fix erroneous addition of meta

nf-core · Dec 20, 2024 · 8776835 · 8776835
1 parent 509a792
commit 8776835
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Showing 3 changed files with 432 additions and 19 deletions.
diff --git a/subworkflows/local/arriba_workflow/main.nf b/subworkflows/local/arriba_workflow/main.nf
@@ -52,10 +52,10 @@ workflow ARRIBA_WORKFLOW {
                     STAR_FOR_ARRIBA.out.bam,
                     ch_fasta,
                     ch_gtf,
-                    ch_arriba_ref_blacklist.map{ it[1] },
-                    ch_arriba_ref_known_fusions.map{ it[1] },
-                    ch_arriba_ref_cytobands.map{ it[1] },
-                    ch_arriba_ref_protein_domains.map{ it[1] }
+                    ch_arriba_ref_blacklist,
+                    ch_arriba_ref_known_fusions,
+                    ch_arriba_ref_cytobands,
+                    ch_arriba_ref_protein_domains
                 )
 
                 ch_versions = ch_versions.mix(ARRIBA_ARRIBA.out.versions)

diff --git a/subworkflows/local/build_references.nf b/subworkflows/local/build_references.nf
@@ -118,14 +118,10 @@ workflow BUILD_REFERENCES {
         ch_arriba_ref_known_fusions = ARRIBA_DOWNLOAD.out.known_fusions
         ch_arriba_ref_protein_domains = ARRIBA_DOWNLOAD.out.protein_domains
     } else {
-        ch_arriba_ref_blacklist = Channel.fromPath(params.arriba_ref_blacklist).map { file ->
-        [ id: file.baseName, path: file ]}
-        ch_arriba_ref_cytobands = Channel.fromPath(params.arriba_ref_cytobands).map { file ->
-        [ id: file.baseName, path: file ]}
-        ch_arriba_ref_known_fusions = Channel.fromPath(params.arriba_ref_known_fusions).map { file ->
-        [ id: file.baseName, path: file ]}
-        ch_arriba_ref_protein_domains = Channel.fromPath(params.arriba_ref_protein_domains).map { file ->
-        [ id: file.baseName, path: file ]}
+        ch_arriba_ref_blacklist = Channel.fromPath(params.arriba_ref_blacklist)
+        ch_arriba_ref_cytobands = Channel.fromPath(params.arriba_ref_cytobands)
+        ch_arriba_ref_known_fusions = Channel.fromPath(params.arriba_ref_known_fusions)
+        ch_arriba_ref_protein_domains = Channel.fromPath(params.arriba_ref_protein_domains)
     }