Mercurial > repos > weilong-guo > bs_seeker2

comparison BSseeker2/FilterReads.py @ 1:8b26adf64adc draft default tip

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V2.0.5
author weilong-guo
date Tue, 05 Nov 2013 01:55:39 -0500
parents e6df770c0e58
children
comparison
equal deleted inserted replaced
0:e6df770c0e58 1:8b26adf64adc
1 #!/usr/bin/python 1 #!/usr/bin/env python
2 2
3 import sys 3 import sys
4 import os 4 import os
5 import os.path 5 import os.path
6 import re 6 import re
224 parser.add_option("-k", dest="keepquality", default = False, action = "store_true", 224 parser.add_option("-k", dest="keepquality", default = False, action = "store_true",
225 help="Would not filter low quality reads if specified") 225 help="Would not filter low quality reads if specified")
226 (options, args) = parser.parse_args() 226 (options, args) = parser.parse_args()
227 227
228 if (options.infile is None) or (options.outfile is None) : 228 if (options.infile is None) or (options.outfile is None) :
229 print parser.print_help() 229 parser.print_help()
230 exit(-1) 230 exit(-1)
231 FilterReads(options.infile, options.outfile, options.keepquality) 231 FilterReads(options.infile, options.outfile, options.keepquality)
232 232
233 233
234 # =========================================== 234 # ===========================================