Fixing the error :)

nf-core · Jan 17, 2024 · 84da917 · 84da917
1 parent 8d19dbf
commit 84da917
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Showing 2 changed files with 2 additions and 3 deletions.
diff --git a/subworkflows/local/umi_dedup.nf b/subworkflows/local/umi_dedup.nf
@@ -24,11 +24,10 @@ workflow DEDUPLICATE_UMIS {
 
     if (!bt_index){
         INDEX_GENOME ( [ [:], fasta ] )
-        bt_index      = INDEX_GENOME.out.bowtie_indices
+        bt_index      = INDEX_GENOME.out.index
         fasta_formatted = INDEX_GENOME.out.fasta
         ch_versions     = ch_versions.mix(INDEX_GENOME.out.versions)
     } else {
-        bt_index     = Channel.fromPath("${bt_index}**ebwt", checkIfExists: true).ifEmpty { exit 1, "Bowtie1 index directory not found: ${bt_index}" }
         fasta_formatted = fasta
     }
 

diff --git a/workflows/smrnaseq.nf b/workflows/smrnaseq.nf
@@ -166,7 +166,7 @@ workflow SMRNASEQ {
 
             DEDUPLICATE_UMIS (
                 fasta_ch,
-                INDEX_GENOME.out.bowtie_indices,
+                INDEX_GENOME.out.index,
                 FASTQ_FASTQC_UMITOOLS_FASTP.out.reads,
                 params.umi_stats
             )