Mercurial > repos > jjjjia > cpo_prediction
diff cpo_galaxy_prediction.py @ 21:1543496b2db4 draft
planemo upload
| author | jjjjia |
|---|---|
| date | Tue, 28 Aug 2018 19:23:31 -0400 |
| parents | 596bf8a792de |
| children | e03c8f2d2629 |
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--- a/cpo_galaxy_prediction.py Tue Aug 28 15:19:33 2018 -0400 +++ b/cpo_galaxy_prediction.py Tue Aug 28 19:23:31 2018 -0400 @@ -42,7 +42,7 @@ parser.add_option("-e", "--expected", dest="expectedSpecies", default="NA/NA/NA", type="string", help="expected species of the isolate") parser.add_option("-s", "--mlst-scheme", dest="mlstScheme", default= "./scheme_species_map.tab", type="string", help="absolute file path to mlst scheme") parser.add_option("-p", "--plasmidfinder", dest="plasmidfinder", type="string", help="absolute file path to plasmidfinder ") - parser.add_options("-d", "--mash", dest="mash", type="string", help="absolute file path to mash plasmiddb result") + parser.add_option("-d", "--mash", dest="mash", type="string", help="absolute file path to mash plasmiddb result") #parallelization, useless, these are hard coded to 8cores/64G RAM #parser.add_option("-t", "--threads", dest="threads", default=8, type="int", help="number of cpu to use")