diff --git a/subworkflows/local/odgi_qc.nf b/subworkflows/local/odgi_qc.nf index 8b7a8b8..967f511 100644 --- 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 index df87b3c..2d61542 100644 --- 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]})