Mercurial > repos > shellac > guppy_basecaller

annotate env/lib/python3.7/site-packages/boltons/mboxutils.py @ 3:758bc20232e8 draft

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"planemo upload commit 2a0fe2cc28b09e101d37293e53e82f61762262ec"
author shellac
date Thu, 14 May 2020 16:20:52 -0400
parents 26e78fe6e8c4
children
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1 # -*- coding: utf-8 -*-
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2 """Useful utilities for working with the `mbox`_-formatted
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3 mailboxes. Credit to Mark Williams for these.
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4
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5 .. _mbox: https://en.wikipedia.org/wiki/Mbox
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6 """
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7
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8 import mailbox
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9 import tempfile
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10
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11
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12 DEFAULT_MAXMEM = 4 * 1024 * 1024 # 4MB
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13
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14
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15 class mbox_readonlydir(mailbox.mbox):
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16 """A subclass of :class:`mailbox.mbox` suitable for use with mboxs
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17 insides a read-only mail directory, e.g., ``/var/mail``. Otherwise
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18 the API is exactly the same as the built-in mbox.
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19
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20 Deletes messages via truncation, in the manner of `Heirloom mailx`_.
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21
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22 Args:
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23 path (str): Path to the mbox file.
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24 factory (type): Message type (defaults to :class:`rfc822.Message`)
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25 create (bool): Create mailbox if it does not exist. (defaults
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26 to ``True``)
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27 maxmem (int): Specifies, in bytes, the largest sized mailbox
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28 to attempt to copy into memory. Larger mailboxes
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29 will be copied incrementally which is more
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30 hazardous. (defaults to 4MB)
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31
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32 .. note::
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33
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34 Because this truncates and rewrites parts of the mbox file,
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35 this class can corrupt your mailbox. Only use this if you know
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36 the built-in :class:`mailbox.mbox` does not work for your use
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37 case.
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38
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39 .. _Heirloom mailx: http://heirloom.sourceforge.net/mailx.html
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40 """
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41 def __init__(self, path, factory=None, create=True, maxmem=1024 * 1024):
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42 mailbox.mbox.__init__(self, path, factory, create)
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43 self.maxmem = maxmem
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44
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45 def flush(self):
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46 """Write any pending changes to disk. This is called on mailbox
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47 close and is usually not called explicitly.
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48
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49 .. note::
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50
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51 This deletes messages via truncation. Interruptions may
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52 corrupt your mailbox.
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53 """
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54
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55 # Appending and basic assertions are the same as in mailbox.mbox.flush.
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56 if not self._pending:
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57 if self._pending_sync:
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58 # Messages have only been added, so syncing the file
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59 # is enough.
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60 mailbox._sync_flush(self._file)
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61 self._pending_sync = False
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62 return
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63
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64 # In order to be writing anything out at all, self._toc must
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65 # already have been generated (and presumably has been modified
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66 # by adding or deleting an item).
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67 assert self._toc is not None
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68
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69 # Check length of self._file; if it's changed, some other process
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70 # has modified the mailbox since we scanned it.
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71 self._file.seek(0, 2)
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72 cur_len = self._file.tell()
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73 if cur_len != self._file_length:
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74 raise mailbox.ExternalClashError('Size of mailbox file changed '
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75 '(expected %i, found %i)' %
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76 (self._file_length, cur_len))
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77
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78 self._file.seek(0)
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79
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80 # Truncation logic begins here. Mostly the same except we
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81 # can use tempfile because we're not doing rename(2).
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82 with tempfile.TemporaryFile() as new_file:
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83 new_toc = {}
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84 self._pre_mailbox_hook(new_file)
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85 for key in sorted(self._toc.keys()):
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86 start, stop = self._toc[key]
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87 self._file.seek(start)
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88 self._pre_message_hook(new_file)
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89 new_start = new_file.tell()
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90 while True:
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91 buffer = self._file.read(min(4096,
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92 stop - self._file.tell()))
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93 if buffer == '':
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94 break
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95 new_file.write(buffer)
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96 new_toc[key] = (new_start, new_file.tell())
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97 self._post_message_hook(new_file)
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98 self._file_length = new_file.tell()
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99
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100 self._file.seek(0)
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101 new_file.seek(0)
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102
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103 # Copy back our messages
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104 if self._file_length <= self.maxmem:
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105 self._file.write(new_file.read())
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106 else:
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107 while True:
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108 buffer = new_file.read(4096)
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109 if not buffer:
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110 break
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111 self._file.write(buffer)
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112
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113 # Delete the rest.
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114 self._file.truncate()
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115
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116 # Same wrap up.
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117 self._toc = new_toc
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118 self._pending = False
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119 self._pending_sync = False
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120 if self._locked:
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121 mailbox._lock_file(self._file, dotlock=False)