diff --git a/workflow/conf/multiqc_config.yaml b/workflow/conf/multiqc_config.yaml index 99a861cfcbcec497a3818aabb67c2e8d83923c19..5d57d0959e27bb34e7e3631e09dc062946f1635a 100644 --- a/workflow/conf/multiqc_config.yaml +++ b/workflow/conf/multiqc_config.yaml @@ -64,9 +64,9 @@ custom_data: pconfig: id: 'rid' headers: - Replicate RID - Experiment RID - Study RID + 'Replicate RID:' + 'Experiment RID:' + 'Study RID:' meta: file_format: 'tsv' section_name: 'Metadata' @@ -75,15 +75,15 @@ custom_data: pconfig: id: 'meta' headers: - Source - Species - Ends - Stranded - Spike-in - Raw Reads - Assigned Reads - Median Read Length - Median TIN + 'Source:' + 'Species:' + 'Ends:' + 'Stranded:' + 'Spike-in:' + 'Raw Reads:' + 'Assigned Reads:' + 'Median Read Length:' + 'Median TIN:' file_format: 'tsv' section_name: 'TIN' diff --git a/workflow/rna-seq.nf b/workflow/rna-seq.nf index 7621289a040cb71be5f22134527e477c6849210e..f73e4ca57d6bf254590a4fe4f75ad0097ff04819 100644 --- a/workflow/rna-seq.nf +++ b/workflow/rna-seq.nf @@ -1024,15 +1024,15 @@ process aggrQC { # make RID table echo -e "LOG: creating RID table" >> ${repRID}.aggrQC.log - echo -e "Replicate RID\tExperiment RID\tStudy RID" > rid.tsv + echo -e "Replicate RID:\tExperiment RID:\tStudy RID:" > rid.tsv echo -e "${repRID}\t${expRID}\t${studyRID}" >> rid.tsv # make metadata table echo -e "LOG: creating metadata table" >> ${repRID}.aggrQC.log - echo -e "Source\tSpecies\tEnds\tStranded\tSpike-in\tRaw Reads\tAssigned Reads\tMedian Read Length\tMedian TIN" > metadata.tsv - echo -e "Submitter\t${speciesM}\t${endsM}\t${strandedM}\t${spikeM}\t-\t-\t${readLengthM}\t-" >> metadata.tsv + echo -e "Source\tSpecies:\tEnds:\tStranded:\tSpike-in:\tRaw Reads:\tAssigned Reads:\tMedian Read Length:\tMedian TIN:" > metadata.tsv + echo -e "Submitter\t${speciesM}\t${endsM}\t${strandedM}\t${spikeM}\t-\t-\t'${readLengthM}'\t-" >> metadata.tsv echo -e "Infered\t${speciesI}\t${endsI}\t${strandedI}\t${spikeI}\t-\t-\t-\t-" >> metadata.tsv - echo -e "Measured\t-\t${endsManual}\t-\t-\t${rawReadsI}\t${assignedReadsI}\t${readLengthI}\t${tinMedI}" >> metadata.tsv + echo -e "Measured\t-\t${endsManual}\t-\t-\t'${rawReadsI}'\t'${assignedReadsI}'\t'${readLengthI}'\t'${tinMedI}'" >> metadata.tsv # remove inner distance report if it is empty (SE repRID) echo -e "LOG: removing dummy inner distance file" >> ${repRID}.aggrQC.log