Merge pull request #149 from nf-core/fix/multiqc

another MultiQC fix
nf-core · Aug 23, 2023 · b2cd62d · b2cd62d
2 parents c06ddc5 + 9eafdf3
commit b2cd62d
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Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/subworkflows/local/odgi_qc.nf b/subworkflows/local/odgi_qc.nf
@@ -63,7 +63,7 @@ workflow ODGI_QC {
         ch_graph_qc = ch_graph_qc.join(ODGI_VIZ_UNCALLED.out.png.map{meta, png -> [ [ id: meta.id.replaceFirst(".gfaffix.*", "") ], png ]})
         ch_graph_qc = ch_graph_qc.join(ODGI_DRAW_MULTIQC.out.png.map{meta, png -> [ [ id: meta.id.replaceFirst(".gfaffix.*", "") ], png ]})
     } else {
-        ch_graph_qc = ODGI_STATS.out.yaml.map{meta, yaml -> [ [ id: meta.id.replaceFirst(".seqwish", ".gfaffix") ], yaml ]}.groupTuple(by:0, size:2).map{meta, yamls -> [ meta, yamls[0], yamls[1] ]}
+        ch_graph_qc = ODGI_STATS.out.yaml
         ch_graph_qc = ch_graph_qc.join(ODGI_VIZ_COLOR.out.png.map{meta, png -> [ [ id: meta.id.replaceFirst(".viz", "") ], png ]})
         ch_graph_qc = ch_graph_qc.join(ODGI_VIZ_POS.out.png.map{meta, png -> [ [ id: meta.id.replaceFirst(".viz_pos", "") ], png ]})
         ch_graph_qc = ch_graph_qc.join(ODGI_VIZ_DEPTH.out.png.map{meta, png -> [ [ id: meta.id.replaceFirst(".viz_depth", "") ], png ]})

diff --git a/workflows/pangenome.nf b/workflows/pangenome.nf
@@ -159,7 +159,7 @@ workflow PANGENOME {
     ch_multiqc_files = ch_multiqc_files.mix(CUSTOM_DUMPSOFTWAREVERSIONS.out.mqc_yml.collect())
     if (!params.communities) {
         if (!params.wfmash_only) {
-            ch_multiqc_files = ch_multiqc_files.mix(PGGB.out.qc.map{return it[1..9]})
+            ch_multiqc_files = ch_multiqc_files.mix(PGGB.out.qc.map{return it[1..8]})
         }
     } else {
         ch_multiqc_files = ch_multiqc_files.mix(ODGI_QC.out.qc.map{return it[1..8]})