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1 | 1 | # -*- coding: utf-8 -*- |
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2 | 2 | """Sphinx directive to support embedded IPython code. |
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3 | 3 | |
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4 | 4 | This directive allows pasting of entire interactive IPython sessions, prompts |
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5 | 5 | and all, and their code will actually get re-executed at doc build time, with |
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6 | 6 | all prompts renumbered sequentially. It also allows you to input code as a pure |
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7 | 7 | python input by giving the argument python to the directive. The output looks |
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8 | 8 | like an interactive ipython section. |
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9 | 9 | |
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10 | 10 | To enable this directive, simply list it in your Sphinx ``conf.py`` file |
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11 | 11 | (making sure the directory where you placed it is visible to sphinx, as is |
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12 | 12 | needed for all Sphinx directives). For example, to enable syntax highlighting |
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13 | 13 | and the IPython directive:: |
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14 | 14 | |
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15 | 15 | extensions = ['IPython.sphinxext.ipython_console_highlighting', |
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16 | 16 | 'IPython.sphinxext.ipython_directive'] |
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17 | 17 | |
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18 | 18 | The IPython directive outputs code-blocks with the language 'ipython'. So |
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19 | 19 | if you do not have the syntax highlighting extension enabled as well, then |
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20 | 20 | all rendered code-blocks will be uncolored. By default this directive assumes |
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21 | 21 | that your prompts are unchanged IPython ones, but this can be customized. |
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22 | 22 | The configurable options that can be placed in conf.py are: |
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23 | 23 | |
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24 | 24 | ipython_savefig_dir: |
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25 | 25 | The directory in which to save the figures. This is relative to the |
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26 | 26 | Sphinx source directory. The default is `html_static_path`. |
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27 | 27 | ipython_rgxin: |
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28 | 28 | The compiled regular expression to denote the start of IPython input |
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29 | 29 | lines. The default is re.compile('In \[(\d+)\]:\s?(.*)\s*'). You |
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30 | 30 | shouldn't need to change this. |
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31 | 31 | ipython_rgxout: |
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32 | 32 | The compiled regular expression to denote the start of IPython output |
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33 | 33 | lines. The default is re.compile('Out\[(\d+)\]:\s?(.*)\s*'). You |
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34 | 34 | shouldn't need to change this. |
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35 | 35 | ipython_promptin: |
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36 | 36 | The string to represent the IPython input prompt in the generated ReST. |
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37 | 37 | The default is 'In [%d]:'. This expects that the line numbers are used |
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38 | 38 | in the prompt. |
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39 | 39 | ipython_promptout: |
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40 | 40 | The string to represent the IPython prompt in the generated ReST. The |
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41 | 41 | default is 'Out [%d]:'. This expects that the line numbers are used |
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42 | 42 | in the prompt. |
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43 | 43 | ipython_mplbackend: |
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44 | 44 | The string which specifies if the embedded Sphinx shell should import |
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45 | 45 | Matplotlib and set the backend for each code-block. If `None`, or equal |
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46 | 46 | to '' or 'None', then `matplotlib` will not be automatically imported. If |
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47 | 47 | not `None`, then the value should specify a backend that is passed to |
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48 | 48 | `matplotlib.use()`. The default value is 'agg'. |
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49 | 49 | ipython_execlines: |
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50 | 50 | A list of strings to be exec'd for each embedded Sphinx shell. Typical |
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51 | 51 | usage is to make certain packages always available. If None, then |
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52 | 52 | `['import numpy as np', 'from pylab import *']` is used. Set this to an |
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53 | 53 | empty list if you wish to have no imports always available. |
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54 | 54 | |
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55 | 55 | As an example, to use the IPython directive when `matplotlib` is not available, |
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56 | 56 | one sets the backend to `None`:: |
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57 | 57 | |
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58 | 58 | ipython_mplbacked = None |
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59 | 59 | |
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60 | 60 | An example usage of the directive is: |
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61 | 61 | |
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62 | 62 | .. code-block:: rst |
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63 | 63 | |
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64 | 64 | .. ipython:: |
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65 | 65 | |
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66 | 66 | In [1]: x = 1 |
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67 | 67 | |
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68 | 68 | In [2]: y = x**2 |
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69 | 69 | |
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70 | 70 | In [3]: print(y) |
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71 | 71 | |
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72 | ||
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73 | 72 | See http://matplotlib.org/sampledoc/ipython_directive.html for more additional |
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74 | 73 | documentation. |
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75 | 74 | |
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76 | 75 | ToDo |
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77 | 76 | ---- |
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78 | 77 | |
