1 | """ |
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2 | SAS model constructor. |
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3 | |
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4 | Small angle scattering models are defined by a set of kernel functions: |
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5 | |
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6 | *Iq(q, p1, p2, ...)* returns the scattering at q for a form with |
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7 | particular dimensions averaged over all orientations. |
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8 | |
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9 | *Iqac(qab, qc, p1, p2, ...)* returns the scattering at qab, qc |
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10 | for a rotationally symmetric form with particular dimensions. |
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11 | qab, qc are determined from shape orientation and scattering angles. |
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12 | This call is used if the shape has orientation parameters theta and phi. |
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13 | |
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14 | *Iqabc(qa, qb, qc, p1, p2, ...)* returns the scattering at qa, qb, qc |
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15 | for a form with particular dimensions. qa, qb, qc are determined from |
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16 | shape orientation and scattering angles. This call is used if the shape |
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17 | has orientation parameters theta, phi and psi. |
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18 | |
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19 | *Iqxy(qx, qy, p1, p2, ...)* returns the scattering at qx, qy. Use this |
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20 | to create an arbitrary 2D theory function, needed for q-dependent |
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21 | background functions and for models with non-uniform magnetism. |
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22 | |
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23 | *form_volume(p1, p2, ...)* returns the volume of the form with particular |
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24 | dimension, or 1.0 if no volume normalization is required. |
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25 | |
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26 | *ER(p1, p2, ...)* returns the effective radius of the form with |
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27 | particular dimensions. |
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28 | |
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29 | *VR(p1, p2, ...)* returns the volume ratio for core-shell style forms. |
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30 | |
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31 | #define INVALID(v) (expr) returns False if v.parameter is invalid |
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32 | for some parameter or other (e.g., v.bell_radius < v.radius). If |
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33 | necessary, the expression can call a function. |
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34 | |
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35 | These functions are defined in a kernel module .py script and an associated |
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36 | set of .c files. The model constructor will use them to create models with |
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37 | polydispersity across volume and orientation parameters, and provide |
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38 | scale and background parameters for each model. |
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39 | |
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40 | C code should be stylized C-99 functions written for OpenCL. All functions |
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41 | need prototype declarations even if the are defined before they are used. |
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42 | Although OpenCL supports *#include* preprocessor directives, the list of |
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43 | includes should be given as part of the metadata in the kernel module |
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44 | definition. The included files should be listed using a path relative to the |
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45 | kernel module, or if using "lib/file.c" if it is one of the standard includes |
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46 | provided with the sasmodels source. The includes need to be listed in order |
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47 | so that functions are defined before they are used. |
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48 | |
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49 | Floating point values should be declared as *double*. For single precision |
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50 | calculations, *double* will be replaced by *float*. The single precision |
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51 | conversion will also tag floating point constants with "f" to make them |
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52 | single precision constants. When using integral values in floating point |
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53 | expressions, they should be expressed as floating point values by including |
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54 | a decimal point. This includes 0., 1. and 2. |
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55 | |
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56 | OpenCL has a *sincos* function which can improve performance when both |
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57 | the *sin* and *cos* values are needed for a particular argument. Since |
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58 | this function does not exist in C99, all use of *sincos* should be |
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59 | replaced by the macro *SINCOS(value, sn, cn)* where *sn* and *cn* are |
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60 | previously declared *double* variables. When compiled for systems without |
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61 | OpenCL, *SINCOS* will be replaced by *sin* and *cos* calls. If *value* is |
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62 | an expression, it will appear twice in this case; whether or not it will be |
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63 | evaluated twice depends on the quality of the compiler. |
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64 | |
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65 | If the input parameters are invalid, the scattering calculator should |
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66 | return a negative number. Particularly with polydispersity, there are |
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67 | some sets of shape parameters which lead to nonsensical forms, such |
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68 | as a capped cylinder where the cap radius is smaller than the |
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69 | cylinder radius. The polydispersity calculation will ignore these points, |
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70 | effectively chopping the parameter weight distributions at the boundary |
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71 | of the infeasible region. The resulting scattering will be set to |
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72 | background. This will work correctly even when polydispersity is off. |
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73 | |
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74 | *ER* and *VR* are python functions which operate on parameter vectors. |
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75 | The constructor code will generate the necessary vectors for computing |
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76 | them with the desired polydispersity. |
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77 | The kernel module must set variables defining the kernel meta data: |
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78 | |
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79 | *id* is an implicit variable formed from the filename. It will be |
