Mercurial > repos > sanbi-uwc > data_manager_novoalign_license_uploader

annotate data_manager/upload_novoalign_lic.py @ 3:5f478f3ffde3 draft

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planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit a5d026780b2793221206b5fc9d596a79600f03b0
author sanbi-uwc
date Mon, 29 Feb 2016 07:12:07 -0500
parents c2002302e045
children
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c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
diff changeset
1 #!/usr/bin/env
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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2 # Zipho Masholoigu (SANBI-UWC)
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
diff changeset
4 import os
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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5 import argparse
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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7 import logging
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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8 log = logging.getLogger( __name__ )
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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10 LICENSE_TARGET_DIRECTORY = "novoalign"
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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12 #Parse Command Line
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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13 parser = argparse.ArgumentParser(description="Upload the nonoalign license to the tool-data path")
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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14 parser.add_argument('--license_filename')
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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15 parser.add_argument('--license_dir')
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
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c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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17 args = parser.parse_args()
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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18 filename = args.license_filename
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
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c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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20 #create the license target directory
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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21 target_dir = args.license_dir + "/" + LICENSE_TARGET_DIRECTORY
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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22 license_file = target_dir+"/"+"license.lic"
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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23 if not os.path.isfile(license_file):
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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24 os.mkdir( target_dir )
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
diff changeset
25 #move/copy license file to the tool-data path
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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26 os.rename( filename, target_dir+"/"+"license.lic")
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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27 else:
c2002302e045 planemo upload for repository https://github.com/zipho/data_manager_novoalign_license_uploader commit be79b240ea4f15deeaa8dfaf1a221bfbb23cc5e7
sanbi-uwc
parents:
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28 log.debug("License for novoalign seems to exists already")