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
line wrap: on
line diff
--- 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")