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Commit 4c4e5ab7 authored by christine.tranchant_ird.fr's avatar christine.tranchant_ird.fr
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fix bug mergeflagstats

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frangiPANe/snakefiles/merge_flagstat.smk
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......@@ -34,7 +34,7 @@ rule merge_flagstat:
for line in stat:
line = line.rstrip()
if 'mapped (' in line or ('paired (' in line and not 'primary' in line) or 'singleton' in line:
if ('mapped (' in line and not 'primary' in line) or 'paired (' in line or 'singleton' in line:
# print(line.split('(')[1].split('%')[0])
newLine += f",{line.split('(')[1].split('%')[0]}"
......
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