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Fix crash, add missing versions

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This commit is contained in:
James Fellows Yates 2022-04-23 08:36:01 +02:00
parent cda1274918
commit 06b38f3699
3 changed files with 4 additions and 5 deletions
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2
subworkflows/local/db_check.nf
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@ -34,7 +34,7 @@ workflow DB_CHECK {
emit: emit:
dbs = ch_final_dbs // channel: [ val(meta), [ db ] ] dbs = ch_final_dbs // channel: [ val(meta), [ db ] ]
versions = DATABASE_CHECK.out.versions // channel: [ versions.yml ] versions = DATABASE_CHECK.out.versions.mix(UNTAR.out.versions.first()) // channel: [ versions.yml ]
} }
def create_db_channels(LinkedHashMap row) { def create_db_channels(LinkedHashMap row) {

2
subworkflows/local/profiling.nf
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@ -129,7 +129,7 @@ workflow PROFILING {
MEGAN_RMA2INFO (ch_maltrun_for_megan, params.malt_generatemegansummary ) MEGAN_RMA2INFO (ch_maltrun_for_megan, params.malt_generatemegansummary )
ch_multiqc_files = ch_multiqc_files.mix( MALT_RUN.out.log.collect{it[1]}.ifEmpty([]) ) ch_multiqc_files = ch_multiqc_files.mix( MALT_RUN.out.log.collect{it[1]}.ifEmpty([]) )
ch_versions = ch_versions.mix( MALT_RUN.out.versions.first() ) ch_versions = ch_versions.mix( MALT_RUN.out.versions.first(), MEGAN_RMA2INFO.out.versions.first() )
ch_raw_profiles = ch_raw_profiles.mix( MEGAN_RMA2INFO.out.txt ) ch_raw_profiles = ch_raw_profiles.mix( MEGAN_RMA2INFO.out.txt )
} }

5
workflows/taxprofiler.nf
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@ -196,10 +196,8 @@ workflow TAXPROFILER {
MODULE: MultiQC MODULE: MultiQC
*/ */
ch_versions = ch_versions.mix(MULTIQC.out.versions)
CUSTOM_DUMPSOFTWAREVERSIONS ( CUSTOM_DUMPSOFTWAREVERSIONS (
ch_versions.dump(tag: "software_versions_beforeuniqe").unique().dump(tag: "software_versions").collectFile(name: 'collated_versions.yml') ch_versions.unique().collectFile(name: 'collated_versions.yml')
) )
@ -236,6 +234,7 @@ workflow TAXPROFILER {
ch_multiqc_files.collect() ch_multiqc_files.collect()
) )
multiqc_report = MULTIQC.out.report.toList() multiqc_report = MULTIQC.out.report.toList()
ch_versions = ch_versions.mix(MULTIQC.out.versions)
} }
/* /*