPZ-Börsch Anastasiya