Mercurial > repos > shellac > guppy_basecaller

annotate env/lib/python3.7/site-packages/boltons/listutils.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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0
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1 # -*- coding: utf-8 -*-
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2 """Python's builtin :class:`list` is a very fast and efficient
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3 sequence type, but it could be better for certain access patterns,
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4 such as non-sequential insertion into a large lists. ``listutils``
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5 provides a pure-Python solution to this problem.
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6
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7 For utilities for working with iterables and lists, check out
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8 :mod:`iterutils`. For the a :class:`list`-based version of
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9 :class:`collections.namedtuple`, check out :mod:`namedutils`.
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10 """
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11
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12 from __future__ import print_function, division
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13
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14 import operator
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15 from math import log as math_log
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16 from itertools import chain, islice
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17
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18 try:
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19 from typeutils import make_sentinel
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20 _MISSING = make_sentinel(var_name='_MISSING')
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21 except ImportError:
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22 _MISSING = object()
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23
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24 try:
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25 xrange
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26 except NameError:
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27 # Python 3 compat
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28 xrange = range
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29
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30 # TODO: expose splaylist?
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31 __all__ = ['BList', 'BarrelList']
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32
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33
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34 # TODO: comparators
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35 # TODO: keep track of list lengths and bisect to the right list for
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36 # faster getitem (and slightly slower setitem and delitem ops)
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37
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38 class BarrelList(list):
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39 """The ``BarrelList`` is a :class:`list` subtype backed by many
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40 dynamically-scaled sublists, to provide better scaling and random
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41 insertion/deletion characteristics. It is a subtype of the builtin
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42 :class:`list` and has an identical API, supporting indexing,
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43 slicing, sorting, etc. If application requirements call for
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44 something more performant, consider the `blist module available on
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45 PyPI`_.
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46
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47 The name comes by way of Kurt Rose, who said it reminded him of
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48 barrel shifters. Not sure how, but it's BList-like, so the name
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49 stuck. BList is of course a reference to `B-trees`_.
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50
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51 Args:
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52 iterable: An optional iterable of initial values for the list.
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53
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54 >>> blist = BList(xrange(100000))
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55 >>> blist.pop(50000)
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56 50000
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57 >>> len(blist)
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58 99999
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59 >>> len(blist.lists) # how many underlying lists
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60 8
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61 >>> slice_idx = blist.lists[0][-1]
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62 >>> blist[slice_idx:slice_idx + 2]
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63 BarrelList([11637, 11638])
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64
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65 Slicing is supported and works just fine across list borders,
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66 returning another instance of the BarrelList.
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67
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68 .. _blist module available on PyPI: https://pypi.python.org/pypi/blist
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69 .. _B-trees: https://en.wikipedia.org/wiki/B-tree
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70
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71 """
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72
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73 _size_factor = 1520
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74 "This size factor is the result of tuning using the tune() function below."
