Mercurial > repos > peterjc > mira4_assembler

comparison tools/mira4_0/mira4_make_bam.py @ 34:0785a6537f3e draft

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planemo upload for repository https://github.com/peterjc/galaxy_mira/tree/master/tools/mira4_0 commit 6405ba93fcec7ea93452bf54d559c7507ee7a57c
author peterjc
date Wed, 07 Jun 2017 12:33:39 -0400
parents 56b421d59805
children 259891fce7fd
comparison
equal deleted inserted replaced
33:1291ed21789f 34:0785a6537f3e
10 10
11 11
12 def run(cmd, log_handle): 12 def run(cmd, log_handle):
13 try: 13 try:
14 child = subprocess.Popen(cmd, shell=True, 14 child = subprocess.Popen(cmd, shell=True,
15 universal_newlines=True,
15 stdout=subprocess.PIPE, 16 stdout=subprocess.PIPE,
16 stderr=subprocess.STDOUT) 17 stderr=subprocess.STDOUT)
17 except Exception as err: 18 except Exception as err:
18 sys.stderr.write("Error invoking command:\n%s\n\n%s\n" % (cmd, err)) 19 sys.stderr.write("Error invoking command:\n%s\n\n%s\n" % (cmd, err))
19 # TODO - call clean up? 20 # TODO - call clean up?