Hello everyone, I am trying to get pbmarkdup log i...
# multiqc
t
Hello everyone, I am trying to get pbmarkdup log into MultiQC report. The search pattern of MultiQC is:
Copy code
pbmarkdup:
  contents_re: LIBRARY +READS +UNIQUE MOLECULES +DUPLICATE READS
  num_lines: 5
I get this log, but it does not go into MultiQC report:
Copy code
LIBRARY          READS    UNIQUE MOLECULES    DUPLICATE READS
----------   ----------  ------------------  -----------------
TRAC-2-8053       42511      42502 (100.0%)           9 (0.0%)
----------   ----------  ------------------  -----------------
TOTAL             42511      42502 (100.0%)           9 (0.0%)
p
and take a look at the verbose log from MultiQC, see if it's skipping the files for some reason
t
Thanks @Phil Ewels, MultiQC computed data for for pbmarkdup. But still not showing in report. cat multiqc_pbmarkdup.txt
Copy code
Sample  TRAC-2-8053     TOTAL
jaAcrCerv1_T1   {'READS': 42511, 'UNIQUE MOLECULES': 42502, 'DUPLICATE READS': 9}       {'READS': 42511, 'UNIQUE MOLECULES': 42502, 'DUPLICATE READS': 9}