Mercurial > repos > shellac > sam_consensus_v3
annotate env/lib/python3.9/site-packages/galaxy/util/object_wrapper.py @ 0:4f3585e2f14b draft default tip
"planemo upload commit 60cee0fc7c0cda8592644e1aad72851dec82c959"
author | shellac |
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date | Mon, 22 Mar 2021 18:12:50 +0000 |
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1 """ |
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2 Classes for wrapping Objects and Sanitizing string output. |
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3 """ |
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4 |
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5 import copyreg |
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6 import inspect |
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7 import logging |
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8 import string |
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9 from collections import UserDict |
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10 from collections.abc import Callable |
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11 from numbers import Number |
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12 from types import ( |
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13 BuiltinFunctionType, |
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14 BuiltinMethodType, |
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15 CodeType, |
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16 FrameType, |
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17 FunctionType, |
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18 GeneratorType, |
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19 GetSetDescriptorType, |
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20 MemberDescriptorType, |
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21 MethodType, |
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22 ModuleType, |
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23 TracebackType, |
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24 ) |
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25 |
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26 NoneType = type(None) |
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27 NotImplementedType = type(NotImplemented) |
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28 EllipsisType = type(Ellipsis) |
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29 XRangeType = range |
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30 SliceType = slice |
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31 |
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32 # Python 2 version was: |
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33 # from types import BufferType, DictProxyType |
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34 # Py3 doesn't have these concepts, just treat them like SliceType that |
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35 # so they are __WRAP_NO_SUBCLASS__. |
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36 BufferType = SliceType |
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37 DictProxyType = SliceType |
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38 |
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39 from galaxy.util import sanitize_lists_to_string as _sanitize_lists_to_string |
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40 |
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41 log = logging.getLogger(__name__) |
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42 |
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43 # Define different behaviors for different types, see also: https://docs.python.org/2/library/types.html |
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44 |
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45 # Known Callable types |
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46 __CALLABLE_TYPES__ = (FunctionType, MethodType, GeneratorType, CodeType, BuiltinFunctionType, BuiltinMethodType, ) |
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47 |
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48 # Always wrap these types without attempting to subclass |
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49 __WRAP_NO_SUBCLASS__ = (ModuleType, XRangeType, SliceType, BufferType, TracebackType, FrameType, DictProxyType, |
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50 GetSetDescriptorType, MemberDescriptorType) + __CALLABLE_TYPES__ |
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51 |
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52 # Don't wrap or sanitize. |
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53 __DONT_SANITIZE_TYPES__ = (Number, bool, NoneType, NotImplementedType, EllipsisType, bytearray, ) |
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54 |
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55 # Wrap contents, but not the container |
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56 __WRAP_SEQUENCES__ = (tuple, list, ) |
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57 __WRAP_SETS__ = (set, frozenset, ) |
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58 __WRAP_MAPPINGS__ = (dict, UserDict, ) |
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59 |
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60 |
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61 # Define the set of characters that are not sanitized, and define a set of mappings for those that are. |
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62 # characters that are valid |
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63 VALID_CHARACTERS = set(string.ascii_letters + string.digits + " -=_.()/+*^,:?!@") |
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64 |
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65 # characters that are allowed but need to be escaped |
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66 CHARACTER_MAP = {'>': '__gt__', |
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67 '<': '__lt__', |
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68 "'": '__sq__', |
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69 '"': '__dq__', |
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70 '[': '__ob__', |
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71 ']': '__cb__', |
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72 '{': '__oc__', |
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73 '}': '__cc__', |
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74 '\n': '__cn__', |
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75 '\r': '__cr__', |
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76 '\t': '__tc__', |
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77 '#': '__pd__'} |
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78 |
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79 INVALID_CHARACTER = "X" |
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80 |
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81 |
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82 def coerce(x, y): |
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83 # __coerce__ doesn't do anything under Python anyway. |
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84 return x |
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85 |
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86 |
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87 def cmp(x, y): |
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88 # Builtin in Python 2, but not Python 3. |
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89 return (x > y) - (x < y) |
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90 |
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91 |
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92 def sanitize_lists_to_string(values, valid_characters=VALID_CHARACTERS, character_map=CHARACTER_MAP, invalid_character=INVALID_CHARACTER): |
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93 return _sanitize_lists_to_string(values, valid_characters=valid_characters, character_map=character_map, invalid_character=invalid_character) |
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94 |
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95 |
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96 def wrap_with_safe_string(value, no_wrap_classes=None): |
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97 """ |
