Mercurial > repos > shellac > guppy_basecaller

annotate env/lib/python3.7/site-packages/boto/manage/task.py @ 4:79f47841a781 draft

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"planemo upload commit 2a0fe2cc28b09e101d37293e53e82f61762262ec"
author shellac
date Thu, 14 May 2020 16:47:39 -0400
parents 26e78fe6e8c4
children
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1 # Copyright (c) 2006-2009 Mitch Garnaat http://garnaat.org/
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2 #
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3 # Permission is hereby granted, free of charge, to any person obtaining a
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4 # copy of this software and associated documentation files (the
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5 # "Software"), to deal in the Software without restriction, including
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6 # without limitation the rights to use, copy, modify, merge, publish, dis-
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7 # tribute, sublicense, and/or sell copies of the Software, and to permit
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8 # persons to whom the Software is furnished to do so, subject to the fol-
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9 # lowing conditions:
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10 #
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11 # The above copyright notice and this permission notice shall be included
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12 # in all copies or substantial portions of the Software.
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13 #
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14 # THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS
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15 # OR IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABIL-
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16 # ITY, FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT
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17 # SHALL THE AUTHOR BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER LIABILITY,
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18 # WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
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19 # OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS
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20 # IN THE SOFTWARE.
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21 #
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22
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23 import boto
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24 from boto.sdb.db.property import StringProperty, DateTimeProperty, IntegerProperty
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25 from boto.sdb.db.model import Model
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26 import datetime, subprocess, time
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27 from boto.compat import StringIO
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28
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29 def check_hour(val):
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30 if val == '*':
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31 return
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32 if int(val) < 0 or int(val) > 23:
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33 raise ValueError
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34
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35 class Task(Model):
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36
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37 """
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38 A scheduled, repeating task that can be executed by any participating servers.
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39 The scheduling is similar to cron jobs. Each task has an hour attribute.
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40 The allowable values for hour are [0-23|*].
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41
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42 To keep the operation reasonably efficient and not cause excessive polling,
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43 the minimum granularity of a Task is hourly. Some examples:
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44
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45 hour='*' - the task would be executed each hour
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46 hour='3' - the task would be executed at 3AM GMT each day.
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47
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48 """
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49 name = StringProperty()
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50 hour = StringProperty(required=True, validator=check_hour, default='*')
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51 command = StringProperty(required=True)
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52 last_executed = DateTimeProperty()
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53 last_status = IntegerProperty()
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54 last_output = StringProperty()
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55 message_id = StringProperty()
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56
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57 @classmethod
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58 def start_all(cls, queue_name):
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59 for task in cls.all():
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60 task.start(queue_name)
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61
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62 def __init__(self, id=None, **kw):
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63 super(Task, self).__init__(id, **kw)
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64 self.hourly = self.hour == '*'
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65 self.daily = self.hour != '*'
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66 self.now = datetime.datetime.utcnow()
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67
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68 def check(self):
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69 """
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70 Determine how long until the next scheduled time for a Task.
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71 Returns the number of seconds until the next scheduled time or zero
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72 if the task needs to be run immediately.
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73 If it's an hourly task and it's never been run, run it now.
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74 If it's a daily task and it's never been run and the hour is right, run it now.
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75 """
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76 boto.log.info('checking Task[%s]-now=%s, last=%s' % (self.name, self.now, self.last_executed))
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77
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78 if self.hourly and not self.last_executed:
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79 return 0
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80
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81 if self.daily and not self.last_executed:
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82 if int(self.hour) == self.now.hour:
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83 return 0
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84 else:
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85 return max( (int(self.hour)-self.now.hour), (self.now.hour-int(self.hour)) )*60*60
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86
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87 delta = self.now - self.last_executed
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88 if self.hourly:
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89 if delta.seconds >= 60*60:
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90 return 0
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91 else:
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92 return 60*60 - delta.seconds
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93 else:
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94 if int(self.hour) == self.now.hour:
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95 if delta.days >= 1:
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96 return 0
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97 else:
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98 return 82800 # 23 hours, just to be safe
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99 else:
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100 return max( (int(self.hour)-self.now.hour), (self.now.hour-int(self.hour)) )*60*60
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101
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102 def _run(self, msg, vtimeout):
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103 boto.log.info('Task[%s] - running:%s' % (self.name, self.command))
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104 log_fp = StringIO()
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105 process = subprocess.Popen(self.command, shell=True, stdin=subprocess.PIPE,
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106 stdout=subprocess.PIPE, stderr=subprocess.PIPE)
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107 nsecs = 5
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108 current_timeout = vtimeout
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109 while process.poll() is None:
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110 boto.log.info('nsecs=%s, timeout=%s' % (nsecs, current_timeout))
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111 if nsecs >= current_timeout:
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112 current_timeout += vtimeout
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113 boto.log.info('Task[%s] - setting timeout to %d seconds' % (self.name, current_timeout))
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114 if msg:
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115 msg.change_visibility(current_timeout)
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116 time.sleep(5)
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117 nsecs += 5
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118 t = process.communicate()
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119 log_fp.write(t[0])
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120 log_fp.write(t[1])
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121 boto.log.info('Task[%s] - output: %s' % (self.name, log_fp.getvalue()))
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122 self.last_executed = self.now
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123 self.last_status = process.returncode
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124 self.last_output = log_fp.getvalue()[0:1023]
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125
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126 def run(self, msg, vtimeout=60):
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127 delay = self.check()
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128 boto.log.info('Task[%s] - delay=%s seconds' % (self.name, delay))
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129 if delay == 0:
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130 self._run(msg, vtimeout)
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131 queue = msg.queue
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132 new_msg = queue.new_message(self.id)
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133 new_msg = queue.write(new_msg)
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134 self.message_id = new_msg.id
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135 self.put()
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136 boto.log.info('Task[%s] - new message id=%s' % (self.name, new_msg.id))
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137 msg.delete()
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138 boto.log.info('Task[%s] - deleted message %s' % (self.name, msg.id))
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139 else:
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140 boto.log.info('new_vtimeout: %d' % delay)
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141 msg.change_visibility(delay)
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142
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143 def start(self, queue_name):
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144 boto.log.info('Task[%s] - starting with queue: %s' % (self.name, queue_name))
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145 queue = boto.lookup('sqs', queue_name)
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146 msg = queue.new_message(self.id)
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147 msg = queue.write(msg)
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148 self.message_id = msg.id
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149 self.put()
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150 boto.log.info('Task[%s] - start successful' % self.name)
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151
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152 class TaskPoller(object):
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153
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154 def __init__(self, queue_name):
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155 self.sqs = boto.connect_sqs()
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156 self.queue = self.sqs.lookup(queue_name)
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157
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158 def poll(self, wait=60, vtimeout=60):
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159 while True:
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160 m = self.queue.read(vtimeout)
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161 if m:
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162 task = Task.get_by_id(m.get_body())
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163 if task:
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164 if not task.message_id or m.id == task.message_id:
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165 boto.log.info('Task[%s] - read message %s' % (task.name, m.id))
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166 task.run(m, vtimeout)
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167 else:
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168 boto.log.info('Task[%s] - found extraneous message, ignoring' % task.name)
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169 else:
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170 time.sleep(wait)
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171
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172
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173
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174
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175
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176