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75
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76 def __init__(self, iterable=None):
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77 self.lists = [[]]
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78 if iterable:
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79 self.extend(iterable)
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80
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81 @property
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82 def _cur_size_limit(self):
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83 len_self, size_factor = len(self), self._size_factor
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84 return int(round(size_factor * math_log(len_self + 2, 2)))
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85
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86 def _translate_index(self, index):
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87 if index < 0:
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88 index += len(self)
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89 rel_idx, lists = index, self.lists
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90 for list_idx in range(len(lists)):
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91 len_list = len(lists[list_idx])
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92 if rel_idx < len_list:
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93 break
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94 rel_idx -= len_list
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95 if rel_idx < 0:
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96 return None, None
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97 return list_idx, rel_idx
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98
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99 def _balance_list(self, list_idx):
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100 if list_idx < 0:
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101 list_idx += len(self.lists)
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102 cur_list, len_self = self.lists[list_idx], len(self)
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103 size_limit = self._cur_size_limit
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104 if len(cur_list) > size_limit:
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105 half_limit = size_limit // 2
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106 while len(cur_list) > half_limit:
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107 next_list_idx = list_idx + 1
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108 self.lists.insert(next_list_idx, cur_list[-half_limit:])
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109 del cur_list[-half_limit:]
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110 return True
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111 return False
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112
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113 def insert(self, index, item):
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114 if len(self.lists) == 1:
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115 self.lists[0].insert(index, item)
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116 self._balance_list(0)
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117 else:
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118 list_idx, rel_idx = self._translate_index(index)
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119 if list_idx is None:
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120 raise IndexError()
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121 self.lists[list_idx].insert(rel_idx, item)
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122 self._balance_list(list_idx)
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123 return
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124
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125 def append(self, item):
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126 self.lists[-1].append(item)
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127
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128 def extend(self, iterable):
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129 self.lists[-1].extend(iterable)
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130
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131 def pop(self, *a):
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132 lists = self.lists
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133 if len(lists) == 1 and not a:
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134 return self.lists[0].pop()
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135 index = a and a[0]
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136 if index == () or index is None or index == -1:
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137 ret = lists[-1].pop()
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138 if len(lists) > 1 and not lists[-1]:
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diff changeset
139 lists.pop()
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140 else:
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141 list_idx, rel_idx = self._translate_index(index)
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142 if list_idx is None:
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143 raise IndexError()
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144 ret = lists[list_idx].pop(rel_idx)
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145 self._balance_list(list_idx)
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146 return ret
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147
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148 def iter_slice(self, start, stop, step=None):
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149 iterable = self # TODO: optimization opportunities abound
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150 # start_list_idx, stop_list_idx = 0, len(self.lists)
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151 if start is None:
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152 start = 0
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153 if stop is None:
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154 stop = len(self)
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155 if step is not None and step < 0:
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156 step = -step
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157 start, stop = -start, -stop - 1
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158 iterable = reversed(self)
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159 if start < 0:
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160 start += len(self)
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161 # start_list_idx, start_rel_idx = self._translate_index(start)
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162 if stop < 0:
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163 stop += len(self)
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164 # stop_list_idx, stop_rel_idx = self._translate_index(stop)
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165 return islice(iterable, start, stop, step)
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166
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167 def del_slice(self, start, stop, step=None):
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168 if step is not None and abs(step) > 1: # punt
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169 new_list = chain(self.iter_slice(0, start, step),
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170 self.iter_slice(stop, None, step))
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171 self.lists[0][:] = new_list
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172 self._balance_list(0)
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173 return
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174 if start is None:
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175 start = 0
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176 if stop is None:
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177 stop = len(self)
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178 start_list_idx, start_rel_idx = self._translate_index(start)
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179 stop_list_idx, stop_rel_idx = self._translate_index(stop)
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180 if start_list_idx is None:
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181 raise IndexError()
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182 if stop_list_idx is None:
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183 raise IndexError()
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184
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185 if start_list_idx == stop_list_idx:
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parents:
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186 del self.lists[start_list_idx][start_rel_idx:stop_rel_idx]
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parents:
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187 elif start_list_idx < stop_list_idx:
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188 del self.lists[start_list_idx + 1:stop_list_idx]
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189 del self.lists[start_list_idx][start_rel_idx:]
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190 del self.lists[stop_list_idx][:stop_rel_idx]
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191 else:
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192 assert False, ('start list index should never translate to'
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
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193 ' greater than stop list index')
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194
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195 __delslice__ = del_slice
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196
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197 @classmethod
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198 def from_iterable(cls, it):
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199 return cls(it)
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200
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201 def __iter__(self):
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parents:
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202 return chain(*self.lists)