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80 | a valid python identifier, and will be used as the reference into |
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81 | the html documentation, with '_' replaced by '-'. |
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82 | |
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83 | *name* is the model name as displayed to the user. If it is missing, |
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84 | it will be constructed from the id. |
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85 | |
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86 | *title* is a short description of the model, suitable for a tool tip, |
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87 | or a one line model summary in a table of models. |
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88 | |
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89 | *description* is an extended description of the model to be displayed |
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90 | while the model parameters are being edited. |
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91 | |
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92 | *parameters* is the list of parameters. Parameters in the kernel |
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93 | functions must appear in the same order as they appear in the |
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94 | parameters list. Two additional parameters, *scale* and *background* |
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95 | are added to the beginning of the parameter list. They will show up |
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96 | in the documentation as model parameters, but they are never sent to |
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97 | the kernel functions. Note that *effect_radius* and *volfraction* |
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98 | must occur first in structure factor calculations. |
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99 | |
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100 | *category* is the default category for the model. The category is |
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101 | two level structure, with the form "group:section", indicating where |
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102 | in the manual the model will be located. Models are alphabetical |
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103 | within their section. |
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104 | |
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105 | *source* is the list of C-99 source files that must be joined to |
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106 | create the OpenCL kernel functions. The files defining the functions |
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107 | need to be listed before the files which use the functions. |
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108 | |
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109 | *ER* is a python function defining the effective radius. If it is |
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110 | not present, the effective radius is 0. |
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111 | |
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112 | *VR* is a python function defining the volume ratio. If it is not |
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113 | present, the volume ratio is 1. |
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114 | |
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115 | *form_volume*, *Iq*, *Iqac*, *Iqabc* are strings containing |
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116 | the C source code for the body of the volume, Iq, and Iqac functions |
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117 | respectively. These can also be defined in the last source file. |
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118 | |
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119 | *Iq*, *Iqac*, *Iqabc* also be instead be python functions defining the |
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120 | kernel. If they are marked as *Iq.vectorized = True* then the |
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121 | kernel is passed the entire *q* vector at once, otherwise it is |
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122 | passed values one *q* at a time. The performance improvement of |
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123 | this step is significant. |
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124 | |
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125 | *demo* is a dictionary of parameter=value defining a set of |
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126 | parameters to use by default when *compare* is called. Any |
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127 | parameter not set in *demo* gets the initial value from the |
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128 | parameter list. *demo* is mostly needed to set the default |
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129 | polydispersity values for tests. |
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130 | |
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131 | A :class:`modelinfo.ModelInfo` structure is constructed from the kernel meta |
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132 | data and returned to the caller. |
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133 | |
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134 | The doc string at the start of the kernel module will be used to |
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135 | construct the model documentation web pages. Embedded figures should |
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136 | appear in the subdirectory "img" beside the model definition, and tagged |
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137 | with the kernel module name to avoid collision with other models. Some |
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138 | file systems are case-sensitive, so only use lower case characters for |
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139 | file names and extensions. |
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140 | |
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141 | Code follows the C99 standard with the following extensions and conditions:: |
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142 | |
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143 | M_PI_180 = pi/180 |
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144 | M_4PI_3 = 4pi/3 |
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145 | square(x) = x*x |
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146 | cube(x) = x*x*x |
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147 | sas_sinx_x(x) = sin(x)/x, with sin(0)/0 -> 1 |
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148 | all double precision constants must include the decimal point |
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149 | all double declarations may be converted to half, float, or long double |
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150 | FLOAT_SIZE is the number of bytes in the converted variables |
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151 | |
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152 | :func:`load_kernel_module` loads the model definition file and |
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153 | :func:`modelinfo.make_model_info` parses it. :func:`make_source` |
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154 | converts C-based model definitions to C source code, including the |
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155 | polydispersity integral. :func:`model_sources` returns the list of |
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156 | source files the model depends on, and :func:`timestamp` returns |
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157 | the latest time stamp amongst the source files (so you can check if |
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158 | the model needs to be rebuilt). |
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159 | |
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160 | The function :func:`make_doc` extracts the doc string and adds the |
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161 | parameter table to the top. *make_figure* in *sasmodels/doc/genmodel* |
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162 | creates the default figure for the model. [These two sets of code |
