Mercurial > repos > shellac > guppy_basecaller

annotate env/lib/python3.7/site-packages/boto/pyami/scriptbase.py @ 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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1 import os
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2 import sys
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3 from boto.utils import ShellCommand, get_ts
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4 import boto
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5 import boto.utils
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6
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7 class ScriptBase(object):
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8
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9 def __init__(self, config_file=None):
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10 self.instance_id = boto.config.get('Instance', 'instance-id', 'default')
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11 self.name = self.__class__.__name__
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12 self.ts = get_ts()
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13 if config_file:
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14 boto.config.read(config_file)
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15
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16 def notify(self, subject, body=''):
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17 boto.utils.notify(subject, body)
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18
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19 def mkdir(self, path):
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20 if not os.path.isdir(path):
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21 try:
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22 os.mkdir(path)
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23 except:
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24 boto.log.error('Error creating directory: %s' % path)
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25
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26 def umount(self, path):
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27 if os.path.ismount(path):
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28 self.run('umount %s' % path)
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29
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30 def run(self, command, notify=True, exit_on_error=False, cwd=None):
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31 self.last_command = ShellCommand(command, cwd=cwd)
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32 if self.last_command.status != 0:
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33 boto.log.error('Error running command: "%s". Output: "%s"' % (command, self.last_command.output))
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34 if notify:
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35 self.notify('Error encountered',
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36 'Error running the following command:\n\t%s\n\nCommand output:\n\t%s' % \
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37 (command, self.last_command.output))
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38 if exit_on_error:
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39 sys.exit(-1)
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40 return self.last_command.status
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41
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42 def main(self):
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43 pass