search

cnr-ibba / nf-resequencing-mem

Nextflow resequencing pipeline with bwa-mem and freebayes
MIT License
0 stars 0 forks source link

:bug: update pipeline to support latest nf-core/tools #46

Closed bunop closed 9 months ago

bunop commented 1 year ago

nf-core/tools v2.7.1 cannot lint pipeline anymore: there are some changes which could affect CI test. Pipeline need to be updated and lint test should pass without warnings:

Additional information

pipeline name has issue: .nf-core.yml should change like this:

lint:
  actions_awsfulltest: False
  pipeline_todos: False
  files_exist: False
  nextflow_config:
    - manifest.name
  files_unchanged:
    - .gitignore
    - .github/workflows/linting.yml
  actions_ci: False
  merge_markers: False
  multiqc_config: False
repository_type: pipeline

v2.7.1 has issue in parsing this file, the dev branch of nf-core/tools can parse this config file correctly