Mercurial > repos > shellac > guppy_basecaller
comparison env/bin/fetch_file @ 5:9b1c78e6ba9c draft default tip
"planemo upload commit 6c0a8142489327ece472c84e558c47da711a9142"
| author | shellac |
|---|---|
| date | Mon, 01 Jun 2020 08:59:25 -0400 |
| parents | 79f47841a781 |
| children |
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| 4:79f47841a781 | 5:9b1c78e6ba9c |
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| 1 #!/Users/pldms/Development/Projects/2020/david-matthews-galaxy/guppy_basecaller/env/bin/python3 | |
| 2 # Copyright (c) 2009 Chris Moyer http://coredumped.org | |
| 3 # | |
| 4 # Permission is hereby granted, free of charge, to any person obtaining a | |
| 5 # copy of this software and associated documentation files (the | |
| 6 # "Software"), to deal in the Software without restriction, including | |
| 7 # without limitation the rights to use, copy, modify, merge, publish, dis- | |
| 8 # tribute, sublicense, and/or sell copies of the Software, and to permit | |
| 9 # persons to whom the Software is furnished to do so, subject to the fol- | |
| 10 # lowing conditions: | |
| 11 # | |
| 12 # The above copyright notice and this permission notice shall be included | |
| 13 # in all copies or substantial portions of the Software. | |
| 14 # | |
| 15 # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS | |
| 16 # OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABIL- | |
| 17 # ITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT | |
| 18 # SHALL THE AUTHOR BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY, | |
| 19 # WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM, | |
| 20 # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS | |
| 21 # IN THE SOFTWARE. | |
| 22 # | |
| 23 import sys | |
| 24 | |
| 25 | |
| 26 if __name__ == "__main__": | |
| 27 from optparse import OptionParser | |
| 28 usage = """%prog [options] URI | |
| 29 Fetch a URI using the boto library and (by default) pipe contents to STDOUT | |
| 30 The URI can be either an HTTP URL, or "s3://bucket_name/key_name" | |
| 31 """ | |
| 32 parser = OptionParser(version="0.1", usage=usage) | |
| 33 parser.add_option("-o", "--out-file", | |
| 34 help="File to receive output instead of STDOUT", | |
| 35 dest="outfile") | |
| 36 | |
| 37 (options, args) = parser.parse_args() | |
| 38 if len(args) < 1: | |
| 39 parser.print_help() | |
| 40 sys.exit(1) | |
| 41 from boto.utils import fetch_file | |
| 42 f = fetch_file(args[0]) | |
| 43 if options.outfile: | |
| 44 open(options.outfile, "w").write(f.read()) | |
| 45 else: | |
| 46 print(f.read()) |