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163 | should mignrate into docs.py so docs can be updated in one place]. |
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164 | """ |
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165 | from __future__ import print_function |
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166 | |
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167 | # TODO: determine which functions are useful outside of generate |
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168 | #__all__ = ["model_info", "make_doc", "make_source", "convert_type"] |
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169 | |
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170 | import sys |
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171 | from os import environ |
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172 | from os.path import abspath, dirname, join as joinpath, exists, getmtime, sep |
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173 | import re |
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174 | import string |
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175 | from zlib import crc32 |
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176 | from inspect import currentframe, getframeinfo |
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177 | import logging |
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178 | |
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179 | import numpy as np # type: ignore |
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180 | |
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181 | from .modelinfo import Parameter |
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182 | from .custom import load_custom_kernel_module |
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183 | |
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184 | # pylint: disable=unused-import |
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185 | try: |
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186 | from typing import Tuple, Sequence, Iterator, Dict |
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187 | from .modelinfo import ModelInfo |
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188 | except ImportError: |
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189 | pass |
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190 | # pylint: enable=unused-import |
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191 | |
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192 | logger = logging.getLogger(__name__) |
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193 | |
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194 | # jitter projection to use in the kernel code. See explore/jitter.py |
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195 | # for details. To change it from a program, set generate.PROJECTION. |
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196 | PROJECTION = 1 |
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197 | |
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198 | def get_data_path(external_dir, target_file): |
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199 | path = abspath(dirname(__file__)) |
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200 | if exists(joinpath(path, target_file)): |
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201 | return path |
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202 | |
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203 | # check next to exe/zip file |
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204 | exepath = dirname(sys.executable) |
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205 | path = joinpath(exepath, external_dir) |
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206 | if exists(joinpath(path, target_file)): |
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207 | return path |
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208 | |
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209 | # check in py2app Contents/Resources |
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210 | path = joinpath(exepath, '..', 'Resources', external_dir) |
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211 | if exists(joinpath(path, target_file)): |
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212 | return abspath(path) |
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213 | |
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214 | raise RuntimeError('Could not find '+joinpath(external_dir, target_file)) |
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215 | |
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216 | EXTERNAL_DIR = 'sasmodels-data' |
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217 | DATA_PATH = get_data_path(EXTERNAL_DIR, 'kernel_iq.c') |
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218 | MODEL_PATH = joinpath(DATA_PATH, 'models') |
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219 | |
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220 | F16 = np.dtype('float16') |
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221 | F32 = np.dtype('float32') |
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222 | F64 = np.dtype('float64') |
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223 | try: # CRUFT: older numpy does not support float128 |
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224 | F128 = np.dtype('float128') |
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225 | except TypeError: |
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226 | F128 = None |
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227 | |
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228 | # Conversion from units defined in the parameter table for each model |
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229 | # to units displayed in the sphinx documentation. |
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230 | # This section associates the unit with the macro to use to produce the LaTex |
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231 | # code. The macro itself needs to be defined in sasmodels/doc/rst_prolog. |
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232 | # |
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233 | # NOTE: there is an RST_PROLOG at the end of this file which is NOT |
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234 | # used for the bundled documentation. Still as long as we are defining the macros |
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235 | # in two places any new addition should define the macro in both places. |
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236 | RST_UNITS = { |
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237 | "Ang": "|Ang|", |
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238 | "1/Ang": "|Ang^-1|", |
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239 | "1/Ang^2": "|Ang^-2|", |
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240 | "Ang^3": "|Ang^3|", |
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241 | "Ang^2": "|Ang^2|", |
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242 | "1e15/cm^3": "|1e15cm^3|", |
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243 | "Ang^3/mol": "|Ang^3|/mol", |
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244 | "1e-6/Ang^2": "|1e-6Ang^-2|", |
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245 | "degrees": "degree", |
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246 | "1/cm": "|cm^-1|", |
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247 | "Ang/cm": "|Ang*cm^-1|", |
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248 | "g/cm^3": "|g/cm^3|", |
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249 | "mg/m^2": "|mg/m^2|", |
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250 | "": "None", |
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251 | } |
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252 | |
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253 | # Headers for the parameters tables in th sphinx documentation |
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254 | PARTABLE_HEADERS = [ |
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255 | "Parameter", |
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256 | "Description", |
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257 | "Units", |
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258 | "Default value", |
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259 | ] |
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260 | |
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261 | # Minimum width for a default value (this is shorter than the column header |