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79 | 78 | - Turn the ad-hoc test() function into a real test suite. |
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80 | 79 | - Break up ipython-specific functionality from matplotlib stuff into better |
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81 | 80 | separated code. |
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82 | 81 | |
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83 | 82 | Authors |
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84 | 83 | ------- |
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85 | 84 | |
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86 | 85 | - John D Hunter: orignal author. |
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87 | 86 | - Fernando Perez: refactoring, documentation, cleanups, port to 0.11. |
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88 | 87 | - VΓ‘clavΕ milauer <eudoxos-AT-arcig.cz>: Prompt generalizations. |
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89 | 88 | - Skipper Seabold, refactoring, cleanups, pure python addition |
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90 | 89 | """ |
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91 | 90 | from __future__ import print_function |
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92 | 91 | |
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93 | 92 | #----------------------------------------------------------------------------- |
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94 | 93 | # Imports |
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95 | 94 | #----------------------------------------------------------------------------- |
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96 | 95 | |
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97 | 96 | # Stdlib |
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98 | 97 | import os |
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99 | 98 | import re |
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100 | 99 | import sys |
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101 | 100 | import tempfile |
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102 | 101 | import ast |
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103 | 102 | |
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104 | 103 | # To keep compatibility with various python versions |
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105 | 104 | try: |
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106 | 105 | from hashlib import md5 |
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107 | 106 | except ImportError: |
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108 | 107 | from md5 import md5 |
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109 | 108 | |
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110 | 109 | # Third-party |
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111 | 110 | import sphinx |
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112 | 111 | from docutils.parsers.rst import directives |
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113 | 112 | from docutils import nodes |
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114 | 113 | from sphinx.util.compat import Directive |
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115 | 114 | |
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116 | 115 | # Our own |
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117 | 116 | from IPython import Config, InteractiveShell |
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118 | 117 | from IPython.core.profiledir import ProfileDir |
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119 | 118 | from IPython.utils import io |
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120 | 119 | from IPython.utils.py3compat import PY3 |
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121 | 120 | |
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122 | 121 | if PY3: |
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123 | 122 | from io import StringIO |
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124 | 123 | else: |
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125 | 124 | from StringIO import StringIO |
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126 | 125 | |
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127 | 126 | #----------------------------------------------------------------------------- |
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128 | 127 | # Globals |
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129 | 128 | #----------------------------------------------------------------------------- |
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130 | 129 | # for tokenizing blocks |
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131 | 130 | COMMENT, INPUT, OUTPUT = range(3) |
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132 | 131 | |
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133 | 132 | #----------------------------------------------------------------------------- |
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134 | 133 | # Functions and class declarations |
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135 | 134 | #----------------------------------------------------------------------------- |
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135 | def str_to_array(s): | |
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136 | """ | |
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137 | Simplistic converter of strings from repr to float NumPy arrays. | |
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138 | ||
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139 | """ | |
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140 | import numpy as np | |
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141 | ||
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142 | # Handle infs (assumes default printoptions for NumPy) | |
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143 | s = s.replace(u'inf', u'np.inf') | |
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144 | s = s.replace(u'nan', u'np.nan') | |
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145 | ||
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146 | if s.startswith(u'array'): | |
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147 | # Remove array( and ) | |
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148 | s = s[6:-1] | |
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149 | ||
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150 | if s.startswith(u'['): | |
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151 | a = np.array(eval(s), dtype=float) | |
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152 | else: | |
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153 | # Assume its a regular float. Force 1D so we can index into it. | |
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154 | a = np.atleast_1d(float(s)) | |
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155 | return a | |
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156 | ||
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136 | 157 | def block_parser(part, rgxin, rgxout, fmtin, fmtout): |
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137 | 158 | """ |
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138 | 159 | part is a string of ipython text, comprised of at most one |
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139 | 160 | input, one ouput, comments, and blank lines. The block parser |
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140 | 161 | parses the text into a list of:: |
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141 | 162 | |
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142 | 163 | blocks = [ (TOKEN0, data0), (TOKEN1, data1), ...] |
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143 | 164 | |
