Mercurial > repos > shellac > guppy_basecaller

annotate env/lib/python3.7/site-packages/yaml/reader.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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1 # This module contains abstractions for the input stream. You don't have to
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2 # looks further, there are no pretty code.
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3 #
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4 # We define two classes here.
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5 #
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6 # Mark(source, line, column)
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7 # It's just a record and its only use is producing nice error messages.
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8 # Parser does not use it for any other purposes.
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9 #
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10 # Reader(source, data)
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11 # Reader determines the encoding of `data` and converts it to unicode.
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12 # Reader provides the following methods and attributes:
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13 # reader.peek(length=1) - return the next `length` characters
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14 # reader.forward(length=1) - move the current position to `length` characters.
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15 # reader.index - the number of the current character.
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16 # reader.line, stream.column - the line and the column of the current character.
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17
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18 __all__ = ['Reader', 'ReaderError']
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19
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20 from .error import YAMLError, Mark
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21
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22 import codecs, re
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23
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24 class ReaderError(YAMLError):
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25
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26 def __init__(self, name, position, character, encoding, reason):
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27 self.name = name
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28 self.character = character
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29 self.position = position
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30 self.encoding = encoding
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31 self.reason = reason
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32
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33 def __str__(self):
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34 if isinstance(self.character, bytes):
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35 return "'%s' codec can't decode byte #x%02x: %s\n" \
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36 " in \"%s\", position %d" \
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37 % (self.encoding, ord(self.character), self.reason,
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38 self.name, self.position)
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39 else:
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40 return "unacceptable character #x%04x: %s\n" \
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41 " in \"%s\", position %d" \
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42 % (self.character, self.reason,
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43 self.name, self.position)
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44
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45 class Reader(object):
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46 # Reader:
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47 # - determines the data encoding and converts it to a unicode string,
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48 # - checks if characters are in allowed range,
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49 # - adds '\0' to the end.
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50
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51 # Reader accepts
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52 # - a `bytes` object,
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53 # - a `str` object,
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54 # - a file-like object with its `read` method returning `str`,
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55 # - a file-like object with its `read` method returning `unicode`.
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56
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57 # Yeah, it's ugly and slow.
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58
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59 def __init__(self, stream):
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60 self.name = None
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61 self.stream = None
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62 self.stream_pointer = 0
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63 self.eof = True
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64 self.buffer = ''
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65 self.pointer = 0
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66 self.raw_buffer = None
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67 self.raw_decode = None
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68 self.encoding = None
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69 self.index = 0
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70 self.line = 0
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71 self.column = 0
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72 if isinstance(stream, str):
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73 self.name = "<unicode string>"
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74 self.check_printable(stream)
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75 self.buffer = stream+'\0'
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76 elif isinstance(stream, bytes):
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77 self.name = "<byte string>"
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78 self.raw_buffer = stream
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79 self.determine_encoding()
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80 else:
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81 self.stream = stream
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82 self.name = getattr(stream, 'name', "<file>")
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83 self.eof = False
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84 self.raw_buffer = None
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85 self.determine_encoding()
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86
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87 def peek(self, index=0):
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88 try:
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89 return self.buffer[self.pointer+index]
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90 except IndexError:
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91 self.update(index+1)
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92 return self.buffer[self.pointer+index]
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93
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94 def prefix(self, length=1):
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95 if self.pointer+length >= len(self.buffer):
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96 self.update(length)
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97 return self.buffer[self.pointer:self.pointer+length]
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98
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99 def forward(self, length=1):
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100 if self.pointer+length+1 >= len(self.buffer):
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101 self.update(length+1)
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102 while length:
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103 ch = self.buffer[self.pointer]
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104 self.pointer += 1
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105 self.index += 1
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106 if ch in '\n\x85\u2028\u2029' \
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107 or (ch == '\r' and self.buffer[self.pointer] != '\n'):
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108 self.line += 1
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109 self.column = 0
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110 elif ch != '\uFEFF':
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111 self.column += 1
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112 length -= 1
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113
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114 def get_mark(self):
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115 if self.stream is None:
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116 return Mark(self.name, self.index, self.line, self.column,
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117 self.buffer, self.pointer)
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118 else:
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119 return Mark(self.name, self.index, self.line, self.column,
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120 None, None)
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121
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122 def determine_encoding(self):
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123 while not self.eof and (self.raw_buffer is None or len(self.raw_buffer) < 2):
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124 self.update_raw()
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125 if isinstance(self.raw_buffer, bytes):
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126 if self.raw_buffer.startswith(codecs.BOM_UTF16_LE):
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127 self.raw_decode = codecs.utf_16_le_decode
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128 self.encoding = 'utf-16-le'
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129 elif self.raw_buffer.startswith(codecs.BOM_UTF16_BE):
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130 self.raw_decode = codecs.utf_16_be_decode
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131 self.encoding = 'utf-16-be'
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132 else:
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133 self.raw_decode = codecs.utf_8_decode
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134 self.encoding = 'utf-8'
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135 self.update(1)
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136
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137 NON_PRINTABLE = re.compile('[^\x09\x0A\x0D\x20-\x7E\x85\xA0-\uD7FF\uE000-\uFFFD\U00010000-\U0010ffff]')
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138 def check_printable(self, data):
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139 match = self.NON_PRINTABLE.search(data)
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140 if match:
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141 character = match.group()
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142 position = self.index+(len(self.buffer)-self.pointer)+match.start()
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143 raise ReaderError(self.name, position, ord(character),
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144 'unicode', "special characters are not allowed")
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145
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146 def update(self, length):
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147 if self.raw_buffer is None:
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148 return
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149 self.buffer = self.buffer[self.pointer:]
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150 self.pointer = 0
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151 while len(self.buffer) < length:
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152 if not self.eof:
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153 self.update_raw()
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154 if self.raw_decode is not None:
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155 try:
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156 data, converted = self.raw_decode(self.raw_buffer,
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157 'strict', self.eof)
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158 except UnicodeDecodeError as exc:
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159 character = self.raw_buffer[exc.start]
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160 if self.stream is not None:
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161 position = self.stream_pointer-len(self.raw_buffer)+exc.start
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162 else:
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163 position = exc.start
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164 raise ReaderError(self.name, position, character,
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165 exc.encoding, exc.reason)
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166 else:
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167 data = self.raw_buffer
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168 converted = len(data)
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169 self.check_printable(data)
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170 self.buffer += data
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171 self.raw_buffer = self.raw_buffer[converted:]
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172 if self.eof:
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173 self.buffer += '\0'
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174 self.raw_buffer = None
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175 break
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176
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177 def update_raw(self, size=4096):
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178 data = self.stream.read(size)
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179 if self.raw_buffer is None:
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180 self.raw_buffer = data
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181 else:
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182 self.raw_buffer += data
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183 self.stream_pointer += len(data)
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184 if not data:
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185 self.eof = True