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262 | # width, so will be ignored). |
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263 | PARTABLE_VALUE_WIDTH = 10 |
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264 | |
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265 | # Documentation header for the module, giving the model name, its short |
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266 | # description and its parameter table. The remainder of the doc comes |
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267 | # from the module docstring. |
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268 | DOC_HEADER = """.. _%(id)s: |
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269 | |
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270 | %(name)s |
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271 | ======================================================= |
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272 | |
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273 | %(title)s |
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274 | |
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275 | %(parameters)s |
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276 | |
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277 | %(returns)s |
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278 | |
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279 | %(docs)s |
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280 | """ |
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281 | |
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282 | |
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283 | def set_integration_size(info, n): |
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284 | # type: (ModelInfo, int) -> None |
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285 | """ |
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286 | Update the model definition, replacing the gaussian integration with |
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287 | a gaussian integration of a different size. |
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288 | |
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289 | Note: this really ought to be a method in modelinfo, but that leads to |
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290 | import loops. |
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291 | """ |
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292 | if info.source and any(lib.startswith('lib/gauss') for lib in info.source): |
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293 | from .gengauss import gengauss |
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294 | path = joinpath(MODEL_PATH, "lib", "gauss%d.c"%n) |
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295 | if not exists(path): |
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296 | gengauss(n, path) |
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297 | info.source = ["lib/gauss%d.c"%n if lib.startswith('lib/gauss') |
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298 | else lib for lib in info.source] |
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299 | |
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300 | def format_units(units): |
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301 | # type: (str) -> str |
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302 | """ |
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303 | Convert units into ReStructured Text format. |
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304 | """ |
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305 | return "string" if isinstance(units, list) else RST_UNITS.get(units, units) |
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306 | |
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307 | |
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308 | def make_partable(pars): |
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309 | # type: (List[Parameter]) -> str |
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310 | """ |
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311 | Generate the parameter table to include in the sphinx documentation. |
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312 | """ |
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313 | column_widths = [ |
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314 | max(len(p.name) for p in pars), |
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315 | max(len(p.description) for p in pars), |
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316 | max(len(format_units(p.units)) for p in pars), |
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317 | PARTABLE_VALUE_WIDTH, |
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318 | ] |
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319 | column_widths = [max(w, len(h)) |
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320 | for w, h in zip(column_widths, PARTABLE_HEADERS)] |
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321 | |
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322 | underbar = " ".join("="*w for w in column_widths) |
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323 | lines = [ |
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324 | underbar, |
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325 | " ".join("%-*s" % (w, h) |
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326 | for w, h in zip(column_widths, PARTABLE_HEADERS)), |
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327 | underbar, |
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328 | ] |
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329 | for p in pars: |
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330 | lines.append(" ".join([ |
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331 | "%-*s" % (column_widths[0], p.name), |
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332 | "%-*s" % (column_widths[1], p.description), |
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333 | "%-*s" % (column_widths[2], format_units(p.units)), |
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334 | "%*g" % (column_widths[3], p.default), |
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335 | ])) |
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336 | lines.append(underbar) |
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337 | return "\n".join(lines) |
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338 | |
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339 | |
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340 | def _search(search_path, filename): |
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341 | # type: (List[str], str) -> str |
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342 | """ |
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343 | Find *filename* in *search_path*. |
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344 | |
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345 | Raises ValueError if file does not exist. |
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346 | """ |
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347 | for path in search_path: |
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348 | target = joinpath(path, filename) |
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349 | if exists(target): |
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350 | return target |
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351 | raise ValueError("%r not found in %s" % (filename, search_path)) |
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352 | |
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353 | |
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354 | def model_sources(model_info): |
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355 | # type: (ModelInfo) -> List[str] |
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356 | """ |
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357 | Return a list of the sources file paths for the module. |
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358 | """ |
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359 | search_path = [dirname(model_info.filename), MODEL_PATH] |
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360 | return [_search(search_path, f) for f in model_info.source] |
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361 | |
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362 | |
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363 | def dll_timestamp(model_info): |
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364 | # type: (ModelInfo) -> int |
