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Use IDs before consensusID for pmultiqc #187

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Use IDs before consensusID for pmultiqc #187

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1c414bb
Use IDs before consensusID for pmultiqc
jpfeuffer Mar 28, 2022
d89c726
Update main.nf
jpfeuffer Mar 28, 2022
c6436da
debug
jpfeuffer Mar 29, 2022
abe0388
Update main.nf
jpfeuffer Mar 29, 2022
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10 changes: 5 additions & 5 deletions main.nf
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Original file line number Diff line number Diff line change
Expand Up @@ -775,7 +775,7 @@ process percolator {
tuple mzml_id, file(id_file) from id_files_idx_feat

output:
tuple mzml_id, file("${id_file.baseName}_perc.idXML"), val("MS:1001491") into (id_files_perc, id_files_perc_consID)
tuple mzml_id, file("${id_file.baseName}_perc.idXML"), val("MS:1001491") into (id_files_perc, id_files_perc_consID, id_files_perc_multiqc)
file "*.log"

when:
Expand Down Expand Up @@ -854,7 +854,7 @@ process idpep {
tuple mzml_id, file(id_file) from id_files_idx_ForIDPEP_FDR.mix(id_files_idx_ForIDPEP_noFDR)

output:
tuple mzml_id, file("${id_file.baseName}_idpep.idXML"), val("q-value_score") into (id_files_idpep, id_files_idpep_consID)
tuple mzml_id, file("${id_file.baseName}_idpep.idXML"), val("q-value_score") into (id_files_idpep, id_files_idpep_consID, id_files_idpep_multiqc)
file "*.log"

when:
Expand Down Expand Up @@ -1226,12 +1226,12 @@ process pmultiqc {
input:
file design from ch_expdesign_multiqc
file 'mzMLs/*' from ch_plfq.multiqc_mzmls.collect()
file 'proteomicslfq/*' from ch_out_mzTab_multiqc.merge(ch_out_consensusXML_multiqc).merge(ch_out_msstats_multiqc)
file 'raw_ids/*' from ch_plfq.multiqc_ids.collect()
file 'proteomicslfq/*' from ch_out_mzTab_multiqc.merge(ch_out_consensusXML_multiqc).merge(ch_out_msstats_multiqc)
file 'raw_ids/*' from id_files_idpep_multiqc.mix(id_files_perc_multiqc)[1].view()

output:
file '*.html' into ch_multiqc_report
file '*.db'
file '*.db'

script:
"""
Expand Down