Add ARM support for Bracken

Open pinin4fjords opened this issue 1 year ago • 2 comments

Bracken is currently lacking ARM support in Bioconda/ conda-forge, so will not work here: https://anaconda.org/bioconda/bracken

The fix will be driving for a new Bracken build in those channels with ARM support.

Oct 23 '24 10:10 pinin4fjords

This one done:

bracken bioconda/linux-aarch64::bracken-3.1-h163da20_0

Apr 14 '25 08:04 dslarm

Let's not close this until the Bioconda updates have been ported here.

Apr 14 '25 08:04 pinin4fjords

ARM support for Bracken has been added to the pipeline. The conf/arm.config file now includes an ARM-compatible container for Bracken:

The process uses the ARM-compatible container: community.wave.seqera.io/library/bracken:3.1--0b6ab6dde7667f60

Users can now run the pipeline with Bracken on ARM architecture using:

nextflow run nf-core/rnaseq -profile <docker/singularity>,arm <OTHER_PARAMETERS>

Closing this issue as resolved.

Nov 14 '25 12:11 pinin4fjords