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365 | """ |
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366 | Return a timestamp for the model corresponding to the most recently |
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367 | changed file or dependency. |
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368 | """ |
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369 | # TODO: fails DRY; templates appear two places. |
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370 | model_templates = [joinpath(DATA_PATH, filename) |
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371 | for filename in ('kernel_header.c', 'kernel_iq.c')] |
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372 | source_files = (model_sources(model_info) |
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373 | + model_templates |
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374 | + [model_info.filename]) |
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375 | # Note: file may not exist when it is a standard model from library.zip |
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376 | times = [getmtime(f) for f in source_files if exists(f)] |
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377 | newest = max(times) if times else 0 |
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378 | return newest |
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379 | |
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380 | def ocl_timestamp(model_info): |
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381 | # type: (ModelInfo) -> int |
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382 | """ |
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383 | Return a timestamp for the model corresponding to the most recently |
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384 | changed file or dependency. |
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385 | |
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386 | Note that this does not look at the time stamps for the OpenCL header |
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387 | information since that need not trigger a recompile of the DLL. |
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388 | """ |
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389 | # TODO: fails DRY; templates appear two places. |
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390 | model_templates = [joinpath(DATA_PATH, filename) |
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391 | for filename in ('kernel_header.c', 'kernel_iq.c')] |
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392 | source_files = (model_sources(model_info) |
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393 | + model_templates |
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394 | + [model_info.filename]) |
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395 | # Note: file may not exist when it is a standard model from library.zip |
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396 | times = [getmtime(f) for f in source_files if exists(f)] |
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397 | newest = max(times) if times else 0 |
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398 | return newest |
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399 | |
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400 | def tag_source(source): |
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401 | # type: (str) -> str |
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402 | """ |
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403 | Return a unique tag for the source code. |
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404 | """ |
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405 | # Note: need 0xffffffff&val to force an unsigned 32-bit number |
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406 | try: |
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407 | source = source.encode('utf8') |
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408 | except AttributeError: # bytes has no encode attribute in python 3 |
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409 | pass |
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410 | return "%08X"%(0xffffffff&crc32(source)) |
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411 | |
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412 | def convert_type(source, dtype): |
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413 | # type: (str, np.dtype) -> str |
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414 | """ |
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415 | Convert code from double precision to the desired type. |
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416 | |
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417 | Floating point constants are tagged with 'f' for single precision or 'L' |
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418 | for long double precision. |
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419 | """ |
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420 | source = _fix_tgmath_int(source) |
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421 | if dtype == F16: |
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422 | fbytes = 2 |
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423 | source = _convert_type(source, "half", "f") |
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424 | elif dtype == F32: |
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425 | fbytes = 4 |
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426 | source = _convert_type(source, "float", "f") |
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427 | elif dtype == F64: |
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428 | fbytes = 8 |
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429 | # no need to convert if it is already double |
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430 | elif dtype == F128: |
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431 | fbytes = 16 |
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432 | source = _convert_type(source, "long double", "L") |
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433 | else: |
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434 | raise ValueError("Unexpected dtype in source conversion: %s" % dtype) |
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435 | return ("#define FLOAT_SIZE %d\n" % fbytes)+source |
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436 | |
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437 | |
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438 | def _convert_type(source, type_name, constant_flag): |
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439 | # type: (str, str, str) -> str |
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440 | """ |
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441 | Replace 'double' with *type_name* in *source*, tagging floating point |
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442 | constants with *constant_flag*. |
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443 | """ |
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444 | # Convert double keyword to float/long double/half. |
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445 | # Accept an 'n' # parameter for vector # values, where n is 2, 4, 8 or 16. |
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446 | # Assume complex numbers are represented as cdouble which is typedef'd |
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447 | # to double2. |
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448 | source = re.sub(r'(^|[^a-zA-Z0-9_]c?)double(([248]|16)?($|[^a-zA-Z0-9_]))', |
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449 | r'\1%s\2'%type_name, source) |
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450 | source = _tag_float(source, constant_flag) |
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451 | return source |
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452 | |
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453 | TGMATH_INT_RE = re.compile(r""" |
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454 | (?: # Non-capturing match; not lookbehind since pattern length is variable |
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455 | \b # word boundary |
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456 | # various math functions |
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457 | (a?(sin|cos|tan)h? | atan2 |
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458 | | erfc? | tgamma |
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459 | | exp(2|10|m1)? | log(2|10|1p)? | pow[nr]? | sqrt | rsqrt | rootn |
