Dorado subwf chopper module integration#314
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slam2049 wants to merge 117 commits intonf-core:masterfrom
Closed
Dorado subwf chopper module integration#314slam2049 wants to merge 117 commits intonf-core:masterfrom
slam2049 wants to merge 117 commits intonf-core:masterfrom
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bambu version
…h existing nf-core modules
Update 3_1 dev meta
With the updated biocontainer for m6anet being built, can update the singularity and docker container with the latest version. This version changed how m6anet is called. It has `m6anet` and the analysis as a parameter (`inference`, `dataprep`) instead of `m6anet-run_inference` and `m6anet-dataprep` commands. There are now two files for output from `m6anet inference`, but the existing output of '*' captures those. In the future, might be nice to specify these individually and emit them as separate outputs for downstream analysis.
I updated the samplesheet to output the filename that was attempted to be used when looking for the fastq file. When running the pipeline with multiple samples, I was unable to determine which sample was causing the samplesheet error until I added this code.
…ewSE Updated m6anet to 2.0.2
…ewSE_samplesheet Samplesheet error message updated with more useful information if fastq can't be found.
Fix CHANGELOG
fixing nf-core lint errors
Add draft dorado demultiplexing module
Dorado aligner module
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PR checklist
nf-core lint).nextflow run . -profile 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).