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98 Recursively wrap values that should be wrapped. |
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99 """ |
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100 |
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101 def __do_wrap(value): |
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102 if isinstance(value, SafeStringWrapper): |
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103 # Only ever wrap one-layer |
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104 return value |
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105 if isinstance(value, Callable): |
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106 safe_class = CallableSafeStringWrapper |
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107 else: |
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108 safe_class = SafeStringWrapper |
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109 if isinstance(value, no_wrap_classes): |
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110 return value |
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111 if isinstance(value, __WRAP_NO_SUBCLASS__): |
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112 return safe_class(value, safe_string_wrapper_function=__do_wrap) |
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113 for this_type in __WRAP_SEQUENCES__ + __WRAP_SETS__: |
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114 if isinstance(value, this_type): |
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115 return this_type(list(map(__do_wrap, value))) |
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116 for this_type in __WRAP_MAPPINGS__: |
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117 if isinstance(value, this_type): |
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118 # Wrap both key and value |
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119 return this_type((__do_wrap(x[0]), __do_wrap(x[1])) for x in value.items()) |
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120 # Create a dynamic class that joins SafeStringWrapper with the object being wrapped. |
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121 # This allows e.g. isinstance to continue to work. |
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122 try: |
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123 wrapped_class_name = value.__name__ |
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124 wrapped_class = value |
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125 except Exception: |
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126 wrapped_class_name = value.__class__.__name__ |
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127 wrapped_class = value.__class__ |
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128 value_mod = inspect.getmodule(value) |
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129 if value_mod: |
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130 wrapped_class_name = f"{value_mod.__name__}.{wrapped_class_name}" |
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131 wrapped_class_name = "SafeStringWrapper({}:{})".format(wrapped_class_name, ",".join(sorted(map(str, no_wrap_classes)))) |
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132 do_wrap_func_name = f"__do_wrap_{wrapped_class_name}" |
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133 do_wrap_func = __do_wrap |
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134 global_dict = globals() |
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135 if wrapped_class_name in global_dict: |
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136 # Check to see if we have created a wrapper for this class yet, if so, reuse |
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137 wrapped_class = global_dict.get(wrapped_class_name) |
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138 do_wrap_func = global_dict.get(do_wrap_func_name, __do_wrap) |
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139 else: |
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140 try: |
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141 wrapped_class = type(wrapped_class_name, (safe_class, wrapped_class, ), {}) |
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142 except TypeError as e: |
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143 # Fail-safe for when a class cannot be dynamically subclassed. |
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144 log.warning(f"Unable to create dynamic subclass {wrapped_class_name} for {type(value)}, {value}: {e}") |
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145 wrapped_class = type(wrapped_class_name, (safe_class, ), {}) |
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146 if wrapped_class not in (SafeStringWrapper, CallableSafeStringWrapper): |
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147 # Save this wrapper for reuse and pickling/copying |
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148 global_dict[wrapped_class_name] = wrapped_class |
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149 do_wrap_func.__name__ = do_wrap_func_name |
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150 global_dict[do_wrap_func_name] = do_wrap_func |
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151 |
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152 def pickle_safe_object(safe_object): |
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153 return (wrapped_class, (safe_object.unsanitized, do_wrap_func, )) |
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154 # Set pickle and copy properties |
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155 copyreg.pickle(wrapped_class, pickle_safe_object, do_wrap_func) |
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156 return wrapped_class(value, safe_string_wrapper_function=do_wrap_func) |
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157 |
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158 # Determine classes not to wrap |
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159 if no_wrap_classes: |
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160 if not isinstance(no_wrap_classes, (tuple, list)): |
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161 no_wrap_classes = [no_wrap_classes] |
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162 no_wrap_classes = list(no_wrap_classes) + list(__DONT_SANITIZE_TYPES__) + [SafeStringWrapper] |
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163 else: |
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164 no_wrap_classes = list(__DONT_SANITIZE_TYPES__) + [SafeStringWrapper] |
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165 no_wrap_classes = tuple(set(sorted(no_wrap_classes, key=str))) |
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166 return __do_wrap(value) |
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167 |
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168 |
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169 # N.B. refer to e.g. https://docs.python.org/reference/datamodel.html for information on Python's Data Model. |
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170 |
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171 |
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172 class SafeStringWrapper: |
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173 """ |
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174 Class that wraps and sanitizes any provided value's attributes |
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175 that will attempt to be cast into a string. |
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176 |
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177 Attempts to mimic behavior of original class, including operands. |
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178 |
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179 To ensure proper handling of e.g. subclass checks, the *wrap_with_safe_string()* |
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180 method should be used. |
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181 |
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182 This wrapping occurs in a recursive/parasitic fashion, as all called attributes of |
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183 the originally wrapped object will also be wrapped and sanitized, unless the attribute |