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144 | 165 | where TOKEN is one of [COMMENT | INPUT | OUTPUT ] and |
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145 | 166 | data is, depending on the type of token:: |
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146 | 167 | |
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147 | 168 | COMMENT : the comment string |
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148 | 169 | |
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149 | 170 | INPUT: the (DECORATOR, INPUT_LINE, REST) where |
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150 | 171 | DECORATOR: the input decorator (or None) |
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151 | 172 | INPUT_LINE: the input as string (possibly multi-line) |
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152 | 173 | REST : any stdout generated by the input line (not OUTPUT) |
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153 | 174 | |
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154 | 175 | |
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155 | 176 | OUTPUT: the output string, possibly multi-line |
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156 | 177 | |
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157 | 178 | """ |
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158 | 179 | block = [] |
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159 | 180 | lines = part.split('\n') |
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160 | 181 | N = len(lines) |
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161 | 182 | i = 0 |
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162 | 183 | decorator = None |
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163 | 184 | while 1: |
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164 | 185 | |
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165 | 186 | if i==N: |
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166 | 187 | # nothing left to parse -- the last line |
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167 | 188 | break |
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168 | 189 | |
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169 | 190 | line = lines[i] |
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170 | 191 | i += 1 |
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171 | 192 | line_stripped = line.strip() |
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172 | 193 | if line_stripped.startswith('#'): |
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173 | 194 | block.append((COMMENT, line)) |
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174 | 195 | continue |
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175 | 196 | |
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176 | 197 | if line_stripped.startswith('@'): |
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177 | 198 | # we're assuming at most one decorator -- may need to |
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178 | 199 | # rethink |
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179 | 200 | decorator = line_stripped |
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180 | 201 | continue |
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181 | 202 | |
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182 | 203 | # does this look like an input line? |
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183 | 204 | matchin = rgxin.match(line) |
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184 | 205 | if matchin: |
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185 | 206 | lineno, inputline = int(matchin.group(1)), matchin.group(2) |
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186 | 207 | |
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187 | 208 | # the ....: continuation string |
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188 | 209 | continuation = ' %s:'%''.join(['.']*(len(str(lineno))+2)) |
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189 | 210 | Nc = len(continuation) |
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190 | 211 | # input lines can continue on for more than one line, if |
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191 | 212 | # we have a '\' line continuation char or a function call |
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192 | 213 | # echo line 'print'. The input line can only be |
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193 | 214 | # terminated by the end of the block or an output line, so |
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194 | 215 | # we parse out the rest of the input line if it is |
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195 | 216 | # multiline as well as any echo text |
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196 | 217 | |
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197 | 218 | rest = [] |
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198 | 219 | while i<N: |
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199 | 220 | |
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200 | 221 | # look ahead; if the next line is blank, or a comment, or |
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201 | 222 | # an output line, we're done |
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202 | 223 | |
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203 | 224 | nextline = lines[i] |
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204 | 225 | matchout = rgxout.match(nextline) |
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205 | 226 | #print "nextline=%s, continuation=%s, starts=%s"%(nextline, continuation, nextline.startswith(continuation)) |
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206 | 227 | if matchout or nextline.startswith('#'): |
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207 | 228 | break |
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208 | 229 | elif nextline.startswith(continuation): |
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209 | 230 | inputline += '\n' + nextline[Nc:] |
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210 | 231 | else: |
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211 | 232 | rest.append(nextline) |
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212 | 233 | i+= 1 |
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213 | 234 | |
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214 | 235 | block.append((INPUT, (decorator, inputline, '\n'.join(rest)))) |
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215 | 236 | continue |
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216 | 237 | |
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217 | 238 | # if it looks like an output line grab all the text to the end |
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218 | 239 | # of the block |
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219 | 240 | matchout = rgxout.match(line) |
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220 | 241 | if matchout: |
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221 | 242 | lineno, output = int(matchout.group(1)), matchout.group(2) |
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222 | 243 | if i<N-1: |
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223 | 244 | output = '\n'.join([output] + lines[i:]) |
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224 | 245 | |
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225 | 246 | block.append((OUTPUT, output)) |
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226 | 247 | break |
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227 | 248 | |
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228 | 249 | return block |
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229 | 250 | |
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230 | 251 | class EmbeddedSphinxShell(object): |
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231 | 252 | """An embedded IPython instance to run inside Sphinx""" |
