diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml index e44fd254..95ed14f5 100644 --- a/.github/workflows/ci.yml +++ b/.github/workflows/ci.yml @@ -103,7 +103,7 @@ jobs: mkdir -p $NXF_SINGULARITY_LIBRARYDIR - name: Cache pdiff - uses: actions/cache@0c45773b623bea8c8e75f6c82b208c3cf94ea4f9 # v4 + uses: actions/cache@v4 # v4 id: cache-pip-pdiff with: path: ~/.cache/pip diff --git a/CHANGELOG.md b/CHANGELOG.md index 4a249ff4..526724e4 100644 --- a/CHANGELOG.md +++ b/CHANGELOG.md @@ -10,6 +10,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0 ### `Changed` - [#103](https://github.com/nf-core/riboseq/pull/103) - Updated the JSON schema to make input validation stricter([@andreirie](https://github.com/andreirie)) +- [#104](https://github.com/nf-core/riboseq/pull/104) - Updated SortMeRNA params to lower memory usage by not looking for best alignment [@jackcurragh](https://github.com/jackcurragh) ### `Fixed` diff --git a/conf/modules.config b/conf/modules.config index 1b7fb16a..8de9301f 100644 --- a/conf/modules.config +++ b/conf/modules.config @@ -357,7 +357,7 @@ if (!params.skip_bbsplit) { if (params.remove_ribo_rna) { process { withName: '.*:FASTQ_QC_TRIM_FILTER_SETSTRANDEDNESS:SORTMERNA' { - ext.args = '--num_alignments 1 -v --index 0' + ext.args = '--no-best -v --index 0' publishDir = [ [ path: { "${params.outdir}/preprocessing/sortmerna" },