Mercurial > repos > greg > gene_family_aligner

comparison utils.py @ 29:437a43ec5fb4 draft

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Uploaded
author greg
date Fri, 05 May 2017 10:29:59 -0400
parents 959926ea2a66
children 5691bc0a32d2
comparison
equal deleted inserted replaced
28:4d6e5f90aab8 29:437a43ec5fb4
22 def get_response_buffers(): 22 def get_response_buffers():
23 fstderr = os.path.join(os.getcwd(), FSTDERR) 23 fstderr = os.path.join(os.getcwd(), FSTDERR)
24 fherr = open(fstderr, 'wb') 24 fherr = open(fstderr, 'wb')
25 fstdout = os.path.join(os.getcwd(), FSTDOUT) 25 fstdout = os.path.join(os.getcwd(), FSTDOUT)
26 fhout = open(fstdout, 'wb') 26 fhout = open(fstdout, 'wb')
27 return fherr, fhout 27 return fstderr, fherr, fstdout, fhout
28 28
29 29
30 def move_directory_files(source_dir, destination_dir): 30 def move_directory_files(source_dir, destination_dir):
31 source_directory = os.path.abspath(source_dir) 31 source_directory = os.path.abspath(source_dir)
32 destination_directory = os.path.abspath(destination_dir) 32 destination_directory = os.path.abspath(destination_dir)
36 source_entry = os.path.join(source_directory, dir_entry) 36 source_entry = os.path.join(source_directory, dir_entry)
37 shutil.move(source_entry, destination_directory) 37 shutil.move(source_entry, destination_directory)
38 38
39 39
40 def run_command(cmd): 40 def run_command(cmd):
41 fherr, fhout = get_response_buffers() 41 fstderr, fherr, fstdout, fhout = get_response_buffers()
42 proc = subprocess.Popen(args=cmd, stderr=fherr, stdout=fhout, shell=True) 42 proc = subprocess.Popen(args=cmd, stderr=fherr, stdout=fhout, shell=True)
43 rc = proc.wait() 43 rc = proc.wait()
44 # Check results. 44 # Check results.
45 fherr.close() 45 fherr.close()
46 fhout.close() 46 fhout.close()