diff --git a/workflow/conf/multiqc_config.yaml b/workflow/conf/multiqc_config.yaml index 5d57d0959e27bb34e7e3631e09dc062946f1635a..9cf4a9a6047ba641d618f5806a771c60e8209177 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-Length + Median-TIN file_format: 'tsv' section_name: 'TIN' diff --git a/workflow/rna-seq.nf b/workflow/rna-seq.nf index f73e4ca57d6bf254590a4fe4f75ad0097ff04819..f0a63c61c22b904284e6f07edf5d5d8a976bafc6 100644 --- a/workflow/rna-seq.nf +++ b/workflow/rna-seq.nf @@ -1024,12 +1024,12 @@ 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" >> ${repRID}.aggrQC.log - echo -e "Source\tSpecies:\tEnds:\tStranded:\tSpike-in:\tRaw Reads:\tAssigned Reads:\tMedian Read Length:\tMedian TIN:" > metadata.tsv + echo -e "Source\tSpecies\tEnds\tStranded\tSpike-in\tRaw-Reads\tAssigned-Read:\tMedia-Length\tMedian-TIN" > metadata.tsv echo -e "Submitter\t${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