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annotate planemo/lib/python3.7/site-packages/bioblend/__init__.py @ 1:56ad4e20f292 draft

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"planemo upload commit 6eee67778febed82ddd413c3ca40b3183a3898f1"
author guerler
date Fri, 31 Jul 2020 00:32:28 -0400
parents d30785e31577
children
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1 import logging
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2 import os
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3
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4 from bioblend.config import (
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5 BioBlendConfigLocations,
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6 Config,
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7 )
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8
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9 # Current version of the library
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10 __version__ = '0.14.0'
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11
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12 # default chunk size (in bytes) for reading remote data
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13 try:
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14 import resource
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15 CHUNK_SIZE = resource.getpagesize()
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16 except Exception:
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17 CHUNK_SIZE = 4096
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18
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19
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20 config = Config()
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21
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22
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23 def get_version():
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24 """
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25 Returns a string with the current version of the library (e.g., "0.2.0")
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26 """
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27 return __version__
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28
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29
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30 def init_logging():
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31 """
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32 Initialize BioBlend's logging from a configuration file.
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33 """
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34 for config_file in BioBlendConfigLocations:
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35 try:
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36 logging.config.fileConfig(os.path.expanduser(config_file))
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37 except Exception:
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38 pass
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39
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40
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41 class NullHandler(logging.Handler):
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42 def emit(self, record):
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43 pass
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44
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45
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46 # By default, do not force any logging by the library. If you want to see the
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47 # log messages in your scripts, add the following to the top of your script:
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48 # import logging
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49 # logging.basicConfig(filename="bioblend.log", level=logging.DEBUG)
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50 default_format_string = "%(asctime)s %(name)s [%(levelname)s]: %(message)s"
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51 log = logging.getLogger('bioblend')
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52 log.addHandler(NullHandler())
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53 init_logging()
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54
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55 # Convenience functions to set logging to a particular file or stream
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56 # To enable either of these, simply add the following at the top of a
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57 # bioblend module:
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58 # import bioblend
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59 # bioblend.set_stream_logger(__name__)
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60
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61
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62 def set_file_logger(name, filepath, level=logging.INFO, format_string=None):
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63 global log
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64 if not format_string:
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65 format_string = default_format_string
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66 logger = logging.getLogger(name)
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67 logger.setLevel(level)
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68 fh = logging.FileHandler(filepath)
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69 fh.setLevel(level)
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70 formatter = logging.Formatter(format_string)
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71 fh.setFormatter(formatter)
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72 logger.addHandler(fh)
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73 log = logger
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74
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75
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76 def set_stream_logger(name, level=logging.DEBUG, format_string=None):
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77 global log
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78 if not format_string:
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79 format_string = default_format_string
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80 logger = logging.getLogger(name)
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81 logger.setLevel(level)
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82 fh = logging.StreamHandler()
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83 fh.setLevel(level)
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84 formatter = logging.Formatter(format_string)
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85 fh.setFormatter(formatter)
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86 logger.addHandler(fh)
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87 log = logger
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88
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89
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90 class ConnectionError(Exception):
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91 """
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92 An exception class that is raised when unexpected HTTP responses come back.
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93
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94 Should make it easier to debug when strange HTTP things happen such as a
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95 proxy server getting in the way of the request etc.
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96 @see: body attribute to see the content of the http response
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97 """
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98 def __init__(self, message, body=None, status_code=None):
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99 super().__init__(message)
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100 self.body = body
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101 self.status_code = status_code
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102
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103 def __str__(self):
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104 return "{0}: {1}".format(self.args[0], self.body)