Mercurial > repos > shellac > guppy_basecaller

annotate env/bin/cwutil @ 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 #!/Users/pldms/Development/Projects/2020/david-matthews-galaxy/guppy_basecaller/env/bin/python3
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2 # Author: Chris Moyer <cmoyer@newstex.com>
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3 # Description: CloudWatch Utility
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4 # For listing stats, creating alarms, and managing
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5 # other CloudWatch aspects
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6
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7 import boto
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8 cw = boto.connect_cloudwatch()
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9
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10 from datetime import datetime, timedelta
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11
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12 def _parse_time(time_string):
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13 """Internal function to parse a time string"""
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14
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15 def _parse_dict(d_string):
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16 result = {}
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17 if d_string:
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18 for d in d_string.split(","):
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19 d = d.split(":")
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20 result[d[0]] = d[1]
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21 return result
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22
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23 def ls(namespace=None):
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24 """
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25 List metrics, optionally filtering by a specific namespace
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26 namespace: Optional Namespace to filter on
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27 """
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28 print "%-10s %-50s %s" % ("Namespace", "Metric Name", "Dimensions")
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29 print "-"*80
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30 for m in cw.list_metrics():
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31 if namespace is None or namespace.upper() in m.namespace:
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32 print "%-10s %-50s %s" % (m.namespace, m.name, m.dimensions)
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33
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34 def stats(namespace, metric_name, dimensions=None, statistics="Average", start_time=None, end_time=None, period=60, unit=None):
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35 """
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36 Lists the statistics for a specific metric
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37 namespace: The namespace to use, usually "AWS/EC2", "AWS/SQS", etc.
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38 metric_name: The name of the metric to track, pulled from `ls`
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39 dimensions: The dimensions to use, formatted as Name:Value (such as QueueName:myQueue)
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40 statistics: The statistics to measure, defaults to "Average"
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41 'Minimum', 'Maximum', 'Sum', 'Average', 'SampleCount'
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42 start_time: Start time, default to now - 1 day
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43 end_time: End time, default to now
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44 period: Period/interval for counts, default to 60 minutes
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45 unit: Unit to track, default depends on what metric is being tracked
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46 """
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47
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48 # Parse the dimensions
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49 dimensions = _parse_dict(dimensions)
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50
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51 # Parse the times
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52 if end_time:
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53 end_time = _parse_time(end_time)
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54 else:
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55 end_time = datetime.utcnow()
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56 if start_time:
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57 start_time = _parse_time(start_time)
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58 else:
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59 start_time = datetime.utcnow() - timedelta(days=1)
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60
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61 print "%-30s %s" % ('Timestamp', statistics)
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62 print "-"*50
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63 data = {}
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64 for m in cw.get_metric_statistics(int(period), start_time, end_time, metric_name, namespace, statistics, dimensions, unit):
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65 data[m['Timestamp']] = m[statistics]
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66 keys = data.keys()
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67 keys.sort()
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68 for k in keys:
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69 print "%-30s %s" % (k, data[k])
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70
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71 def put(namespace, metric_name, dimensions=None, value=None, unit=None, statistics=None, timestamp=None):
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72 """
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73 Publish custom metrics
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74 namespace: The namespace to use; values starting with "AWS/" are reserved
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75 metric_name: The name of the metric to update
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76 dimensions: The dimensions to use, formatted as Name:Value (such as QueueName:myQueue)
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77 value: The value to store, mutually exclusive with `statistics`
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78 statistics: The statistics to store, mutually exclusive with `value`
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79 (must specify all of "Minimum", "Maximum", "Sum", "SampleCount")
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80 timestamp: The timestamp of this measurement, default is current server time
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81 unit: Unit to track, default depends on what metric is being tracked
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82 """
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83
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84 def simplify(lst):
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85 return lst[0] if len(lst) == 1 else lst
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86
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87 print cw.put_metric_data(namespace, simplify(metric_name.split(';')),
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88 dimensions = simplify(map(_parse_dict, dimensions.split(';'))) if dimensions else None,
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89 value = simplify(value.split(';')) if value else None,
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90 statistics = simplify(map(_parse_dict, statistics.split(';'))) if statistics else None,
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91 timestamp = simplify(timestamp.split(';')) if timestamp else None,
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92 unit = simplify(unit.split(';')) if unit else None)
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93
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94 def help(fnc=None):
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95 """
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96 Print help message, optionally about a specific function
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97 """
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98 import inspect
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99 self = sys.modules['__main__']
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100 if fnc:
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101 try:
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102 cmd = getattr(self, fnc)
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103 except:
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104 cmd = None
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105 if not inspect.isfunction(cmd):
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106 print "No function named: %s found" % fnc
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107 sys.exit(2)
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108 (args, varargs, varkw, defaults) = inspect.getargspec(cmd)
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109 print cmd.__doc__
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110 print "Usage: %s %s" % (fnc, " ".join([ "[%s]" % a for a in args]))
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111 else:
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112 print "Usage: cwutil [command]"
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113 for cname in dir(self):
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114 if not cname.startswith("_") and not cname == "cmd":
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115 cmd = getattr(self, cname)
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116 if inspect.isfunction(cmd):
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117 doc = cmd.__doc__
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118 print "\t%s - %s" % (cname, doc)
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119 sys.exit(1)
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120
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121
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122 if __name__ == "__main__":
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123 import sys
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124 self = sys.modules['__main__']
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shellac
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125 if len(sys.argv) >= 2:
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shellac
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126 try:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
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127 cmd = getattr(self, sys.argv[1])
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shellac
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128 except:
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129 cmd = None
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shellac
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130 args = sys.argv[2:]
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
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131 else:
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shellac
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132 cmd = help
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shellac
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133 args = []
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shellac
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134 if not cmd:
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shellac
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135 cmd = help
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
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136 try:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
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137 cmd(*args)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
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138 except TypeError as e:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
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139 print e
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
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140 help(cmd.__name__)