Template update to v3

sanger-tol · Feb 7, 2025 · a27fed3 · a27fed3
1 parent 37a26e4
commit a27fed3
Showing 1 changed file with 20 additions and 20 deletions.
diff --git a/subworkflows/local/utils_nfcore_ear_pipeline/main.nf b/subworkflows/local/utils_nfcore_ear_pipeline/main.nf
@@ -67,28 +67,28 @@ workflow PIPELINE_INITIALISATION {
     // Create channel from input file provided through params.input
     //
 
-    Channel
-        .fromList(samplesheetToList(params.input, "${projectDir}/assets/schema_input.json"))
-        .map {
-            meta, fastq_1, fastq_2 ->
-                if (!fastq_2) {
-                    return [ meta.id, meta + [ single_end:true ], [ fastq_1 ] ]
-                } else {
-                    return [ meta.id, meta + [ single_end:false ], [ fastq_1, fastq_2 ] ]
-                }
-        }
-        .groupTuple()
-        .map { samplesheet ->
-            validateInputSamplesheet(samplesheet)
-        }
-        .map {
-            meta, fastqs ->
-                return [ meta, fastqs.flatten() ]
-        }
-        .set { ch_samplesheet }
+    // Channel
+    //     .fromList(samplesheetToList(params.input, "${projectDir}/assets/schema_input.json"))
+    //     .map {
+    //         meta, fastq_1, fastq_2 ->
+    //             if (!fastq_2) {
+    //                 return [ meta.id, meta + [ single_end:true ], [ fastq_1 ] ]
+    //             } else {
+    //                 return [ meta.id, meta + [ single_end:false ], [ fastq_1, fastq_2 ] ]
+    //             }
+    //     }
+    //     .groupTuple()
+    //     .map { samplesheet ->
+    //         validateInputSamplesheet(samplesheet)
+    //     }
+    //     .map {
+    //         meta, fastqs ->
+    //             return [ meta, fastqs.flatten() ]
+    //     }
+    //     .set { ch_samplesheet }
 
     emit:
-    samplesheet = ch_samplesheet
+    samplesheet = params.input
     versions    = ch_versions
 }