From 57c42f3a3eb51cfe2f37623f6152acb992612748 Mon Sep 17 00:00:00 2001 From: mhkc Date: Fri, 23 Aug 2024 15:54:16 +0200 Subject: [PATCH] Use output of add_locus_igv_track as pipeline output --- workflows/mycobacterium_tuberculosis.nf | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/workflows/mycobacterium_tuberculosis.nf b/workflows/mycobacterium_tuberculosis.nf index 93bdb912..03e80735 100644 --- a/workflows/mycobacterium_tuberculosis.nf +++ b/workflows/mycobacterium_tuberculosis.nf @@ -99,7 +99,7 @@ workflow CALL_MYCOBACTERIUM_TUBERCULOSIS { add_locus_igv_track(create_analysis_result.out.json, params.tbdbBed, params.resistantLociName) // Create yaml for uploading results to Bonsai - create_yaml(create_analysis_result.out.json.join(ch_sourmash), params.speciesDir) + create_yaml(add_locus_igv_track.out.json.join(ch_sourmash), params.speciesDir) ch_quast .join(ch_qc) @@ -119,7 +119,7 @@ workflow CALL_MYCOBACTERIUM_TUBERCULOSIS { ch_versions = ch_versions.mix(tbprofiler_mergedb.out.versions) emit: - pipeline_result = create_analysis_result.out.json + pipeline_result = add_locus_igv_track.out.json cdm = export_to_cdm.out.cdm cron_yaml = copy_to_cron.out.yaml cron_cdm = copy_to_cron.out.cdm