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Co-authored-by: James A. Fellows Yates <[email protected]>
scarlhoff · May 10, 2024 · 3721e1e · 3721e1e
1 parent 8a73d3b
commit 3721e1e
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Showing 2 changed files with 3 additions and 3 deletions.
diff --git a/nextflow.config b/nextflow.config
@@ -14,7 +14,7 @@ params {
     input                      = null
 
     // Input BAM conversion
-    convert_inputbam  = false
+    convert_inputbam           = false
 
     // References
     genome                     = null

diff --git a/workflows/eager.nf b/workflows/eager.nf
@@ -123,7 +123,7 @@ workflow EAGER {
                 ! meta.single_end
             }
 
-        // Merge the R1 and other reads for single-end BAMs
+        // Put all the converted FASTQs back together again
         CAT_FASTQ_CONVERTED_BAM( ch_single_end_reads )
         ch_fastqs_from_converted_bams = CAT_FASTQ_CONVERTED_BAM.out.reads
             .mix(ch_paired_end_reads)
@@ -190,7 +190,7 @@ workflow EAGER {
     ch_multiqc_files  = ch_multiqc_files.mix( MAP.out.mqc.collect{it[1]}.ifEmpty([]) )
 
     //
-    //  MODULE: indexing of user supplied input BAMs
+    //  MODULE: indexing of user supplied unconverted input BAMs
     //
 
     if ( !params.convert_inputbam ){