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460 | | fabs | fmax | fmin |
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461 | ) |
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462 | \s*[(]\s* # open parenthesis |
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463 | ) |
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464 | [+-]?(0|[1-9]\d*) # integer |
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465 | (?= # lookahead match: don't want to move from end of int |
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466 | \s*[,)] # comma or close parenthesis for end of argument |
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467 | ) # end lookahead |
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468 | """, re.VERBOSE) |
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469 | def _fix_tgmath_int(source): |
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470 | # type: (str) -> str |
---|
471 | """ |
---|
472 | Replace f(integer) with f(integer.) for sin, cos, pow, etc. |
---|
473 | |
---|
474 | OS X OpenCL complains that it can't resolve the type generic calls to |
---|
475 | the standard math functions when they are called with integer constants, |
---|
476 | but this does not happen with the Windows Intel driver for example. |
---|
477 | To avoid confusion on the matrix marketplace, automatically promote |
---|
478 | integers to floats if we recognize them in the source. |
---|
479 | |
---|
480 | The specific functions we look for are: |
---|
481 | |
---|
482 | trigonometric: sin, asin, sinh, asinh, etc., and atan2 |
---|
483 | exponential: exp, exp2, exp10, expm1, log, log2, log10, logp1 |
---|
484 | power: pow, pown, powr, sqrt, rsqrt, rootn |
---|
485 | special: erf, erfc, tgamma |
---|
486 | float: fabs, fmin, fmax |
---|
487 | |
---|
488 | Note that we don't convert the second argument of dual argument |
---|
489 | functions: atan2, fmax, fmin, pow, powr. This could potentially |
---|
490 | be a problem for pow(x, 2), but that case seems to work without change. |
---|
491 | """ |
---|
492 | out = TGMATH_INT_RE.sub(r'\g<0>.', source) |
---|
493 | return out |
---|
494 | |
---|
495 | |
---|
496 | # Floating point regular expression |
---|
497 | # |
---|
498 | # Define parts: |
---|
499 | # |
---|
500 | # E = [eE][+-]?\d+ : Exponent |
---|
501 | # P = [.] : Decimal separator |
---|
502 | # N = [1-9]\d* : Natural number, no leading zeros |
---|
503 | # Z = 0 : Zero |
---|
504 | # F = \d+ : Fractional number, maybe leading zeros |
---|
505 | # F? = \d* : Optional fractional number |
---|
506 | # |
---|
507 | # We want to reject bare natural numbers and bare decimal points, so we |
---|
508 | # need to tediously outline the cases where we have either a fraction or |
---|
509 | # an exponent: |
---|
510 | # |
---|
511 | # ( ZP | ZPF | ZE | ZPE | ZPFE | NP | NPF | NE | NPE | NPFE | PF | PFE ) |
---|
512 | # |
---|
513 | # |
---|
514 | # We can then join cases by making parts optional. The following are |
---|
515 | # some ways to do this: |
---|
516 | # |
---|
517 | # ( (Z|N)(P|PF|E|PE|PFE) | PFE? ) # Split on lead |
---|
518 | # => ( (Z|N)(PF?|(PF?)?E) | PFE? ) |
---|
519 | # ( ((Z|N)PF?|PF)E? | (Z|N)E) # Split on point |
---|
520 | # ( (ZP|ZPF|NP|NPF|PF) | (Z|ZP|ZPF|N|NP|NPF|PF)E ) # Split on E |
---|
521 | # => ( ((Z|N)PF?|PF) | ((Z|N)(PF?)? | PF) E ) |
---|
522 | FLOAT_RE = re.compile(r""" |
---|
523 | (?<!\w) # use negative lookbehind since '.' confuses \b test |
---|
524 | # use split on lead to match float ( (Z|N)(PF?|(PF?)?E) | PFE? ) |
---|
525 | ( ( 0 | [1-9]\d* ) # ( ( Z | N ) |
---|
526 | ([.]\d* | ([.]\d*)? [eE][+-]?\d+ ) # (PF? | (PF?)? E ) |
---|
527 | | [.]\d+ ([eE][+-]?\d+)? # | PF (E)? |
---|
528 | ) # ) |
---|
529 | (?!\w) # use negative lookahead since '.' confuses \b test |
---|
530 | """, re.VERBOSE) |
---|
531 | def _tag_float(source, constant_flag): |
---|
532 | # Convert floating point constants to single by adding 'f' to the end, |
---|
533 | # or long double with an 'L' suffix. OS/X complains if you don't do this. |
---|
534 | out = FLOAT_RE.sub(r'\g<0>%s'%constant_flag, source) |
---|
535 | #print("in",repr(source),"out",repr(out), constant_flag) |
---|
536 | return out |
---|
537 | |
---|
538 | def test_tag_float(): |
---|
539 | """check that floating point constants are properly identified and tagged with 'f'""" |
---|
540 | |
---|
541 | cases = """ |
---|
542 | ZP : 0. |
---|
543 | ZPF : 0.0,0.01,0.1 |
---|
544 | Z E: 0e+001 |
---|
545 | ZP E: 0.E0 |
---|
546 | ZPFE: 0.13e-031 |
---|
547 | NP : 1., 12. |
---|
548 | NPF : 1.0001, 1.1, 1.0 |
---|
549 | N E: 1e0, 37E-080 |
---|
550 | NP E: 1.e0, 37.E-080 |
---|
551 | NPFE: 845.017e+22 |
---|
552 | PF : .1, .0, .0100 |
---|
553 | PFE: .6e+9, .82E-004 |
---|
554 | # isolated cases |
---|
555 | 0. |
---|
556 | 1e0 |
---|
557 | 0.13e-013 |
---|
558 | # untouched |
---|
559 | struct3.e3, 03.05.67, 37 |
---|
560 | # expressions |
---|
561 | 3.75+-1.6e-7-27+13.2 |
---|
562 | a3.e2 - 0. |
---|
563 | 4*atan(1) |
---|
564 | 4.*atan(1.) |
---|
565 | """ |
---|
566 | |
---|
567 | output = """ |
---|
568 | ZP : 0.f |
---|
569 | ZPF : 0.0f,0.01f,0.1f |
---|
570 | Z E: 0e+001f |
---|
571 | ZP E: 0.E0f |
---|
572 | ZPFE: 0.13e-031f |
---|
573 | NP : 1.f, 12.f |
---|
574 | NPF : 1.0001f, 1.1f, 1.0f |
---|
575 | N E: 1e0f, 37E-080f |
---|
576 | NP E: 1.e0f, 37.E-080f |
---|
577 | NPFE: 845.017e+22f |
---|
578 | PF : .1f, .0f, .0100f |
---|
579 | PFE: .6e+9f, .82E-004f |
---|
580 | # isolated cases |
---|
581 | 0.f |
---|
582 | 1e0f |
---|
583 | 0.13e-013f |
---|
584 | # untouched |
---|
585 | struct3.e3, 03.05.67, 37 |
---|
586 | # expressions |
---|
587 | 3.75f+-1.6e-7f-27+13.2f |
---|
588 | a3.e2 - 0.f |
---|
589 | 4*atan(1) |
---|
590 | 4.f*atan(1.f) |
---|
591 | """ |
---|
592 | |
---|
593 | for case_in, case_out in zip(cases.split('\n'), output.split('\n')): |
---|
594 | out = _tag_float(case_in, 'f') |
---|
595 | assert case_out == out, "%r => %r"%(case_in, out) |
---|
596 | |
---|
597 | |
---|
598 | def kernel_name(model_info, variant): |
---|
599 | # type: (ModelInfo, str) -> str |
---|
600 | """ |
---|
601 | Name of the exported kernel symbol. |
---|
602 | |
---|
603 | *variant* is "Iq", "Iqxy" or "Imagnetic". |
---|
604 | """ |
---|
605 | return model_info.name + "_" + variant |
---|
606 | |
---|
607 | |
---|
608 | def indent(s, depth): |
---|
609 | # type: (str, int) -> str |
---|
610 | """ |
---|
611 | Indent a string of text with *depth* additional spaces on each line. |
---|
612 | """ |
---|
613 | spaces = " "*depth |
---|
614 | interline_separator = "\n" + spaces |
---|
615 | return spaces + interline_separator.join(s.split("\n")) |
---|
616 | |
---|
617 | |
---|
618 | _template_cache = {} # type: Dict[str, Tuple[int, str, str]] |
---|
619 | def load_template(filename): |
---|
620 | # type: (str) -> str |
---|
621 | """ |
---|
622 | Load template file from sasmodels resource directory. |
---|
623 | """ |
---|
624 | path = joinpath(DATA_PATH, filename) |
---|
625 | mtime = getmtime(path) |
---|
626 | if filename not in _template_cache or mtime > _template_cache[filename][0]: |
---|
627 | with open(path) as fid: |
---|
628 | _template_cache[filename] = (mtime, fid.read(), path) |
---|
629 | return _template_cache[filename][1], path |
---|
630 | |
---|
631 | |
---|
632 | _FN_TEMPLATE = """\ |
---|
633 | double %(name)s(%(pars)s); |
---|
634 | double %(name)s(%(pars)s) { |
---|
635 | #line %(line)d "%(filename)s" |
---|
636 | %(body)s |
---|
637 | } |
---|
638 | |
---|
639 | """ |
---|
640 | def _gen_fn(model_info, name, pars): |
---|
641 | # type: (ModelInfo, str, List[Parameter]) -> str |
---|
642 | """ |
---|
643 | Generate a function given pars and body. |
---|
644 | |
---|
645 | Returns the following string:: |
---|
646 | |
---|
647 | double fn(double a, double b, ...); |
---|
648 | double fn(double a, double b, ...) { |
---|
649 | .... |
---|
650 | } |
---|
651 | """ |
---|
652 | par_decl = ', '.join(p.as_function_argument() for p in pars) if pars else 'void' |
---|
653 | body = getattr(model_info, name) |
---|
654 | filename = model_info.filename |
---|
655 | # Note: if symbol is defined strangely in the module then default it to 1 |
---|
656 | lineno = model_info.lineno.get(name, 1) |
---|
657 | return _FN_TEMPLATE % { |
---|
658 | 'name': name, 'pars': par_decl, 'body': body, |
---|
659 | 'filename': filename.replace('\\', '\\\\'), 'line': lineno, |
---|
660 | } |
---|
661 | |
---|
662 | |
---|
663 | def _call_pars(prefix, pars): |
---|
664 | # type: (str, List[Parameter]) -> List[str] |
---|
665 | """ |
---|
666 | Return a list of *prefix+parameter* from parameter items. |
---|
667 | |
---|
668 | *prefix* should be "v." if v is a struct. |
---|
669 | """ |
---|