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232 | 253 | |
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233 | 254 | def __init__(self, exec_lines=None): |
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234 | 255 | |
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235 | 256 | self.cout = StringIO() |
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236 | 257 | |
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237 | 258 | if exec_lines is None: |
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238 | 259 | exec_lines = ['import numpy as np', 'from pylab import *'] |
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239 | 260 | |
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240 | 261 | # Create config object for IPython |
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241 | 262 | config = Config() |
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242 | 263 | config.InteractiveShell.autocall = False |
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243 | 264 | config.InteractiveShell.autoindent = False |
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244 | 265 | config.InteractiveShell.colors = 'NoColor' |
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245 | 266 | |
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246 | 267 | # create a profile so instance history isn't saved |
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247 | 268 | tmp_profile_dir = tempfile.mkdtemp(prefix='profile_') |
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248 | 269 | profname = 'auto_profile_sphinx_build' |
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249 | 270 | pdir = os.path.join(tmp_profile_dir,profname) |
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250 | 271 | profile = ProfileDir.create_profile_dir(pdir) |
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251 | 272 | |
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252 | 273 | # Create and initialize global ipython, but don't start its mainloop. |
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253 | 274 | # This will persist across different EmbededSphinxShell instances. |
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254 | 275 | IP = InteractiveShell.instance(config=config, profile_dir=profile) |
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255 | 276 | |
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256 | 277 | # io.stdout redirect must be done *after* instantiating InteractiveShell |
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257 | 278 | io.stdout = self.cout |
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258 | 279 | io.stderr = self.cout |
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259 | 280 | |
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260 | 281 | # For debugging, so we can see normal output, use this: |
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261 | 282 | #from IPython.utils.io import Tee |
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262 | 283 | #io.stdout = Tee(self.cout, channel='stdout') # dbg |
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263 | 284 | #io.stderr = Tee(self.cout, channel='stderr') # dbg |
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264 | 285 | |
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265 | 286 | # Store a few parts of IPython we'll need. |
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266 | 287 | self.IP = IP |
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267 | 288 | self.user_ns = self.IP.user_ns |
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268 | 289 | self.user_global_ns = self.IP.user_global_ns |
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269 | 290 | |
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270 | 291 | self.input = '' |
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271 | 292 | self.output = '' |
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272 | 293 | |
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273 | 294 | self.is_verbatim = False |
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274 | 295 | self.is_doctest = False |
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275 | 296 | self.is_suppress = False |
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276 | 297 | |
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277 | 298 | # on the first call to the savefig decorator, we'll import |
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278 | 299 | # pyplot as plt so we can make a call to the plt.gcf().savefig |
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279 | 300 | self._pyplot_imported = False |
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280 | 301 | |
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281 | 302 | # Prepopulate the namespace. |
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282 | 303 | for line in exec_lines: |
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283 | 304 | self.process_input_line(line, store_history=False) |
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284 | 305 | |
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285 | 306 | def clear_cout(self): |
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286 | 307 | self.cout.seek(0) |
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287 | 308 | self.cout.truncate(0) |
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288 | 309 | |
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289 | 310 | def process_input_line(self, line, store_history=True): |
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290 | 311 | """process the input, capturing stdout""" |
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291 | 312 | #print "input='%s'"%self.input |
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292 | 313 | stdout = sys.stdout |
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293 | 314 | splitter = self.IP.input_splitter |
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294 | 315 | try: |
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295 | 316 | sys.stdout = self.cout |
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296 | 317 | splitter.push(line) |
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297 | 318 | more = splitter.push_accepts_more() |
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298 | 319 | if not more: |
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299 | 320 | source_raw = splitter.source_raw_reset()[1] |
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300 | 321 | self.IP.run_cell(source_raw, store_history=store_history) |
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301 | 322 | finally: |
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302 | 323 | sys.stdout = stdout |
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303 | 324 | |
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304 | 325 | def process_image(self, decorator): |
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305 | 326 | """ |
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306 | 327 | # build out an image directive like |
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307 | 328 | # .. image:: somefile.png |
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308 | 329 | # :width 4in |
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309 | 330 | # |
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310 | 331 | # from an input like |
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311 | 332 | # savefig somefile.png width=4in |
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312 | 333 | """ |
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313 | 334 | savefig_dir = self.savefig_dir |
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314 | 335 | source_dir = self.source_dir |
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315 | 336 | saveargs = decorator.split(' ') |
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316 | 337 | filename = saveargs[1] |
