Template update to 3.1.1 #9
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* feat: add modules * feat: add docker image * fix: swap to wave containers * feat: update schema and config * feat: add modules to workflow * fix: usage of vcf2mat * fix: remove .view and add more comments explaining the code * feat: add gvcf to vcf conversion * feat: add GATK iGenomes * feat: add tabix * update docs * update input schema * update sbwf * update schemas * add pipeline tests * feat: add correct tests * change access to index bool * prettier to hopefullly fix linting? * fix indentation * add env to local module * fix linting for first version * add nf-test and ignore external configs * wip on nf-test * finalize tests * Template update for nf-core/tools version 3.0.2 * Template update for nf-core/tools version 3.1.0 * Apply suggestions from code review
* Update README.md after transfer * change famosab to qbic-pipelines * update main
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Closing this to do the TEMPLATE update when a proper back to dev PR has been done after the next release. |
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PR checklist
nf-core pipelines lint).nextflow run . -profile test,docker --outdir <OUTDIR>).nextflow run . -profile debug,test,docker --outdir <OUTDIR>).docs/usage.mdis updated.docs/output.mdis updated.CHANGELOG.mdis updated.README.mdis updated (including new tool citations and authors/contributors).