Cleaned up the busco_db parameter

sanger-tol · May 19, 2024 · 489312a · 489312a
1 parent 8a6e928
commit 489312a
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Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/subworkflows/local/busco_diamond_blastp.nf b/subworkflows/local/busco_diamond_blastp.nf
@@ -70,7 +70,7 @@ workflow BUSCO_DIAMOND {
         ch_fasta_with_lineage,
         "genome",
         ch_fasta_with_lineage.map { it[0].lineage_name },
-        busco_db.collect().ifEmpty([]),
+        busco_db,
         [],
     )
     ch_versions = ch_versions.mix ( BUSCO.out.versions.first() )

diff --git a/workflows/blobtoolkit.nf b/workflows/blobtoolkit.nf
@@ -31,7 +31,7 @@ if (params.taxdump) { ch_taxdump = file(params.taxdump) } else { exit 1, 'NCBI T
 if (params.fetchngs_samplesheet && !params.align) { exit 1, '--align not specified, even though the input samplesheet is a nf-core/fetchngs one - i.e has fastq files!' }
 
 // Create channel for optional parameters
-if (params.busco_db) { ch_busco_db = Channel.fromPath(params.busco_db) } else { ch_busco_db = Channel.empty() }
+if (params.busco_db) { ch_busco_db = Channel.fromPath(params.busco_db).first() } else { ch_busco_db = Channel.value([]) }
 if (params.yaml) { ch_yaml = Channel.fromPath(params.yaml) } else { ch_yaml = Channel.empty() }
 if (params.yaml && params.accession) { exit 1, '--yaml cannot be provided at the same time as --accession !' }
 if (!params.yaml && !params.accession) { exit 1, '--yaml and --accession are both mising. Pick one !' }