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Fixed PLOTSR tokenize bug #103

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Jul 19, 2024
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3 changes: 2 additions & 1 deletion CHANGELOG.md
Original file line number Diff line number Diff line change
@@ -16,7 +16,8 @@ and this project adheres to [Semantic Versioning](https://semver.org/spec/v2.0.0
2. Fixed a bug where 'Subsequent pipeline modules are skipped.' was printed in the `report.html` even when `contamination_stops_pipeline` was set to false
3. Updated NCBI FCS GX to 0.5.4 [#93](https://github.com/Plant-Food-Research-Open/assemblyqc/issues/93)
4. Now NCBI FCS GX module uses all the cores available from the Nextflow task
5. Changed default branch name from `master` to `main` in nf-core template files
5. Fixed a bug which caused `PLOTSR` to fail for certain assembly names [#102](https://github.com/Plant-Food-Research-Open/assemblyqc/issues/102)
6. Changed default branch name from `master` to `main` in nf-core template files

### `Dependencies`

2 changes: 1 addition & 1 deletion subworkflows/local/fasta_synteny.nf
Original file line number Diff line number Diff line change
@@ -342,7 +342,7 @@ workflow FASTA_SYNTENY {
| groupTuple
| map { meta, syri, fastas ->
def fasta_list = fastas.flatten()
def syri_tags = syri.collect { it.name.replace('syri.out', '').tokenize('.on.') }.flatten().unique()
def syri_tags = syri.collect { it.name.replace('syri.out', '').split(/\.on\./).toList() }.flatten().unique()
def proposed_order = plotsr_assembly_order ? plotsr_assembly_order.tokenize(' ') : syri_tags.sort(false)

def available_tags = []