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317 | 338 | # insert relative path to image file in source |
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318 | 339 | outfile = os.path.relpath(os.path.join(savefig_dir,filename), |
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319 | 340 | source_dir) |
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320 | 341 | |
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321 | 342 | imagerows = ['.. image:: %s'%outfile] |
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322 | 343 | |
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323 | 344 | for kwarg in saveargs[2:]: |
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324 | 345 | arg, val = kwarg.split('=') |
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325 | 346 | arg = arg.strip() |
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326 | 347 | val = val.strip() |
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327 | 348 | imagerows.append(' :%s: %s'%(arg, val)) |
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328 | 349 | |
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329 | 350 | image_file = os.path.basename(outfile) # only return file name |
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330 | 351 | image_directive = '\n'.join(imagerows) |
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331 | 352 | return image_file, image_directive |
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332 | 353 | |
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333 | 354 | |
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334 | 355 | # Callbacks for each type of token |
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335 | 356 | def process_input(self, data, input_prompt, lineno): |
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336 | 357 | """Process data block for INPUT token.""" |
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337 | 358 | decorator, input, rest = data |
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338 | 359 | image_file = None |
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339 | 360 | image_directive = None |
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340 | 361 | #print 'INPUT:', data # dbg |
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341 | 362 | is_verbatim = decorator=='@verbatim' or self.is_verbatim |
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342 |
is_doctest = decorator |
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363 | is_doctest = (decorator is not None and \ | |
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364 | decorator.startswith('@doctest')) or self.is_doctest | |
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343 | 365 | is_suppress = decorator=='@suppress' or self.is_suppress |
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344 | 366 | is_savefig = decorator is not None and \ |
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345 | 367 | decorator.startswith('@savefig') |
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346 | 368 | |
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347 | 369 | input_lines = input.split('\n') |
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348 | 370 | if len(input_lines) > 1: |
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349 | 371 | if input_lines[-1] != "": |
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350 | 372 | input_lines.append('') # make sure there's a blank line |
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351 | 373 | # so splitter buffer gets reset |
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352 | 374 | |
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353 | 375 | continuation = ' %s:'%''.join(['.']*(len(str(lineno))+2)) |
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354 | 376 | Nc = len(continuation) |
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355 | 377 | |
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356 | 378 | if is_savefig: |
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357 | 379 | image_file, image_directive = self.process_image(decorator) |
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358 | 380 | |
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359 | 381 | ret = [] |
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360 | 382 | is_semicolon = False |
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361 | 383 | |
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362 | 384 | for i, line in enumerate(input_lines): |
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363 | 385 | if line.endswith(';'): |
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364 | 386 | is_semicolon = True |
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365 | 387 | |
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366 | 388 | if i==0: |
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367 | 389 | # process the first input line |
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368 | 390 | if is_verbatim: |
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369 | 391 | self.process_input_line('') |
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370 | 392 | self.IP.execution_count += 1 # increment it anyway |
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371 | 393 | else: |
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372 | 394 | # only submit the line in non-verbatim mode |
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373 | 395 | self.process_input_line(line, store_history=True) |
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374 | 396 | formatted_line = '%s %s'%(input_prompt, line) |
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375 | 397 | else: |
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376 | 398 | # process a continuation line |
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377 | 399 | if not is_verbatim: |
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378 | 400 | self.process_input_line(line, store_history=True) |
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379 | 401 | |
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380 | 402 | formatted_line = '%s %s'%(continuation, line) |
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381 | 403 | |
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382 | 404 | if not is_suppress: |
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383 | 405 | ret.append(formatted_line) |
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384 | 406 | |
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385 | 407 | if not is_suppress and len(rest.strip()) and is_verbatim: |
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386 | 408 | # the "rest" is the standard output of the |
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387 | 409 | # input, which needs to be added in |
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388 | 410 | # verbatim mode |
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389 | 411 | ret.append(rest) |
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390 | 412 | |
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391 | 413 | self.cout.seek(0) |
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392 | 414 | output = self.cout.read() |
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393 | 415 | if not is_suppress and not is_semicolon: |
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394 | 416 | ret.append(output) |
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395 | 417 | elif is_semicolon: # get spacing right |
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396 | 418 | ret.append('') |
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397 | 419 | |
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398 | 420 | self.cout.truncate(0) |
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399 | return (ret, input_lines, output, is_doctest, image_file, | |
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421 | return (ret, input_lines, output, is_doctest, decorator, image_file, | |
