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fix modules bwa_index and bowtie2_build after module update #76

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merged 2 commits into from
Aug 22, 2023
Merged

fix modules bwa_index and bowtie2_build after module update #76

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fafdc82
fix modules bwa_index and bowtie2_build after module update
mirpedrol Aug 22, 2023
a5553e5
update changelog
mirpedrol Aug 22, 2023
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1 change: 1 addition & 0 deletions CHANGELOG.md
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Expand Up @@ -16,6 +16,7 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
- Summary processes don't modify the input file anymore, allowing resuming these processes ([#66](https://github.com/nf-core/crisprseq/pull/66))
- Do not stash unexistent files, use empty lists instead. Fixes AWS tests ([#67](https://github.com/nf-core/crisprseq/pull/67))
- Rename process `merging_summary` to `preprocessing_summary` to improve clarity ([#69](https://github.com/nf-core/crisprseq/pull/69))
- Fix modules `BWA_INDEX` and `BOWTIE2_BUILD` after module update, new versions accept a meta map ([#76](https://github.com/nf-core/crisprseq/pull/76))

### Deprecated

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4 changes: 2 additions & 2 deletions workflows/crisprseq_targeted.nf
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Expand Up @@ -621,7 +621,7 @@ workflow CRISPRSEQ_TARGETED {
//
if (params.aligner == "bwa") {
BWA_INDEX (
ORIENT_REFERENCE.out.reference.map { it[1] }
ORIENT_REFERENCE.out.reference
)
ch_versions = ch_versions.mix(BWA_INDEX.out.versions)
BWA_MEM (
Expand All @@ -638,7 +638,7 @@ workflow CRISPRSEQ_TARGETED {
//
if (params.aligner == "bowtie2") {
BOWTIE2_BUILD (
ORIENT_REFERENCE.out.reference.map { it[1] }
ORIENT_REFERENCE.out.reference
)
ch_versions = ch_versions.mix(BOWTIE2_BUILD.out.versions)
BOWTIE2_ALIGN (
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