Remove .view() (#9567)

Author: LouisLeNezet

modules/nf-core/genmap/map/tests/main.nf.test

@@ -33,7 +33,7 @@ nextflow_process {
             }
             process {
                 """
-                input[0] = GENMAP_INDEX.out.index.view()
+                input[0] = GENMAP_INDEX.out.index
                 input[1] = [
                     [id:"bed"],
                     file(params.modules_testdata_base_path + 'genomics/sarscov2/genome/bed/test.bed', checkIfExists:true)

modules/nf-core/glimpse2/concordance/tests/main.nf.test

@@ -80,7 +80,6 @@ nextflow_process {
                         .combine( allele_freq )
                         .combine( Channel.of([[]]) )
                         .combine( Channel.of([["chr22", "chr22"]]) )
-                        .view()
 
                 input[0] = list_inputs
                 input[1] = Channel.of([[id:"params"], [],"0 0.01 0.05 0.1 0.2 0.5", [], [], [], []])

subworkflows/nf-core/bam_vcf_impute_glimpse2/main.nf

@@ -103,13 +103,13 @@ workflow BAM_VCF_IMPUTE_GLIMPSE2 {
     ch_versions = ch_versions.mix(GLIMPSE2_PHASE.out.versions.first())
 
     // Index phased file
-    BCFTOOLS_INDEX_PHASE(GLIMPSE2_PHASE.out.phased_variants.view())
+    BCFTOOLS_INDEX_PHASE(GLIMPSE2_PHASE.out.phased_variants)
     ch_versions = ch_versions.mix(BCFTOOLS_INDEX_PHASE.out.versions.first())
 
     // Ligate all phased files in one and index it
     ligate_input = GLIMPSE2_PHASE.out.phased_variants
         .join(
-            BCFTOOLS_INDEX_PHASE.out.tbi.mix(BCFTOOLS_INDEX_PHASE.out.csi).view(),
+            BCFTOOLS_INDEX_PHASE.out.tbi.mix(BCFTOOLS_INDEX_PHASE.out.csi),
             failOnMismatch: true,
             failOnDuplicate: true,
         )