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400 | 422 | image_directive) |
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401 | 423 | #print 'OUTPUT', output # dbg |
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402 | 424 | |
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403 | 425 | def process_output(self, data, output_prompt, |
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404 | input_lines, output, is_doctest, image_file): | |
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426 | input_lines, output, is_doctest, decorator, image_file): | |
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405 | 427 | """Process data block for OUTPUT token.""" |
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406 | if is_doctest: | |
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407 | submitted = data.strip() | |
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408 | found = output | |
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409 | if found is not None: | |
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410 | found = found.strip() | |
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411 | ||
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412 | # XXX - fperez: in 0.11, 'output' never comes with the prompt | |
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413 | # in it, just the actual output text. So I think all this code | |
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414 | # can be nuked... | |
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415 | ||
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416 | # the above comment does not appear to be accurate... (minrk) | |
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428 | if is_doctest and output is not None: | |
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417 | 429 | |
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418 |
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419 | if ind<0: | |
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420 | e='output prompt="%s" does not match out line=%s' % \ | |
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421 | (output_prompt, found) | |
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422 | raise RuntimeError(e) | |
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423 | found = found[len(output_prompt):].strip() | |
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430 | found = output | |
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431 | found = found.strip() | |
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432 | submitted = data.strip() | |
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424 | 433 | |
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425 | if found!=submitted: | |
|
426 | e = ('doctest failure for input_lines="%s" with ' | |
|
427 | 'found_output="%s" and submitted output="%s"' % | |
|
428 | (input_lines, found, submitted) ) | |
|
434 | # Make sure the output contains the output prompt. | |
|
435 | ind = found.find(output_prompt) | |
|
436 | if ind < 0: | |
|
437 | e = ('output prompt="{0}" does ' | |
|
438 | 'not match out line={1}'.format(output_prompt, found)) | |
|
439 | raise RuntimeError(e) | |
|
440 | found = found[len(output_prompt):].strip() | |
|
441 | ||
|
442 | # Handle the actual doctest comparison. | |
|
443 | if decorator.strip() == '@doctest': | |
|
444 | # Standard doctest | |
|
445 | if found != submitted: | |
|
446 | e = ('doctest failure for input_lines="{0}" with ' | |
|
447 | 'found_output="{1}" and submitted ' | |
|
448 | 'output="{2}"'.format(input_lines, found, submitted) ) | |
|
429 | 449 | raise RuntimeError(e) |
|
430 | #print 'doctest PASSED for input_lines="%s" with found_output="%s" and submitted output="%s"'%(input_lines, found, submitted) | |
|
450 | else: | |
|
451 | self.specialized_doctest(decorator, input_lines, | |
|
452 | found, submitted) | |
|
431 | 453 | |
|
432 | 454 | def process_comment(self, data): |
|
433 | 455 | """Process data fPblock for COMMENT token.""" |
|
434 | 456 | if not self.is_suppress: |
|
435 | 457 | return [data] |
|
436 | 458 | |
|
437 | 459 | def save_image(self, image_file): |
|
438 | 460 | """ |
|
439 | 461 | Saves the image file to disk. |
|
440 | 462 | """ |
|
441 | 463 | self.ensure_pyplot() |
|
442 | 464 | command = 'plt.gcf().savefig("%s")'%image_file |
|
443 | 465 | #print 'SAVEFIG', command # dbg |
|
444 | 466 | self.process_input_line('bookmark ipy_thisdir', store_history=False) |
|
445 | 467 | self.process_input_line('cd -b ipy_savedir', store_history=False) |
|
446 | 468 | self.process_input_line(command, store_history=False) |
|
447 | 469 | self.process_input_line('cd -b ipy_thisdir', store_history=False) |
|
448 | 470 | self.process_input_line('bookmark -d ipy_thisdir', store_history=False) |
|
449 | 471 | self.clear_cout() |
|
450 | 472 | |
|
451 | ||
|
452 | 473 | def process_block(self, block): |
|
453 | 474 | """ |
|
454 | 475 | process block from the block_parser and return a list of processed lines |
|
455 | 476 | """ |
|
456 | 477 | ret = [] |
|
457 | 478 | output = None |
|
458 | 479 | input_lines = None |
|
459 | 480 | lineno = self.IP.execution_count |
|
460 | 481 | |
|
461 | 482 | input_prompt = self.promptin%lineno |
|
462 | 483 | output_prompt = self.promptout%lineno |
|
463 | 484 | image_file = None |
|
464 | 485 | image_directive = None |
|
465 | 486 | |
|
466 | 487 | for token, data in block: |
|
467 | 488 | if token==COMMENT: |
|
468 | 489 | out_data = self.process_comment(data) |
|
469 | 490 | elif token==INPUT: |
|
470 |
(out_data, input_lines, output, is_doctest, |
|
|
471 | image_directive) = \ | |
|
491 | (out_data, input_lines, output, is_doctest, decorator, | |
|
492 | image_file, image_directive) = \ | |
|
472 | 493 | self.process_input(data, input_prompt, lineno) |
|
473 | 494 | elif token==OUTPUT: |
|
474 | 495 | out_data = \ |
|
475 | 496 | self.process_output(data, output_prompt, |
|
476 | 497 | input_lines, output, is_doctest, |
|
477 | image_file) | |
|
498 | decorator, image_file) | |
|
478 | 499 | if out_data: |
|
479 | 500 | ret.extend(out_data) |
|
480 | 501 | |
|
481 | 502 | # save the image files |
|
482 | 503 | if image_file is not None: |
|
483 | 504 | self.save_image(image_file) |
|
484 | 505 | |
|
485 | 506 | return ret, image_directive |
|
486 | 507 | |
|
487 | 508 | def ensure_pyplot(self): |
|
488 | 509 | if self._pyplot_imported: |
|
489 | 510 | return |
|
490 | 511 | self.process_input_line('import matplotlib.pyplot as plt', |
|
491 | 512 | store_history=False) |
|
513 | self._pyplot_imported = True | |
|
492 | 514 | |
|
493 | 515 | def process_pure_python(self, content): |
|
494 | 516 | """ |
|
495 | content is a list of strings. it is unedited directive conent | |
|
517 | content is a list of strings. it is unedited directive content | |
|
496 | 518 | |
|
497 | 519 | This runs it line by line in the InteractiveShell, prepends |
|
498 | 520 | prompts as needed capturing stderr and stdout, then returns |
|
499 | 521 | the content as a list as if it were ipython code |
|
500 | 522 | """ |
|
501 | 523 | output = [] |
|
502 | 524 | savefig = False # keep up with this to clear figure |
|
503 | 525 | multiline = False # to handle line continuation |
|
504 | 526 | multiline_start = None |
|
505 | 527 | fmtin = self.promptin |
|
506 | 528 | |
|
507 | 529 | ct = 0 |
|
508 | 530 | |
|
509 | 531 | for lineno, line in enumerate(content): |
|
510 | 532 | |
|
511 | 533 | line_stripped = line.strip() |
|
512 | 534 | if not len(line): |
|
513 | 535 | output.append(line) |
|
514 | 536 | continue |
|
515 | 537 | |
|
516 | 538 | # handle decorators |
|
517 | 539 | if line_stripped.startswith('@'): |
|
518 | 540 | output.extend([line]) |
|
519 | 541 | if 'savefig' in line: |
|
520 | 542 | savefig = True # and need to clear figure |
|
521 | 543 | continue |
|
522 | 544 | |
|
523 | 545 | # handle comments |
|
524 | 546 | if line_stripped.startswith('#'): |
|
525 | 547 | output.extend([line]) |
|
526 | 548 | continue |
|
527 | 549 | |
|