670 | return [p.as_call_reference(prefix) for p in pars] |
---|
671 | |
---|
672 | |
---|
673 | _IQXY_PATTERN = re.compile(r"(^|\s)double\s+I(?P<mode>q(ac|abc|xy))\s*[(]", |
---|
674 | flags=re.MULTILINE) |
---|
675 | def find_xy_mode(source): |
---|
676 | # type: (List[str]) -> bool |
---|
677 | """ |
---|
678 | Return the xy mode as qa, qac, qabc or qxy. |
---|
679 | |
---|
680 | Note this is not a C parser, and so can be easily confused by |
---|
681 | non-standard syntax. Also, it will incorrectly identify the following |
---|
682 | as having 2D models:: |
---|
683 | |
---|
684 | /* |
---|
685 | double Iqac(qab, qc, ...) { ... fill this in later ... } |
---|
686 | */ |
---|
687 | |
---|
688 | If you want to comment out the function, use // on the front of the |
---|
689 | line:: |
---|
690 | |
---|
691 | /* |
---|
692 | // double Iqac(qab, qc, ...) { ... fill this in later ... } |
---|
693 | */ |
---|
694 | |
---|
695 | """ |
---|
696 | for code in source: |
---|
697 | m = _IQXY_PATTERN.search(code) |
---|
698 | if m is not None: |
---|
699 | return m.group('mode') |
---|
700 | return 'qa' |
---|
701 | |
---|
702 | # Note: not presently used. Need to know whether Fq is available before |
---|
703 | # trying to compile the source. Leave the code here in case we decide that |
---|
704 | # define have_Fq for each form factor is too tedious and error prone. |
---|
705 | _FQ_PATTERN = re.compile(r"(^|\s)void\s+Fq[(]", flags=re.MULTILINE) |
---|
706 | def contains_Fq(source): |
---|
707 | # type: (List[str]) -> bool |
---|
708 | """ |
---|
709 | Return True if C source defines "void Fq(". |
---|
710 | """ |
---|
711 | for code in source: |
---|
712 | m = _FQ_PATTERN.search(code) |
---|
713 | if m is not None: |
---|
714 | return True |
---|
715 | return False |
---|
716 | |
---|
717 | _SHELL_VOLUME_PATTERN = re.compile(r"(^|\s)double\s+shell_volume[(]", flags=re.MULTILINE) |
---|
718 | def contains_shell_volume(source): |
---|
719 | # type: (List[str]) -> bool |
---|
720 | """ |
---|
721 | Return True if C source defines "void Fq(". |
---|
722 | """ |
---|
723 | for code in source: |
---|
724 | m = _SHELL_VOLUME_PATTERN.search(code) |
---|
725 | if m is not None: |
---|
726 | return True |
---|
727 | return False |
---|
728 | |
---|
729 | def _add_source(source, code, path, lineno=1): |
---|
730 | """ |
---|
731 | Add a file to the list of source code chunks, tagged with path and line. |
---|
732 | """ |
---|
733 | path = path.replace('\\', '\\\\') |
---|
734 | source.append('#line %d "%s"' % (lineno, path)) |
---|
735 | source.append(code) |
---|
736 | |
---|
737 | def make_source(model_info): |
---|
738 | # type: (ModelInfo) -> Dict[str, str] |
---|
739 | """ |
---|
740 | Generate the OpenCL/ctypes kernel from the module info. |
---|
741 | |
---|
742 | Uses source files found in the given search path. Returns None if this |
---|
743 | is a pure python model, with no C source components. |
---|
744 | """ |
---|
745 | if callable(model_info.Iq): |
---|
746 | raise ValueError("can't compile python model") |
---|
747 | #return None |
---|
748 | |
---|
749 | # TODO: need something other than volume to indicate dispersion parameters |
---|
750 | # No volume normalization despite having a volume parameter. |
---|
751 | # Thickness is labelled a volume in order to trigger polydispersity. |
---|
752 | # May want a separate dispersion flag, or perhaps a separate category for |
---|
753 | # disperse, but not volume. Volume parameters also use relative values |
---|
754 | # for the distribution rather than the absolute values used by angular |
---|
755 | # dispersion. Need to be careful that necessary parameters are available |
---|
756 | # for computing volume even if we allow non-disperse volume parameters. |
---|
757 | partable = model_info.parameters |
---|
758 | |
---|
759 | # Load templates and user code |
---|
760 | kernel_header = load_template('kernel_header.c') |
---|
761 | kernel_code = load_template('kernel_iq.c') |
---|
762 | user_code = [(f, open(f).read()) for f in model_sources(model_info)] |
---|
763 | |
---|
764 | # Build initial sources |
---|
765 | source = [] |
---|
766 | _add_source(source, *kernel_header) |
---|
767 | for path, code in user_code: |
---|
768 | _add_source(source, code, path) |
---|
769 | if model_info.c_code: |
---|
770 | _add_source(source, model_info.c_code, model_info.filename, |
---|
771 | lineno=model_info.lineno.get('c_code', 1)) |
---|
772 | |
---|
773 | # Make parameters for q, qx, qy so that we can use them in declarations |
---|
774 | q, qx, qy, qab, qa, qb, qc \ |
---|
775 | = [Parameter(name=v) for v in 'q qx qy qab qa qb qc'.split()] |
---|
776 | |
---|
777 | # Generate form_volume function, etc. from body only |
---|
778 | if isinstance(model_info.form_volume, str): |
---|
779 | pars = partable.form_volume_parameters |
---|
780 | source.append(_gen_fn(model_info, 'form_volume', pars)) |
---|
781 | if isinstance(model_info.shell_volume, str): |
---|
782 | pars = partable.form_volume_parameters |
---|
783 | source.append(_gen_fn(model_info, 'shell_volume', pars)) |
---|
784 | if isinstance(model_info.Iq, str): |
---|
785 | pars = [q] + partable.iq_parameters |
---|
786 | source.append(_gen_fn(model_info, 'Iq', pars)) |
---|
787 | if isinstance(model_info.Iqxy, str): |
---|
788 | pars = [qx, qy] + partable.iq_parameters + partable.orientation_parameters |
---|
789 | source.append(_gen_fn(model_info, 'Iqxy', pars)) |
---|
790 | if isinstance(model_info.Iqac, str): |
---|
791 | pars = [qab, qc] + partable.iq_parameters |
---|
792 | source.append(_gen_fn(model_info, 'Iqac', pars)) |
---|
793 | if isinstance(model_info.Iqabc, str): |
---|
794 | pars = [qa, qb, qc] + partable.iq_parameters |
---|
795 | source.append(_gen_fn(model_info, 'Iqabc', pars)) |
---|
796 | |
---|
797 | # Check for shell_volume in source |
---|
798 | is_hollow = contains_shell_volume(source) |
---|
799 | |
---|
800 | # What kind of 2D model do we need? Is it consistent with the parameters? |
---|
801 | xy_mode = find_xy_mode(source) |
---|
802 | if xy_mode == 'qabc' and not partable.is_asymmetric: |
---|
803 | raise ValueError("asymmetric oriented models need to define Iqabc") |
---|
804 | elif xy_mode == 'qac' and partable.is_asymmetric: |
---|
805 | raise ValueError("symmetric oriented models need to define Iqac") |
---|
806 | elif not partable.orientation_parameters and xy_mode in ('qac', 'qabc'): |
---|
807 | raise ValueError("Unexpected function I%s for unoriented shape"%xy_mode) |
---|
808 | elif partable.orientation_parameters and xy_mode not in ('qac', 'qabc'): |
---|
809 | if xy_mode == 'qxy': |
---|
810 | logger.warn("oriented shapes should define Iqac or Iqabc") |
---|
811 | else: |
---|
812 | raise ValueError("Expected function Iqac or Iqabc for oriented shape") |
---|
813 | |
---|
814 | # Define the parameter table |
---|
815 | lineno = getframeinfo(currentframe()).lineno + 2 |
---|
816 | source.append('#line %d "sasmodels/generate.py"'%lineno) |
---|
817 | #source.append('introduce breakage in generate to test lineno reporting') |
---|
818 | source.append("#define PARAMETER_TABLE \\") |
---|
819 | source.append("\\\n".join(p.as_definition() |
---|
820 | for p in partable.kernel_parameters)) |
---|
821 | # Define the function calls |
---|
822 | call_effective_radius = "#define CALL_EFFECTIVE_RADIUS(_mode, _v) 0.0" |
---|
823 | if partable.form_volume_parameters: |
---|
824 | refs = _call_pars("_v.", partable.form_volume_parameters) |
---|
825 | if is_hollow: |
---|
826 | call_volume = "#define CALL_VOLUME(_form, _shell, _v) do { _form = form_volume(%s); _shell = shell_volume(%s); } while (0)"%((",".join(refs),)*2) |
---|
827 | else: |
---|
828 | call_volume = "#define CALL_VOLUME(_form, _shell, _v) do { _form = _shell = form_volume(%s); } while (0)"%(",".join(refs)) |
---|
829 | if model_info.effective_radius_type: |
---|
830 | call_effective_radius = "#define CALL_EFFECTIVE_RADIUS(_mode, _v) effective_radius(_mode, %s)"%(",".join(refs)) |
---|
831 | else: |
---|
832 | # Model doesn't have volume. We could make the kernel run a little |
---|
833 | # faster by not using/transferring the volume normalizations, but |
---|
834 | # the ifdef's reduce readability more than is worthwhile. |
---|
835 | call_volume = "#define CALL_VOLUME(_form, _shell, _v) do { _form = _shell = 1.0; } while (0)" |
---|
836 | source.append(call_volume) |
---|
837 | source.append(call_effective_radius) |
---|
838 | model_refs = _call_pars("_v.", partable.iq_parameters) |
---|
839 | |
---|
840 | if model_info.have_Fq: |
---|
841 | pars = ",".join(["_q", "&_F1", "&_F2",] + model_refs) |
---|
842 | call_iq = "#define CALL_FQ(_q, _F1, _F2, _v) Fq(%s)" % pars |
---|
843 | clear_iq = "#undef CALL_FQ" |
---|
844 | else: |
---|
845 | pars = ",".join(["_q"] + model_refs) |
---|