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184 is of a type found in __DONT_SANITIZE_TYPES__ + __DONT_WRAP_TYPES__, where e.g. ~(strings |
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185 will still be sanitized, but not wrapped), and e.g. integers will have neither. |
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186 """ |
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187 __UNSANITIZED_ATTRIBUTE_NAME__ = 'unsanitized' |
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188 __NO_WRAP_NAMES__ = ['__safe_string_wrapper_function__', '__class__', __UNSANITIZED_ATTRIBUTE_NAME__] |
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189 |
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190 def __new__(cls, *arg, **kwd): |
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191 # We need to define a __new__ since, we are subclassing from e.g. immutable str, which internally sets data |
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192 # that will be used when other + this (this + other is handled by __add__) |
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193 try: |
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194 sanitized_value = sanitize_lists_to_string(arg[0], valid_characters=VALID_CHARACTERS, character_map=CHARACTER_MAP) |
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195 return super().__new__(cls, sanitized_value) |
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196 except TypeError: |
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197 # Class to be wrapped takes no parameters. |
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198 # This is pefectly normal for mutable types. |
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199 return super().__new__(cls) |
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200 |
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201 def __init__(self, value, safe_string_wrapper_function=wrap_with_safe_string): |
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202 self.unsanitized = value |
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203 self.__safe_string_wrapper_function__ = safe_string_wrapper_function |
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204 |
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205 def __str__(self): |
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206 return sanitize_lists_to_string(self.unsanitized, valid_characters=VALID_CHARACTERS, character_map=CHARACTER_MAP) |
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207 |
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208 def __repr__(self): |
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209 return "{} object at {:x} on: {}".format(sanitize_lists_to_string(self.__class__.__name__, valid_characters=VALID_CHARACTERS, character_map=CHARACTER_MAP), id(self), sanitize_lists_to_string(repr(self.unsanitized), valid_characters=VALID_CHARACTERS, character_map=CHARACTER_MAP)) |
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210 |
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211 def __lt__(self, other): |
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212 while isinstance(other, SafeStringWrapper): |
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213 other = other.unsanitized |
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214 return self.unsanitized < other |
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215 |
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216 def __le__(self, other): |
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217 while isinstance(other, SafeStringWrapper): |
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218 other = other.unsanitized |
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219 return self.unsanitized <= other |
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220 |
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221 def __eq__(self, other): |
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222 while isinstance(other, SafeStringWrapper): |
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223 other = other.unsanitized |
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224 return self.unsanitized == other |
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225 |
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226 def __ne__(self, other): |
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227 while isinstance(other, SafeStringWrapper): |
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228 other = other.unsanitized |
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229 return self.unsanitized != other |
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230 |
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231 def __gt__(self, other): |
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232 while isinstance(other, SafeStringWrapper): |
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233 other = other.unsanitized |
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234 return self.unsanitized > other |
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235 |
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236 def __ge__(self, other): |
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237 while isinstance(other, SafeStringWrapper): |
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238 other = other.unsanitized |
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239 return self.unsanitized >= other |
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240 |
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241 def __cmp__(self, other): |
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242 while isinstance(other, SafeStringWrapper): |
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243 other = other.unsanitized |
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244 return cmp(self.unsanitized, other) |
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245 |
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246 # Do not implement __rcmp__, python 2.2 < 2.6 |
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247 |
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248 def __hash__(self): |
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249 return hash(self.unsanitized) |
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250 |
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251 def __bool__(self): |
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252 return bool(self.unsanitized) |
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253 __nonzero__ = __bool__ |
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254 |
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255 # Do not implement __unicode__, we will rely on __str__ |
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256 |
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257 def __getattr__(self, name): |
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258 if name in SafeStringWrapper.__NO_WRAP_NAMES__: |
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259 # FIXME: is this ever reached? |
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260 return object.__getattribute__(self, name) |
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261 return self.__safe_string_wrapper_function__(getattr(self.unsanitized, name)) |
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262 |
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263 def __setattr__(self, name, value): |
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264 if name in SafeStringWrapper.__NO_WRAP_NAMES__: |
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265 return object.__setattr__(self, name, value) |
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266 return setattr(self.unsanitized, name, value) |
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267 |
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268 def __delattr__(self, name): |
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269 if name in SafeStringWrapper.__NO_WRAP_NAMES__: |
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270 return object.__delattr__(self, name) |
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271 return delattr(self.unsanitized, name) |
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272 |
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273 def __getattribute__(self, name): |
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274 if name in SafeStringWrapper.__NO_WRAP_NAMES__: |
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275 return object.__getattribute__(self, name) |
