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using seqwell/smrttools:26.1.0-slim docker image #16

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Merged
YanyanLiuBio merged 1 commit into from
Aug 11, 2026
Merged

using seqwell/smrttools:26.1.0-slim docker image #16

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1 change: 1 addition & 0 deletions .gitignore
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Expand Up @@ -20,5 +20,6 @@ tests/subset.bam
nextflow_schema.json_old
dockers
smrtlink_dockers
slim_smrtlink_dockers
bin/fix_rg_ids.py
bin/fix_rg_ids.sh
2 changes: 1 addition & 1 deletion README.md
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Expand Up @@ -45,7 +45,7 @@ All docker containers used in this pipeline are publicly available.
- *multiqc*: quay.io/biocontainers/multiqc:1.21--pyhdfd78af_0
- *python*: python:3.12-bookworm
- *pandas*: quay.io/biocontainers/pandas:1.5.2
- *smrttools*: seqwell/smrttools:26.1.0 (docker-only; used by `CREATE_XML` to run PacBio SMRT Tools' `dataset create` CLI)
- *smrttools*: seqwell/smrttools:26.1.0-slim (docker-only; used by `CREATE_XML` to run PacBio SMRT Tools' `dataset create` CLI)

## Conda Environment

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2 changes: 1 addition & 1 deletion nextflow.config
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Expand Up @@ -155,7 +155,7 @@ process {
withName: CREATE_XML {
memory = '8.0G'
cpus = 2
container = 'seqwell/smrttools:26.1.0'
container = 'seqwell/smrttools:26.1.0-slim'
}
publishDir = [
path: { "${params.output}/${meta.pool_ID}/xml" },
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