Mercurial > repos > shellac > sam_consensus_v3

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"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
author shellac
date Mon, 22 Mar 2021 18:12:50 +0000
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1 #!/Users/cmdms/OneDrive-UOB/Development/Projects/2021/sam-consensus-v3/env/bin/python3
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2 # Copyright (c) 2009 Chris Moyer http://coredumped.org
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3 #
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4 # Permission is hereby granted, free of charge, to any person obtaining a
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5 # copy of this software and associated documentation files (the
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6 # "Software"), to deal in the Software without restriction, including
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7 # without limitation the rights to use, copy, modify, merge, publish, dis-
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8 # tribute, sublicense, and/or sell copies of the Software, and to permit
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9 # persons to whom the Software is furnished to do so, subject to the fol-
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10 # lowing conditions:
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11 #
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12 # The above copyright notice and this permission notice shall be included
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13 # in all copies or substantial portions of the Software.
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14 #
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15 # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS
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16 # OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABIL-
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17 # ITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT
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18 # SHALL THE AUTHOR BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY,
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19 # WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
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20 # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS
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21 # IN THE SOFTWARE.
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22 #
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23 import sys
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24
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25
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26 if __name__ == "__main__":
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27 from optparse import OptionParser
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28 usage = """%prog [options] URI
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29 Fetch a URI using the boto library and (by default) pipe contents to STDOUT
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30 The URI can be either an HTTP URL, or "s3://bucket_name/key_name"
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31 """
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32 parser = OptionParser(version="0.1", usage=usage)
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33 parser.add_option("-o", "--out-file",
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34 help="File to receive output instead of STDOUT",
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35 dest="outfile")
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36
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37 (options, args) = parser.parse_args()
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38 if len(args) < 1:
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39 parser.print_help()
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40 sys.exit(1)
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41 from boto.utils import fetch_file
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42 f = fetch_file(args[0])
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43 if options.outfile:
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44 open(options.outfile, "w").write(f.read())
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45 else:
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46 print(f.read())