Add more extraction for sarek related test files #76
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| def meta_extra = [decompress_ascat_alleles: meta.ascat_alleles.endsWith('.zip') ?: false] | ||
| return [reduce(meta) + meta_extra, meta.ascat_alleles] |
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Can you indent this? It's hard to read which are the branch names
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| ascat_alleles = ascat_alleles.map { meta, ascat_alleles_ -> meta.decompress_ascat_alleles ? [meta, ascat_alleles_] : null } | ||
| ascat_loci = ascat_loci.map { meta, ascat_loci_ -> meta.decompress_ascat_loci ? [meta, ascat_loci_] : null } | ||
| ascat_loci_gc = ascat_loci_gc.map { meta, ascat_loci_gc_ -> meta.decompress_ascat_loci_gc ? [meta, ascat_loci_gc_] : null } | ||
| ascat_loci_rt = ascat_loci_rt.map { meta, ascat_loci_rt_ -> meta.decompress_ascat_loci_rt ? [meta, ascat_loci_rt_] : null } | ||
| chr_dir = chr_dir.map { meta, chr_dir_ -> meta.decompress_chr_dir ? [meta, chr_dir_] : null } | ||
| fasta = fasta.map { meta, fasta_ -> meta.decompress_fasta ? [meta, fasta_] : null } | ||
| gff = gff.map { meta, gff_ -> meta.decompress_gff ? [meta, gff_] : null } | ||
| gtf = gtf.map { meta, gtf_ -> meta.decompress_gtf ? [meta, gtf_] : null } |
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language server is not happy with Hathil align
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| ascat_alleles = UNZIP_ALLELES.out.unzipped_archive | ||
| ascat_loci = UNZIP_LOCI.out.unzipped_archive | ||
| ascat_loci_gc = UNZIP_GC.out.unzipped_archive | ||
| ascat_loci_rt = UNZIP_RT.out.unzipped_archive | ||
| chr_dir = UNTAR_CHR_DIR.out.untar | ||
| fasta = GUNZIP_FASTA.out.gunzip | ||
| gff = GUNZIP_GFF.out.gunzip | ||
| gtf = GUNZIP_GTF.out.gunzip |
FriederikeHanssen
approved these changes
Jan 9, 2025
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PR checklist
nf-core pipelines lint).nextflow run . -profile test,docker --outdir <OUTDIR>).nextflow run . -profile debug,test,docker --outdir <OUTDIR>).docs/usage.mdis updated.docs/output.mdis updated.CHANGELOG.mdis updated.README.mdis updated (including new tool citations and authors/contributors).