Adding .collect() to Channel.fromPath(params.fasta) and Channel.fromP…

…ath(params.fasta_fai)
nf-core · Mar 12, 2024 · 62b4ea4 · 62b4ea4
1 parent 1bf5222
commit 62b4ea4
Showing 1 changed file with 2 additions and 2 deletions.
diff --git a/main.nf b/main.nf
@@ -83,8 +83,8 @@ bcftools_annotations    = params.bcftools_annotations    ? Channel.fromPath(para
 bcftools_header_lines   = params.bcftools_header_lines   ? Channel.fromPath(params.bcftools_header_lines).collect() : Channel.empty()
 cf_chrom_len            = params.cf_chrom_len            ? Channel.fromPath(params.cf_chrom_len)                    : []
 dbsnp                   = params.dbsnp                   ? Channel.fromPath(params.dbsnp).collect()                 : Channel.value([])
-fasta                   = params.fasta                   ? Channel.fromPath(params.fasta)                           : Channel.empty()
-fasta_fai               = params.fasta_fai               ? Channel.fromPath(params.fasta_fai)                       : Channel.empty()
+fasta                   = params.fasta                   ? Channel.fromPath(params.fasta).collect()                 : Channel.empty()
+fasta_fai               = params.fasta_fai               ? Channel.fromPath(params.fasta_fai).collect()             : Channel.empty()
 germline_resource       = params.germline_resource       ? Channel.fromPath(params.germline_resource)               : Channel.value([]) // Mutect2 does not require a germline resource, so set to optional input
 known_indels            = params.known_indels            ? Channel.fromPath(params.known_indels).collect()          : Channel.value([])
 known_snps              = params.known_snps              ? Channel.fromPath(params.known_snps).collect()            : Channel.value([])