528 | 550 | # deal with lines checking for multiline |
|
529 | 551 | continuation = u' %s:'% ''.join(['.']*(len(str(ct))+2)) |
|
530 | 552 | if not multiline: |
|
531 | 553 | modified = u"%s %s" % (fmtin % ct, line_stripped) |
|
532 | 554 | output.append(modified) |
|
533 | 555 | ct += 1 |
|
534 | 556 | try: |
|
535 | 557 | ast.parse(line_stripped) |
|
536 | 558 | output.append(u'') |
|
537 | 559 | except Exception: # on a multiline |
|
538 | 560 | multiline = True |
|
539 | 561 | multiline_start = lineno |
|
540 | 562 | else: # still on a multiline |
|
541 | 563 | modified = u'%s %s' % (continuation, line) |
|
542 | 564 | output.append(modified) |
|
543 | 565 | |
|
544 | 566 | # if the next line is indented, it should be part of multiline |
|
545 | 567 | if len(content) > lineno + 1: |
|
546 | 568 | nextline = content[lineno + 1] |
|
547 | 569 | if len(nextline) - len(nextline.lstrip()) > 3: |
|
548 | 570 | continue |
|
549 | 571 | try: |
|
550 | 572 | mod = ast.parse( |
|
551 | 573 | '\n'.join(content[multiline_start:lineno+1])) |
|
552 | 574 | if isinstance(mod.body[0], ast.FunctionDef): |
|
553 | 575 | # check to see if we have the whole function |
|
554 | 576 | for element in mod.body[0].body: |
|
555 | 577 | if isinstance(element, ast.Return): |
|
556 | 578 | multiline = False |
|
557 | 579 | else: |
|
558 | 580 | output.append(u'') |
|
559 | 581 | multiline = False |
|
560 | 582 | except Exception: |
|
561 | 583 | pass |
|
562 | 584 | |
|
563 | 585 | if savefig: # clear figure if plotted |
|
564 | 586 | self.ensure_pyplot() |
|
565 | 587 | self.process_input_line('plt.clf()', store_history=False) |
|
566 | 588 | self.clear_cout() |
|
567 | 589 | savefig = False |
|
568 | 590 | |
|
569 | 591 | return output |
|
570 | 592 | |
|
593 | def specialized_doctest(self, decorator, input_lines, found, submitted): | |
|
594 | """ | |
|
595 | Perform a specialized doctest. | |
|
596 | ||
|
597 | """ | |
|
598 | # Requires NumPy | |
|
599 | import numpy as np | |
|
600 | ||
|
601 | valid_types = set(['float']) | |
|
602 | ||
|
603 | args = decorator.split() | |
|
604 | ||
|
605 | doctest_type = args[1] | |
|
606 | if doctest_type not in valid_types: | |
|
607 | e = "Invalid option to @doctest: {0}".format(doctest_type) | |
|
608 | raise Exception(e) | |
|
609 | ||
|
610 | if len(args) == 2: | |
|
611 | rtol = 1e-05 | |
|
612 | atol = 1e-08 | |
|
613 | else: | |
|
614 | # Both must be specified if any are specified. | |
|
615 | try: | |
|
616 | rtol = float(args[2]) | |
|
617 | atol = float(args[3]) | |
|
618 | except IndexError: | |
|
619 | e = ("Both `rtol` and `atol` must be specified " | |
|
620 | "if either are specified: {0}".format(args)) | |
|
621 | raise IndexError(e) | |
|
622 | ||
|
623 | try: | |
|
624 | submitted = str_to_array(submitted) | |
|
625 | found = str_to_array(found) | |
|
626 | except: | |
|
627 | # For example, if the array is huge and there are ellipsis in it. | |
|
628 | error = True | |
|
629 | else: | |
|
630 | found_isnan = np.isnan(found) | |
|
631 | submitted_isnan = np.isnan(submitted) | |
|
632 | error = not np.allclose(found_isnan, submitted_isnan) | |
|
633 | error |= not np.allclose(found[~found_isnan], | |
|
634 | submitted[~submitted_isnan], | |
|
635 | rtol=rtol, atol=atol) | |
|
636 | ||
|
637 | if error: | |
|
638 | e = ('doctest float comparison failure for input_lines="{0}" with ' | |
|
639 | 'found_output="{1}" and submitted ' | |
|
640 | 'output="{2}"'.format(input_lines, found, submitted) ) | |
|
641 | raise RuntimeError(e) | |
|
642 | ||
|
643 | ||
|
571 | 644 | class IPythonDirective(Directive): |
|
572 | 645 | |
|
573 | 646 | has_content = True |
|
574 | 647 | required_arguments = 0 |
|
575 | 648 | optional_arguments = 4 # python, suppress, verbatim, doctest |
|
576 | 649 | final_argumuent_whitespace = True |
|
577 | 650 | option_spec = { 'python': directives.unchanged, |
|
578 | 651 | 'suppress' : directives.flag, |
|
579 | 652 | 'verbatim' : directives.flag, |
|
580 | 653 | 'doctest' : directives.flag, |
|
581 | 654 | } |
|
582 | 655 | |
|
583 | 656 | shell = None |
|
584 | 657 | |
|
585 | 658 | seen_docs = set() |
|
586 | 659 | |
|
587 | 660 | def get_config_options(self): |
|
588 | 661 | # contains sphinx configuration variables |
|
589 | 662 | config = self.state.document.settings.env.config |
|
590 | 663 | |
|
591 | 664 | # get config variables to set figure output directory |
|
592 | 665 | confdir = self.state.document.settings.env.app.confdir |
|
593 | 666 | savefig_dir = config.ipython_savefig_dir |
|
594 | 667 | source_dir = os.path.dirname(self.state.document.current_source) |
|
595 | 668 | if savefig_dir is None: |
|
596 | 669 | savefig_dir = config.html_static_path |
|
597 | 670 | if isinstance(savefig_dir, list): |
|
598 | 671 | savefig_dir = savefig_dir[0] # safe to assume only one path? |
|
599 | 672 | savefig_dir = os.path.join(confdir, savefig_dir) |
|
600 | 673 | |
|
601 | 674 | # get regex and prompt stuff |
|
602 | 675 | rgxin = config.ipython_rgxin |
|
603 | 676 | rgxout = config.ipython_rgxout |
|
604 | 677 | promptin = config.ipython_promptin |
|
605 | 678 | promptout = config.ipython_promptout |
|
606 | 679 | mplbackend = config.ipython_mplbackend |
|
607 | 680 | exec_lines = config.ipython_execlines |
|
608 | 681 | |
|
609 | 682 | return (savefig_dir, source_dir, rgxin, rgxout, |
|
610 | 683 | promptin, promptout, mplbackend, exec_lines) |
|
611 | 684 | |
|
612 | 685 | def setup(self): |
|
613 | 686 | # Get configuration values. |
|
614 | 687 | (savefig_dir, source_dir, rgxin, rgxout, promptin, |
|
615 | 688 | promptout, mplbackend, exec_lines) = self.get_config_options() |
|
616 | 689 | |
|
617 | 690 | if self.shell is None: |
|
618 | 691 | |
|
619 | 692 | if mplbackend: |
|
620 | 693 | import matplotlib |
|
621 | 694 | # Repeated calls to use() will not hurt us since `mplbackend` |
|
622 | 695 | # is the same each time. |
|
623 | 696 | matplotlib.use(mplbackend) |
|
624 | 697 | |
|
625 | 698 | # Must be called after (potentially) importing matplotlib and |
|
626 | 699 | # setting its backend since exec_lines might import pylab. |
|
627 | 700 | self.shell = EmbeddedSphinxShell(exec_lines) |
|
628 | 701 | |
|
629 | 702 | # reset the execution count if we haven't processed this doc |
|
630 | 703 | #NOTE: this may be borked if there are multiple seen_doc tmp files |
|
631 | 704 | #check time stamp? |
|
632 | 705 | if not self.state.document.current_source in self.seen_docs: |
|
633 | 706 | self.shell.IP.history_manager.reset() |
|
634 | 707 | self.shell.IP.execution_count = 1 |
|
635 | 708 | self.seen_docs.add(self.state.document.current_source) |
|
636 | 709 | |
|
637 | 710 | # and attach to shell so we don't have to pass them around |
|
638 | 711 | self.shell.rgxin = rgxin |
|
639 | 712 | self.shell.rgxout = rgxout |
|
640 | 713 | self.shell.promptin = promptin |
|
641 | 714 | self.shell.promptout = promptout |
|
642 | 715 | self.shell.savefig_dir = savefig_dir |
|
643 | 716 | self.shell.source_dir = source_dir |
|
644 | 717 | |
|
645 | 718 | # setup bookmark for saving figures directory |
|
646 | 719 | self.shell.process_input_line('bookmark ipy_savedir %s'%savefig_dir, |
|
647 | 720 | store_history=False) |
|
648 | 721 | self.shell.clear_cout() |
|
649 | 722 | |
|
650 | 723 | return rgxin, rgxout, promptin, promptout |
|
651 | 724 | |
|
652 | 725 | |
|
653 | 726 | def teardown(self): |
|
654 | 727 | # delete last bookmark |
|
655 | 728 | self.shell.process_input_line('bookmark -d ipy_savedir', |
|
656 | 729 | store_history=False) |
|
657 | 730 | self.shell.clear_cout() |
|
658 | 731 | |
|
659 | 732 | def run(self): |
|
660 | 733 | debug = False |
|
661 | 734 | |
|
662 | 735 | #TODO, any reason block_parser can't be a method of embeddable shell |
|
663 | 736 | # then we wouldn't have to carry these around |
|
664 | 737 | rgxin, rgxout, promptin, promptout = self.setup() |
|
665 | 738 | |
|
666 | 739 | options = self.options |
|
667 | 740 | self.shell.is_suppress = 'suppress' in options |
|
668 | 741 | self.shell.is_doctest = 'doctest' in options |
