Address second review round: comment trim, test style, -stage orderin…

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Graphite / mergeability_check

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nf-core-changes

nf-core lint modules (bbmap/bbnorm)

nf-core lint modules (bioformats2raw)

nf-core lint modules (dastool/scaffolds2bin)

nf-core lint modules (deepvariant)

nf-core lint modules (fastqdl)

nf-core lint modules (hmmer/formattsv)

nf-core lint modules (hmmer/hmmrank)

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nf-core lint modules (krona/kronadb)

nf-core lint modules (lissero)

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nf-core lint modules (modkit/extractfull)

nf-core lint modules (msisensor/msi)

nf-core lint modules (msisensor/scan)

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nf-core lint modules (nucleoatac/run)

nf-core lint modules (openms/featurefinderidentification)

nf-core lint modules (openms/mapaligneridentification)

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nf-core lint modules (openms/mztabexporter)

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nf-core lint modules (svdb/build)

nf-core lint modules (svdb/merge)

nf-core lint modules (svdb/query)

nf-core lint modules (telomerehunter2)

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nf-core lint modules (trimal)

nf-core lint modules (trimgalore)

nf-core lint subworkflows (bam_applybqsr)

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nf-core lint subworkflows (bcl_demultiplex)

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nf-core lint subworkflows (snpclustering)

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