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276 return self.__safe_string_wrapper_function__(getattr(object.__getattribute__(self, 'unsanitized'), name)) |
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277 |
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278 # Skip Descriptors |
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279 |
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280 # Skip __slots__ |
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281 |
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282 # Don't need to define a metaclass, we'll use the helper function to handle with subclassing for e.g. isinstance() |
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283 |
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284 # Revisit: |
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285 # __instancecheck__ |
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286 # __subclasscheck__ |
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287 # We are using a helper class to create dynamic subclasses to handle class checks |
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288 |
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289 # We address __call__ as needed based upon unsanitized, through the use of a CallableSafeStringWrapper class |
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290 |
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291 def __len__(self): |
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292 original_value = self.unsanitized |
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293 while isinstance(original_value, SafeStringWrapper): |
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294 original_value = self.unsanitized |
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295 return len(self.unsanitized) |
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296 |
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297 def __getitem__(self, key): |
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298 return self.__safe_string_wrapper_function__(self.unsanitized[key]) |
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299 |
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300 def __setitem__(self, key, value): |
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301 while isinstance(value, SafeStringWrapper): |
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302 value = value.unsanitized |
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303 self.unsanitized[key] = value |
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304 |
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305 def __delitem__(self, key): |
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306 del self.unsanitized[key] |
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307 |
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308 def __iter__(self): |
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309 return iter(map(self.__safe_string_wrapper_function__, iter(self.unsanitized))) |
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310 |
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311 # Do not implement __reversed__ |
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312 |
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313 def __contains__(self, item): |
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314 # FIXME: Do we need to consider if item is/isn't or does/doesn't contain SafeStringWrapper? |
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315 # When considering e.g. nested lists/dicts/etc, this gets complicated |
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316 while isinstance(item, SafeStringWrapper): |
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317 item = item.unsanitized |
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318 return item in self.unsanitized |
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319 |
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320 # Not sure that we need these slice methods, but will provide anyway |
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321 def __getslice__(self, i, j): |
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322 return self.__safe_string_wrapper_function__(self.unsanitized[i:j]) |
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323 |
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324 def __setslice__(self, i, j, value): |
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325 self.unsanitized[i:j] = value |
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326 |
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327 def __delslice__(self, i, j): |
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328 del self.unsanitized[i:j] |
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329 |
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330 def __add__(self, other): |
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331 while isinstance(other, SafeStringWrapper): |
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332 other = other.unsanitized |
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333 return self.__safe_string_wrapper_function__(self.unsanitized + other) |
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334 |
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335 def __sub__(self, other): |
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336 while isinstance(other, SafeStringWrapper): |
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337 other = other.unsanitized |
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338 return self.__safe_string_wrapper_function__(self.unsanitized - other) |
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339 |
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340 def __mul__(self, other): |
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341 while isinstance(other, SafeStringWrapper): |
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342 other = other.unsanitized |
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343 return self.__safe_string_wrapper_function__(self.unsanitized * other) |
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344 |
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345 def __floordiv__(self, other): |
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346 while isinstance(other, SafeStringWrapper): |
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347 other = other.unsanitized |
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348 return self.__safe_string_wrapper_function__(self.unsanitized // other) |
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349 |
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350 def __mod__(self, other): |
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351 while isinstance(other, SafeStringWrapper): |
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352 other = other.unsanitized |
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353 return self.__safe_string_wrapper_function__(self.unsanitized % other) |
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354 |
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355 def __divmod__(self, other): |
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356 while isinstance(other, SafeStringWrapper): |
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357 other = other.unsanitized |
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358 return self.__safe_string_wrapper_function__(divmod(self.unsanitized, other)) |
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359 |
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360 def __pow__(self, *other): |
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361 while isinstance(other, SafeStringWrapper): |
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362 other = other.unsanitized |
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363 return self.__safe_string_wrapper_function__(pow(self.unsanitized, *other)) |
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364 |
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365 def __lshift__(self, other): |
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366 while isinstance(other, SafeStringWrapper): |
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367 other = other.unsanitized |
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368 return self.__safe_string_wrapper_function__(self.unsanitized << other) |
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369 |