|
669 | 742 | self.shell.is_verbatim = 'verbatim' in options |
|
670 | 743 | |
|
671 | 744 | # handle pure python code |
|
672 | 745 | if 'python' in self.arguments: |
|
673 | 746 | content = self.content |
|
674 | 747 | self.content = self.shell.process_pure_python(content) |
|
675 | 748 | |
|
676 | 749 | parts = '\n'.join(self.content).split('\n\n') |
|
677 | 750 | |
|
678 | 751 | lines = ['.. code-block:: ipython',''] |
|
679 | 752 | figures = [] |
|
680 | 753 | |
|
681 | 754 | for part in parts: |
|
682 | 755 | block = block_parser(part, rgxin, rgxout, promptin, promptout) |
|
683 | 756 | if len(block): |
|
684 | 757 | rows, figure = self.shell.process_block(block) |
|
685 | 758 | for row in rows: |
|
686 | 759 | lines.extend([' %s'%line for line in row.split('\n')]) |
|
687 | 760 | |
|
688 | 761 | if figure is not None: |
|
689 | 762 | figures.append(figure) |
|
690 | 763 | |
|
691 | 764 | for figure in figures: |
|
692 | 765 | lines.append('') |
|
693 | 766 | lines.extend(figure.split('\n')) |
|
694 | 767 | lines.append('') |
|
695 | 768 | |
|
696 | 769 | if len(lines)>2: |
|
697 | 770 | if debug: |
|
698 | 771 | print('\n'.join(lines)) |
|
699 | 772 | else: |
|
700 | 773 | # This is what makes the lines appear in the final output. |
|
701 | 774 | self.state_machine.insert_input( |
|
702 | 775 | lines, self.state_machine.input_lines.source(0)) |
|
703 | 776 | |
|
704 | 777 | # cleanup |
|
705 | 778 | self.teardown() |
|
706 | 779 | |
|
707 | 780 | return []#, imgnode] |
|
708 | 781 | |
|
709 | 782 | # Enable as a proper Sphinx directive |
|
710 | 783 | def setup(app): |
|
711 | 784 | setup.app = app |
|
712 | 785 | |
|
713 | 786 | app.add_directive('ipython', IPythonDirective) |
|
714 | 787 | app.add_config_value('ipython_savefig_dir', None, 'env') |
|
715 | 788 | app.add_config_value('ipython_rgxin', |
|
716 | 789 | re.compile('In \[(\d+)\]:\s?(.*)\s*'), 'env') |
|
717 | 790 | app.add_config_value('ipython_rgxout', |
|
718 | 791 | re.compile('Out\[(\d+)\]:\s?(.*)\s*'), 'env') |
|
719 | 792 | app.add_config_value('ipython_promptin', 'In [%d]:', 'env') |
|
720 | 793 | app.add_config_value('ipython_promptout', 'Out[%d]:', 'env') |
|
721 | 794 | app.add_config_value('ipython_mplbackend', 'agg', 'env') |
|
722 | 795 | app.add_config_value('ipython_execlines', None, 'env') |
|
723 | 796 | |
|
724 | 797 | # Simple smoke test, needs to be converted to a proper automatic test. |
|
725 | 798 | def test(): |
|
726 | 799 | |
|
727 | 800 | examples = [ |
|
728 | 801 | r""" |
|
729 | 802 | In [9]: pwd |
|
730 | 803 | Out[9]: '/home/jdhunter/py4science/book' |
|
731 | 804 | |
|
732 | 805 | In [10]: cd bookdata/ |
|
733 | 806 | /home/jdhunter/py4science/book/bookdata |
|
734 | 807 | |
|
735 | 808 | In [2]: from pylab import * |
|
736 | 809 | |
|
737 | 810 | In [2]: ion() |
|
738 | 811 | |
|
739 | 812 | In [3]: im = imread('stinkbug.png') |
|
740 | 813 | |
|
741 | 814 | @savefig mystinkbug.png width=4in |
|
742 | 815 | In [4]: imshow(im) |
|
743 | 816 | Out[4]: <matplotlib.image.AxesImage object at 0x39ea850> |
|
744 | 817 | |
|
745 | 818 | """, |
|
746 | 819 | r""" |
|
747 | 820 | |
|
748 | 821 | In [1]: x = 'hello world' |
|
749 | 822 | |
|
750 | 823 | # string methods can be |
|
751 | 824 | # used to alter the string |
|
752 | 825 | @doctest |
|
753 | 826 | In [2]: x.upper() |
|
754 | 827 | Out[2]: 'HELLO WORLD' |
|
755 | 828 | |
|
756 | 829 | @verbatim |
|
757 | 830 | In [3]: x.st<TAB> |
|
758 | 831 | x.startswith x.strip |
|
759 | 832 | """, |
|
760 | 833 | r""" |
|
761 | 834 | |
|
762 | 835 | In [130]: url = 'http://ichart.finance.yahoo.com/table.csv?s=CROX\ |
|
763 | 836 | .....: &d=9&e=22&f=2009&g=d&a=1&br=8&c=2006&ignore=.csv' |
|
764 | 837 | |
|
765 | 838 | In [131]: print url.split('&') |
|
766 | 839 | ['http://ichart.finance.yahoo.com/table.csv?s=CROX', 'd=9', 'e=22', 'f=2009', 'g=d', 'a=1', 'b=8', 'c=2006', 'ignore=.csv'] |
|
767 | 840 | |
|
768 | 841 | In [60]: import urllib |
|
769 | 842 | |
|
770 | 843 | """, |
|
771 | 844 | r"""\ |
|
772 | 845 | |
|
773 | 846 | In [133]: import numpy.random |
|
774 | 847 | |
|
775 | 848 | @suppress |
|
776 | 849 | In [134]: numpy.random.seed(2358) |
|
777 | 850 | |
|
778 | 851 | @doctest |
|
779 | 852 | In [135]: numpy.random.rand(10,2) |
|
780 | 853 | Out[135]: |
|
781 | 854 | array([[ 0.64524308, 0.59943846], |
|
782 | 855 | [ 0.47102322, 0.8715456 ], |
|
783 | 856 | [ 0.29370834, 0.74776844], |
|
784 | 857 | [ 0.99539577, 0.1313423 ], |
|
785 | 858 | [ 0.16250302, 0.21103583], |
|
786 | 859 | [ 0.81626524, 0.1312433 ], |
|
787 | 860 | [ 0.67338089, 0.72302393], |
|
788 | 861 | [ 0.7566368 , 0.07033696], |
|
789 | 862 | [ 0.22591016, 0.77731835], |
|
790 | 863 | [ 0.0072729 , 0.34273127]]) |
|
791 | 864 | |
|
792 | 865 | """, |
|
793 | 866 | |
|
794 | 867 | r""" |
|
795 | 868 | In [106]: print x |
|
796 | 869 | jdh |
|
797 | 870 | |
|
798 | 871 | In [109]: for i in range(10): |
|
799 | 872 | .....: print i |
|
800 | 873 | .....: |
|
801 | 874 | .....: |
|
802 | 875 | 0 |
|
803 | 876 | 1 |
|
804 | 877 | 2 |
|
805 | 878 | 3 |
|
806 | 879 | 4 |
|
807 | 880 | 5 |
|
808 | 881 | 6 |
|
809 | 882 | 7 |
|
810 | 883 | 8 |
|
811 | 884 | 9 |
|
812 | 885 | """, |
|
813 | 886 | |
|
814 | 887 | r""" |
|
815 | 888 | |
|
816 | 889 | In [144]: from pylab import * |
|
817 | 890 | |
|
818 | 891 | In [145]: ion() |
|
819 | 892 | |
|
820 | 893 | # use a semicolon to suppress the output |
|
821 | 894 | @savefig test_hist.png width=4in |
|
822 | 895 | In [151]: hist(np.random.randn(10000), 100); |
|
823 | 896 | |
|
824 | 897 | |
|
825 | 898 | @savefig test_plot.png width=4in |
|
826 | 899 | In [151]: plot(np.random.randn(10000), 'o'); |
|
827 | 900 | """, |
|
828 | 901 | |
|
829 | 902 | r""" |
|
830 | 903 | # use a semicolon to suppress the output |
|
831 | 904 | In [151]: plt.clf() |
|
832 | 905 | |
|
833 | 906 | @savefig plot_simple.png width=4in |
|
834 | 907 | In [151]: plot([1,2,3]) |
|
835 | 908 | |
|
836 | 909 | @savefig hist_simple.png width=4in |
|
837 | 910 | In [151]: hist(np.random.randn(10000), 100); |
|
838 | 911 | |
|
839 | 912 | """, |
|
840 | 913 | r""" |
|
841 | 914 | # update the current fig |
|
842 | 915 | In [151]: ylabel('number') |
|
843 | 916 | |
|
844 | 917 | In [152]: title('normal distribution') |
|
845 | 918 | |
|
846 | 919 | |
|
847 | 920 | @savefig hist_with_text.png |
|
848 | 921 | In [153]: grid(True) |
|
849 | 922 | |
|
923 | @doctest float | |
|
924 | In [154]: 0.1 + 0.2 | |
|
925 | Out[154]: 0.3 | |
|
926 | ||
|
927 | @doctest float | |
|
928 | In [155]: np.arange(16).reshape(4,4) | |
|
929 | Out[155]: | |
|
930 | array([[ 0, 1, 2, 3], | |
|
931 | [ 4, 5, 6, 7], | |
|
932 | [ 8, 9, 10, 11], | |
|
933 | [12, 13, 14, 15]]) | |
|
934 | ||
|
935 | In [1]: x = np.arange(16, dtype=float).reshape(4,4) | |
|
936 | ||
|
937 | In [2]: x[0,0] = np.inf | |
|
938 | ||
|
939 | In [3]: x[0,1] = np.nan | |
|
940 | ||
|
941 | @doctest float | |
|
942 | In [4]: x | |
|
943 | Out[4]: | |
|
944 | array([[ inf, nan, 2., 3.], | |
|
945 | [ 4., 5., 6., 7.], | |
|
946 | [ 8., 9., 10., 11.], | |
|
947 | [ 12., 13., 14., 15.]]) | |
|
948 | ||
|
949 | ||
|
850 | 950 | """, |
|
851 | 951 | ] |
|
852 | 952 | # skip local-file depending first example: |
|
853 | 953 | examples = examples[1:] |
|
854 | 954 | |
|
855 | 955 | #ipython_directive.DEBUG = True # dbg |
|
856 | 956 | #options = dict(suppress=True) # dbg |
|
857 | 957 | options = dict() |
|
858 | 958 | for example in examples: |
|
859 | 959 | content = example.split('\n') |
|
860 | 960 | IPythonDirective('debug', arguments=None, options=options, |
|
861 | 961 | content=content, lineno=0, |
|
862 | 962 | content_offset=None, block_text=None, |
|
863 | 963 | state=None, state_machine=None, |
|
864 | 964 | ) |
|
865 | 965 | |
|
866 | 966 | # Run test suite as a script |
|
867 | 967 | if __name__=='__main__': |
|
868 | 968 | if not os.path.isdir('_static'): |
|
869 | 969 | os.mkdir('_static') |
|
870 | 970 | test() |
|
871 | 971 | print('All OK? Check figures in _static/') |
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