Mercurial > repos > shellac > guppy_basecaller

annotate env/bin/cq @ 0:26e78fe6e8c4 draft

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"planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
author shellac
date Sat, 02 May 2020 07:14:21 -0400
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26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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1 #!/Users/pldms/Development/Projects/2020/david-matthews-galaxy/guppy_basecaller/env/bin/python3
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2 # Copyright (c) 2006,2007 Mitch Garnaat http://garnaat.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 getopt, sys
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24 import boto.sqs
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25 from boto.sqs.connection import SQSConnection
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26 from boto.exception import SQSError
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27
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28 def usage():
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29 print 'cq [-c] [-q queue_name] [-o output_file] [-t timeout] [-r region]'
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30
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31 def main():
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32 try:
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33 opts, args = getopt.getopt(sys.argv[1:], 'hcq:o:t:r:',
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34 ['help', 'clear', 'queue=',
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35 'output=', 'timeout=', 'region='])
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36 except:
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37 usage()
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38 sys.exit(2)
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39 queue_name = ''
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40 output_file = ''
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41 timeout = 30
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42 region = ''
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43 clear = False
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44 for o, a in opts:
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45 if o in ('-h', '--help'):
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46 usage()
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47 sys.exit()
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48 if o in ('-q', '--queue'):
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49 queue_name = a
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50 if o in ('-o', '--output'):
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51 output_file = a
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52 if o in ('-c', '--clear'):
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53 clear = True
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54 if o in ('-t', '--timeout'):
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55 timeout = int(a)
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56 if o in ('-r', '--region'):
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57 region = a
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58 if region:
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59 c = boto.sqs.connect_to_region(region)
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60 if c is None:
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61 print 'Invalid region (%s)' % region
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62 sys.exit(1)
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63 else:
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64 c = SQSConnection()
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65 if queue_name:
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66 try:
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67 rs = [c.create_queue(queue_name)]
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68 except SQSError as e:
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69 print 'An Error Occurred:'
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70 print '%s: %s' % (e.status, e.reason)
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71 print e.body
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72 sys.exit()
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73 else:
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74 try:
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75 rs = c.get_all_queues()
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76 except SQSError as e:
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77 print 'An Error Occurred:'
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78 print '%s: %s' % (e.status, e.reason)
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79 print e.body
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80 sys.exit()
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81 for q in rs:
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82 if clear:
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83 n = q.clear()
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84 print 'clearing %d messages from %s' % (n, q.id)
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85 elif output_file:
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86 q.dump(output_file)
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87 else:
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88 print q.id, q.count(vtimeout=timeout)
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89
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90 if __name__ == "__main__":
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91 main()
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92