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370 def __rshift__(self, other): |
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371 while isinstance(other, SafeStringWrapper): |
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372 other = other.unsanitized |
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373 return self.__safe_string_wrapper_function__(self.unsanitized >> other) |
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374 |
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375 def __and__(self, other): |
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376 while isinstance(other, SafeStringWrapper): |
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377 other = other.unsanitized |
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378 return self.__safe_string_wrapper_function__(self.unsanitized & other) |
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379 |
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380 def __xor__(self, other): |
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381 while isinstance(other, SafeStringWrapper): |
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382 other = other.unsanitized |
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383 return self.__safe_string_wrapper_function__(self.unsanitized ^ other) |
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384 |
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385 def __or__(self, other): |
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386 while isinstance(other, SafeStringWrapper): |
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387 other = other.unsanitized |
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388 return self.__safe_string_wrapper_function__(self.unsanitized | other) |
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389 |
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390 def __div__(self, other): |
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391 while isinstance(other, SafeStringWrapper): |
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392 other = other.unsanitized |
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393 return self.__safe_string_wrapper_function__(self.unsanitized / other) |
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394 |
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395 def __truediv__(self, other): |
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396 while isinstance(other, SafeStringWrapper): |
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397 other = other.unsanitized |
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398 return self.__safe_string_wrapper_function__(self.unsanitized / other) |
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399 |
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400 # The only reflected operand that we will define is __rpow__, due to coercion rules complications as per docs |
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401 def __rpow__(self, other): |
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402 while isinstance(other, SafeStringWrapper): |
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403 other = other.unsanitized |
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404 return self.__safe_string_wrapper_function__(pow(other, self.unsanitized)) |
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405 |
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406 # Do not implement in-place operands |
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407 |
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408 def __neg__(self): |
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409 return self.__safe_string_wrapper_function__(-self.unsanitized) |
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410 |
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411 def __pos__(self): |
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412 return self.__safe_string_wrapper_function__(+self.unsanitized) |
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413 |
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414 def __abs__(self): |
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415 return self.__safe_string_wrapper_function__(abs(self.unsanitized)) |
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416 |
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417 def __invert__(self): |
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418 return self.__safe_string_wrapper_function__(~self.unsanitized) |
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419 |
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420 def __complex__(self): |
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421 return self.__safe_string_wrapper_function__(complex(self.unsanitized)) |
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422 |
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423 def __int__(self): |
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424 return int(self.unsanitized) |
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425 |
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426 def __float__(self): |
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427 return float(self.unsanitized) |
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428 |
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429 def __oct__(self): |
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430 return oct(self.unsanitized) |
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431 |
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432 def __hex__(self): |
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433 return hex(self.unsanitized) |
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434 |
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435 def __index__(self): |
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436 return self.unsanitized.index() |
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437 |
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438 def __coerce__(self, other): |
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439 while isinstance(other, SafeStringWrapper): |
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440 other = other.unsanitized |
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441 return coerce(self.unsanitized, other) |
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442 |
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443 def __enter__(self): |
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444 return self.unsanitized.__enter__() |
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445 |
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446 def __exit__(self, *args): |
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447 return self.unsanitized.__exit__(*args) |
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448 |
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449 |
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450 class CallableSafeStringWrapper(SafeStringWrapper): |
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451 |
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452 def __call__(self, *args, **kwds): |
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453 return self.__safe_string_wrapper_function__(self.unsanitized(*args, **kwds)) |
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454 |
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455 |
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456 # Enable pickling/deepcopy |
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457 def pickle_SafeStringWrapper(safe_object): |
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458 args = (safe_object.unsanitized, ) |
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459 cls = SafeStringWrapper |
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460 if isinstance(safe_object, CallableSafeStringWrapper): |
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461 cls = CallableSafeStringWrapper |
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462 return (cls, args) |
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463 |
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464 |
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465 copyreg.pickle(SafeStringWrapper, pickle_SafeStringWrapper, wrap_with_safe_string) |
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466 copyreg.pickle(CallableSafeStringWrapper, pickle_SafeStringWrapper, wrap_with_safe_string) |