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203
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204 def __reversed__(self):
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parents:
diff changeset
205 return chain.from_iterable(reversed(l) for l in reversed(self.lists))
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parents:
diff changeset
206
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diff changeset
207 def __len__(self):
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diff changeset
208 return sum([len(l) for l in self.lists])
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209
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diff changeset
210 def __contains__(self, item):
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parents:
diff changeset
211 for cur in self.lists:
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parents:
diff changeset
212 if item in cur:
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parents:
diff changeset
213 return True
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parents:
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214 return False
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parents:
diff changeset
215
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parents:
diff changeset
216 def __getitem__(self, index):
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parents:
diff changeset
217 try:
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diff changeset
218 start, stop, step = index.start, index.stop, index.step
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
219 except AttributeError:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
220 index = operator.index(index)
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parents:
diff changeset
221 else:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
222 iter_slice = self.iter_slice(start, stop, step)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
223 ret = self.from_iterable(iter_slice)
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parents:
diff changeset
224 return ret
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
225 list_idx, rel_idx = self._translate_index(index)
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parents:
diff changeset
226 if list_idx is None:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
227 raise IndexError()
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
228 return self.lists[list_idx][rel_idx]
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parents:
diff changeset
229
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
230 def __delitem__(self, index):
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
231 try:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
232 start, stop, step = index.start, index.stop, index.step
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
233 except AttributeError:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
234 index = operator.index(index)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
235 else:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
236 self.del_slice(start, stop, step)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
237 return
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
238 list_idx, rel_idx = self._translate_index(index)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
239 if list_idx is None:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
240 raise IndexError()
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
241 del self.lists[list_idx][rel_idx]
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
242
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
243 def __setitem__(self, index, item):
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parents:
diff changeset
244 try:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
245 start, stop, step = index.start, index.stop, index.step
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
246 except AttributeError:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
247 index = operator.index(index)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
248 else:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
249 if len(self.lists) == 1:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
250 self.lists[0][index] = item
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
251 else:
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
252 tmp = list(self)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
253 tmp[index] = item
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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parents:
diff changeset
254 self.lists[:] = [tmp]
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
255 self._balance_list(0)
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
shellac
parents:
diff changeset
256 return
26e78fe6e8c4 "planemo upload commit c699937486c35866861690329de38ec1a5d9f783"
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257 list_idx, rel_idx = self._translate_index(index)
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258 if list_idx is None:
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259 raise IndexError()
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260 self.lists[list_idx][rel_idx] = item
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261
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262 def __getslice__(self, start, stop):
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263 iter_slice = self.iter_slice(start, stop, 1)
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264 return self.from_iterable(iter_slice)
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265
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266 def __setslice__(self, start, stop, sequence):
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267 if len(self.lists) == 1:
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268 self.lists[0][start:stop] = sequence
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269 else:
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270 tmp = list(self)
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271 tmp[start:stop] = sequence
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272 self.lists[:] = [tmp]
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273 self._balance_list(0)
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274 return
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275
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276 def __repr__(self):
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277 return '%s(%r)' % (self.__class__.__name__, list(self))
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278
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279 def sort(self):
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280 # poor pythonist's mergesort, it's faster than sorted(self)
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281 # when the lists' average length is greater than 512.
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282 if len(self.lists) == 1:
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283 self.lists[0].sort()
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284 else:
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285 for li in self.lists:
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286 li.sort()
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287 tmp_sorted = sorted(chain.from_iterable(self.lists))
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288 del self.lists[:]
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289 self.lists[0] = tmp_sorted
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290 self._balance_list(0)
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291
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292 def reverse(self):
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293 for cur in self.lists:
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294 cur.reverse()
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295 self.lists.reverse()
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296
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297 def count(self, item):
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298 return sum([cur.count(item) for cur in self.lists])
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299
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300 def index(self, item):
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301 len_accum = 0
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302 for cur in self.lists:
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303 try:
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304 rel_idx = cur.index(item)
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305 return len_accum + rel_idx
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306 except ValueError:
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307 len_accum += len(cur)
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308 raise ValueError('%r is not in list' % (item,))
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309
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310
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311 BList = BarrelList
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312
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313
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314 class SplayList(list):
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315 """Like a `splay tree`_, the SplayList facilitates moving higher
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316 utility items closer to the front of the list for faster access.
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317
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318 .. _splay tree: https://en.wikipedia.org/wiki/Splay_tree
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319 """
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320
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321 def shift(self, item_index, dest_index=0):
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322 if item_index == dest_index:
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323 return
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324 item = self.pop(item_index)
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325 self.insert(dest_index, item)
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326
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327 def swap(self, item_index, dest_index):
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328 self[dest_index], self[item_index] = self[item_index], self[dest_index]