Mercurial > repos > greg > gene_family_aligner

comparison utils.py @ 56:f782812220e1 draft

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Uploaded
author greg
date Thu, 05 Oct 2017 14:14:56 -0400
parents ca7fb79c2eec
children 8d71c1dff476
comparison
equal deleted inserted replaced
55:259901da9ed5 56:f782812220e1
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 fstderr, fherr, fstdout, fhout 27 return fstderr, fherr, fstdout, fhout
28 28
29 29
30 def move_directory_files(source_dir, destination_dir, copy=False): 30 def move_directory_files(source_dir, destination_dir, copy=False, remove_source_dir=False):
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)
33 if not os.path.isdir(destination_directory): 33 if not os.path.isdir(destination_directory):
34 os.makedirs(destination_directory) 34 os.makedirs(destination_directory)
35 for dir_entry in os.listdir(source_directory): 35 for dir_entry in os.listdir(source_directory):
36 source_entry = os.path.join(source_directory, dir_entry) 36 source_entry = os.path.join(source_directory, dir_entry)
37 if copy: 37 if copy:
38 shutil.copy(source_entry, destination_directory) 38 shutil.copy(source_entry, destination_directory)
39 else: 39 else:
40 shutil.move(source_entry, destination_directory) 40 shutil.move(source_entry, destination_directory)
41 if remove_source_dir:
42 os.rmdir(source_directory)
41 43
42 44
43 def run_command(cmd): 45 def run_command(cmd):
44 fstderr, fherr, fstdout, fhout = get_response_buffers() 46 fstderr, fherr, fstdout, fhout = get_response_buffers()
45 proc = subprocess.Popen(args=cmd, stderr=fherr, stdout=fhout, shell=True) 47 proc = subprocess.Popen(args=cmd, stderr=fherr, stdout=fhout, shell=True)