millironx/taxprofiler
1
0
Fork 0
mirror of https://github.com/MillironX/taxprofiler.git synced 2024-11-13 07:13:10 +00:00
Code Issues Releases Packages Activity

Re-add the collects

Browse source
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
Show stats Download patch file Download diff file Expand all files Collapse all files

2
subworkflows/local/longread_preprocessing.nf
View file

@ -47,7 +47,7 @@ workflow LONGREAD_PREPROCESSING {
ch_versions = ch_versions.mix(PORECHOP.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
View file

@ -227,13 +227,13 @@ workflow PROFILING {
MOTUS_PROFILE ( ch_input_for_motus.reads, ch_input_for_motus.db )
ch_versions = ch_versions.mix( MOTUS_PROFILE.out.versions.first() )
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:
classifications = ch_raw_classifications
profiles = ch_raw_profiles // channel: [ val(meta), [ reads ] ] - should be text files or biom
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
}