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nf-core / sarek

Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
https://nf-co.re/sarek
MIT License
384 stars 400 forks source link

add nf-boost #1450

Open maxulysse opened 5 months ago

maxulysse commented 5 months ago

Description of feature

Add nf-boost to improve the codebase, especially when dealing with the csv creation (exec operator)

robsyme commented 5 months ago

Don't forget to pin the nf-boost version, as this is likely going to change very quickly.

bentsherman commented 5 months ago

For the exec operator, I would wait until the input/output file tracking is improved. Right now if you use it, it will work, but things like provenance tracking and automatic cleanup won't pick up the output files. It needs to be fixed in Nextflow