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[skip ci] Dev -> Master for 3.15.0 #1258
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drpatelh
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Mar 12, 2024
- Adds nf-test to all components of pipeline
Add all nf-core modules and CI/CD and all nf-tests to everything
Co-authored-by: Jonathan Manning <pininforthefjords@gmail.com>
Update sortmerna usage
Adding tests for star_align igenomes
Switch to genomecov from nf-core
Changes: - Change function name from validateInputSamplesheet to checkSamplesAreConsistent to accurately reflect what the function is doing - Add nf-tests for all functions in UTILS_NFCORE_RNASEQ_PIPELINE
Changes: - Makes nextflow_schema.json a parameter so we can actually set it. Not exposed right now but will be. - Adds basic tests that check for correct running only. Defaults to lots of stuff off. We should extend this to check for more things but we're in a rush right now.
Fix CHANGELOG error
…t_test_snapshot Increase contents of default.main.nf.test.snap
…sets from the config.
…ion for the local STAR alignment subworkflow.
…ion for the FastQC-UMItools-Trimgalore subworkflow..
Co-authored-by: Jonathan Manning <jonathan.manning@seqera.io>
Improved ext.args consolidation for STAR and TRIMGALORE
adamrtalbot
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Apr 18, 2024
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We can possibly replace this with https://github.com/adamrtalbot/detect-nf-test-changes/ but it's very early days!
Fix genomeAttribute usage
fix(subworkflow): update utils_nfcore_pipeline
Important! Template update for nf-core/tools v2.14.1
Add missing files from Tximport processing
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