igenomes does not currently work - Githubissues

nf-core / fastquorum

Pipeline to produce consensus reads using unique molecular indexes/barcodes (UMIs)

https://nf-co.re/fastquorum

MIT License

20 stars 9 forks source link

igenomes does not currently work #64

Closed SPPearce closed 3 months ago

SPPearce commented 3 months ago

Description of the bug

Currently the pipeline suggests that igenomes should work via the genome option, but it doesn't in practice.

It seems that we have hit this bug related to the template update, before it was noticed in general and fixed.

I'm working on a fix.

Command used and terminal output

nextflow run main.nf \
--input https://raw.githubusercontent.com/nf-core/test-datasets/fastquorum/testdata/samplesheets/samplesheet.tiny.csv \
--genome GRCh38 \
--outdir test \
-profile docker

Relevant files

No response

System information

Version 1.0.0 or dev, launched from gitpod.

SPPearce commented 3 months ago

Completed in #67