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Code Issues Releases Packages Activity

Re-add the collects

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This commit is contained in:
James Fellows Yates 2022-07-19 17:10:10 +02:00
parent 8d7ddb5847
commit 255afee4c7
2 changed files with 3 additions and 3 deletions
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2
subworkflows/local/longread_preprocessing.nf
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@ -47,7 +47,7 @@ workflow LONGREAD_PREPROCESSING {
ch_versions = ch_versions.mix(PORECHOP.out.versions.first()) ch_versions = ch_versions.mix(PORECHOP.out.versions.first())
ch_versions = ch_versions.mix(FILTLONG.out.versions.first()) ch_versions = ch_versions.mix(FILTLONG.out.versions.first())
ch_multiqc_files = ch_multiqc_files.mix( PORECHOP.out.log ) ch_multiqc_files = ch_multiqc_files.mix( PORECHOP.out.log.collect{it[1]}.ifEmpty([]) )
} }

4
subworkflows/local/profiling.nf
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@ -227,13 +227,13 @@ workflow PROFILING {
MOTUS_PROFILE ( ch_input_for_motus.reads, ch_input_for_motus.db ) MOTUS_PROFILE ( ch_input_for_motus.reads, ch_input_for_motus.db )
ch_versions = ch_versions.mix( MOTUS_PROFILE.out.versions.first() ) ch_versions = ch_versions.mix( MOTUS_PROFILE.out.versions.first() )
ch_raw_profiles = ch_raw_profiles.mix( MOTUS_PROFILE.out.out ) ch_raw_profiles = ch_raw_profiles.mix( MOTUS_PROFILE.out.out )
ch_multiqc_files = ch_multiqc_files.mix( MOTUS_PROFILE.out.log ) ch_multiqc_files = ch_multiqc_files.mix( MOTUS_PROFILE.out.log.collect{it[1]}.ifEmpty([]) )
} }
emit: emit:
classifications = ch_raw_classifications classifications = ch_raw_classifications
profiles = ch_raw_profiles // channel: [ val(meta), [ reads ] ] - should be text files or biom profiles = ch_raw_profiles // channel: [ val(meta), [ reads ] ] - should be text files or biom
versions = ch_versions // channel: [ versions.yml ] versions = ch_versions // channel: [ versions.yml ]
motus_version = params.run_motus ? MOTUS_PROFILE.out.versions.first() : Channel.empty() motus_version = params.run_motus ? MOTUS_PROFILE.out.versions.first() : Channel.empty()
mqc = ch_multiqc_files mqc = ch_multiqc_files
} }