1 new commit in galaxy-central:
https://bitbucket.org/galaxy/galaxy-central/changeset/21b645303c02/ changeset: 21b645303c02 user: jgoecks date: 2011-12-22 19:54:33 summary: Set Cufflinks global model when upper quartile normalization is used. affected #: 1 file
diff -r d6d62cb3cf7ea7b7a11a5ca4caf4a85c50a31a93 -r 21b645303c0221690a0114b021cd5e706b0c917a tools/ngs_rna/cufflinks_wrapper.py --- a/tools/ngs_rna/cufflinks_wrapper.py +++ b/tools/ngs_rna/cufflinks_wrapper.py @@ -137,11 +137,11 @@ returncode = proc.wait() tmp_stderr.close()
- # Read standard error to get total map mass. + # Read standard error to get total map/upper quartile mass. total_map_mass = -1 tmp_stderr = open( tmp_name, 'r' ) for line in tmp_stderr: - if line.lower().find( "total map mass") >= 0: + if line.lower().find( "total map mass" ) >= 0 or line.lower().find( "upper quartile" ) >= 0: total_map_mass = float( line.split(":")[1].strip() ) break tmp_stderr.close()
Repository URL: https://bitbucket.org/galaxy/galaxy-central/
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