846 | call_iq = "#define CALL_IQ(_q, _v) Iq(%s)" % pars |
---|
847 | clear_iq = "#undef CALL_IQ" |
---|
848 | if xy_mode == 'qabc': |
---|
849 | pars = ",".join(["_qa", "_qb", "_qc"] + model_refs) |
---|
850 | call_iqxy = "#define CALL_IQ_ABC(_qa,_qb,_qc,_v) Iqabc(%s)" % pars |
---|
851 | clear_iqxy = "#undef CALL_IQ_ABC" |
---|
852 | elif xy_mode == 'qac': |
---|
853 | pars = ",".join(["_qa", "_qc"] + model_refs) |
---|
854 | call_iqxy = "#define CALL_IQ_AC(_qa,_qc,_v) Iqac(%s)" % pars |
---|
855 | clear_iqxy = "#undef CALL_IQ_AC" |
---|
856 | elif xy_mode == 'qa' and not model_info.have_Fq: |
---|
857 | pars = ",".join(["_qa"] + model_refs) |
---|
858 | call_iqxy = "#define CALL_IQ_A(_qa,_v) Iq(%s)" % pars |
---|
859 | clear_iqxy = "#undef CALL_IQ_A" |
---|
860 | elif xy_mode == 'qa' and model_info.have_Fq: |
---|
861 | pars = ",".join(["_qa", "&_F1", "&_F2",] + model_refs) |
---|
862 | # Note: uses rare C construction (expr1, expr2) which computes |
---|
863 | # expr1 then expr2 and evaluates to expr2. This allows us to |
---|
864 | # leave it looking like a function even though it is returning |
---|
865 | # its values by reference. |
---|
866 | call_iqxy = "#define CALL_FQ_A(_qa,_F1,_F2,_v) (Fq(%s),_F2)" % pars |
---|
867 | clear_iqxy = "#undef CALL_FQ_A" |
---|
868 | elif xy_mode == 'qxy': |
---|
869 | orientation_refs = _call_pars("_v.", partable.orientation_parameters) |
---|
870 | pars = ",".join(["_qx", "_qy"] + model_refs + orientation_refs) |
---|
871 | call_iqxy = "#define CALL_IQ_XY(_qx,_qy,_v) Iqxy(%s)" % pars |
---|
872 | clear_iqxy = "#undef CALL_IQ_XY" |
---|
873 | if partable.orientation_parameters: |
---|
874 | call_iqxy += "\n#define HAVE_THETA" |
---|
875 | clear_iqxy += "\n#undef HAVE_THETA" |
---|
876 | if partable.is_asymmetric: |
---|
877 | call_iqxy += "\n#define HAVE_PSI" |
---|
878 | clear_iqxy += "\n#undef HAVE_PSI" |
---|
879 | |
---|
880 | |
---|
881 | magpars = [k-2 for k, p in enumerate(partable.call_parameters) |
---|
882 | if p.type == 'sld'] |
---|
883 | # Fill in definitions for numbers of parameters |
---|
884 | source.append("#define MAX_PD %s"%partable.max_pd) |
---|
885 | source.append("#define NUM_PARS %d"%partable.npars) |
---|
886 | source.append("#define NUM_VALUES %d" % partable.nvalues) |
---|
887 | source.append("#define NUM_MAGNETIC %d" % partable.nmagnetic) |
---|
888 | source.append("#define MAGNETIC_PARS %s"%",".join(str(k) for k in magpars)) |
---|
889 | source.append("#define PROJECTION %d"%PROJECTION) |
---|
890 | # TODO: allow mixed python/opencl kernels? |
---|
891 | ocl = _kernels(kernel_code, call_iq, clear_iq, call_iqxy, clear_iqxy, model_info.name) |
---|
892 | dll = _kernels(kernel_code, call_iq, clear_iq, call_iqxy, clear_iqxy, model_info.name) |
---|
893 | |
---|
894 | result = { |
---|
895 | 'dll': '\n'.join(source+dll[0]+dll[1]+dll[2]), |
---|
896 | 'opencl': '\n'.join(source+ocl[0]+ocl[1]+ocl[2]), |
---|
897 | } |
---|
898 | return result |
---|
899 | |
---|
900 | |
---|
901 | def _kernels(kernel, call_iq, clear_iq, call_iqxy, clear_iqxy, name): |
---|
902 | # type: ([str,str], str, str, str) -> List[str] |
---|
903 | code = kernel[0] |
---|
904 | path = kernel[1].replace('\\', '\\\\') |
---|
905 | iq = [ |
---|
906 | # define the Iq kernel |
---|
907 | "#define KERNEL_NAME %s_Iq" % name, |
---|
908 | call_iq, |
---|
909 | '#line 1 "%s Iq"' % path, |
---|
910 | code, |
---|
911 | clear_iq, |
---|
912 | "#undef KERNEL_NAME", |
---|
913 | ] |
---|
914 | |
---|
915 | iqxy = [ |
---|
916 | # define the Iqxy kernel from the same source with different #defines |
---|
917 | "#define KERNEL_NAME %s_Iqxy" % name, |
---|
918 | call_iqxy, |
---|
919 | '#line 1 "%s Iqxy"' % path, |
---|
920 | code, |
---|
921 | clear_iqxy, |
---|
922 | "#undef KERNEL_NAME", |
---|
923 | ] |
---|
924 | |
---|
925 | imagnetic = [ |
---|
926 | # define the Imagnetic kernel |
---|
927 | "#define KERNEL_NAME %s_Imagnetic" % name, |
---|
928 | "#define MAGNETIC 1", |
---|
929 | call_iqxy, |
---|
930 | '#line 1 "%s Imagnetic"' % path, |
---|
931 | code, |
---|
932 | clear_iqxy, |
---|
933 | "#undef MAGNETIC", |
---|
934 | "#undef KERNEL_NAME", |
---|
935 | ] |
---|
936 | |
---|
937 | return iq, iqxy, imagnetic |
---|
938 | |
---|
939 | |
---|
940 | def load_kernel_module(model_name): |
---|
941 | # type: (str) -> module |
---|
942 | """ |
---|
943 | Return the kernel module named in *model_name*. |
---|
944 | |
---|
945 | If the name ends in *.py* then load it as a custom model using |
---|
946 | :func:`sasmodels.custom.load_custom_kernel_module`, otherwise |
---|
947 | load it from :mod:`sasmodels.models`. |
---|
948 | """ |
---|
949 | if model_name.endswith('.py'): |
---|
950 | kernel_module = load_custom_kernel_module(model_name) |
---|
951 | else: |
---|
952 | try: |
---|
953 | from sasmodels import models |
---|
954 | __import__('sasmodels.models.'+model_name) |
---|
955 | kernel_module = getattr(models, model_name, None) |
---|
956 | except ImportError: |
---|
957 | # If the model isn't a built in model, try the plugin directory |
---|
958 | plugin_path = environ.get('SAS_MODELPATH', None) |
---|
959 | if plugin_path is not None: |
---|
960 | file_name = model_name.split(sep)[-1] |
---|
961 | model_name = plugin_path + sep + file_name + ".py" |
---|
962 | kernel_module = load_custom_kernel_module(model_name) |
---|
963 | else: |
---|
964 | raise |
---|
965 | return kernel_module |
---|
966 | |
---|
967 | |
---|
968 | section_marker = re.compile(r'\A(?P<first>[%s])(?P=first)*\Z' |
---|
969 | % re.escape(string.punctuation)) |
---|
970 | def _convert_section_titles_to_boldface(lines): |
---|
971 | # type: (Sequence[str]) -> Iterator[str] |
---|
972 | """ |
---|
973 | Do the actual work of identifying and converting section headings. |
---|
974 | """ |
---|
975 | prior = None |
---|
976 | for line in lines: |
---|
977 | if prior is None: |
---|
978 | prior = line |
---|
979 | elif section_marker.match(line): |
---|
980 | if len(line) >= len(prior): |
---|
981 | yield "".join(("**", prior, "**")) |
---|
982 | prior = None |
---|
983 | else: |
---|
984 | yield prior |
---|
985 | prior = line |
---|
986 | else: |
---|
987 | yield prior |
---|
988 | prior = line |
---|
989 | if prior is not None: |
---|
990 | yield prior |
---|
991 | |
---|
992 | |
---|
993 | def convert_section_titles_to_boldface(s): |
---|
994 | # type: (str) -> str |
---|
995 | """ |
---|
996 | Use explicit bold-face rather than section headings so that the table of |
---|
997 | contents is not polluted with section names from the model documentation. |
---|
998 | |
---|
999 | Sections are identified as the title line followed by a line of punctuation |
---|
1000 | at least as long as the title line. |
---|
1001 | """ |
---|
1002 | return "\n".join(_convert_section_titles_to_boldface(s.split('\n'))) |
---|
1003 | |
---|
1004 | |
---|
1005 | def make_doc(model_info): |
---|
1006 | # type: (ModelInfo) -> str |
---|
1007 | """ |
---|
1008 | Return the documentation for the model. |
---|
1009 | """ |
---|
1010 | Iq_units = "The returned value is scaled to units of |cm^-1| |sr^-1|, absolute scale." |
---|
1011 | Sq_units = "The returned value is a dimensionless structure factor, $S(q)$." |
---|
1012 | docs = model_info.docs if model_info.docs is not None else "" |
---|
1013 | docs = convert_section_titles_to_boldface(docs) |
---|
1014 | if model_info.structure_factor: |
---|
1015 | pars = model_info.parameters.kernel_parameters |
---|
1016 | else: |
---|
1017 | pars = model_info.parameters.COMMON + model_info.parameters.kernel_parameters |
---|
1018 | partable = make_partable(pars) |
---|
1019 | subst = dict(id=model_info.id.replace('_', '-'), |
---|
1020 | name=model_info.name, |
---|
1021 | title=model_info.title, |
---|
1022 | parameters=partable, |
---|
1023 | returns=Sq_units if model_info.structure_factor else Iq_units, |
---|
1024 | docs=docs) |
---|
1025 | return DOC_HEADER % subst |
---|
1026 | |
---|
1027 | |
---|
1028 | # TODO: need a single source for rst_prolog; it is also in doc/rst_prolog |
---|
1029 | RST_PROLOG = r"""\ |
---|
1030 | .. |Ang| unicode:: U+212B |
---|
1031 | .. |Ang^-1| replace:: |Ang|\ :sup:`-1` |
---|
1032 | .. |Ang^2| replace:: |Ang|\ :sup:`2` |
---|
1033 | .. |Ang^-2| replace:: |Ang|\ :sup:`-2` |
---|
1034 | .. |1e-6Ang^-2| replace:: 10\ :sup:`-6`\ |Ang|\ :sup:`-2` |
---|
1035 | .. |Ang^3| replace:: |Ang|\ :sup:`3` |
---|
1036 | .. |Ang^-3| replace:: |Ang|\ :sup:`-3` |
---|
1037 | .. |Ang^-4| replace:: |Ang|\ :sup:`-4` |
---|
1038 | .. |cm^-1| replace:: cm\ :sup:`-1` |
---|
1039 | .. |cm^2| replace:: cm\ :sup:`2` |
---|
1040 | .. |cm^-2| replace:: cm\ :sup:`-2` |
---|
1041 | .. |cm^3| replace:: cm\ :sup:`3` |
---|
1042 | .. |1e15cm^3| replace:: 10\ :sup:`15`\ cm\ :sup:`3` |
---|
1043 | .. |cm^-3| replace:: cm\ :sup:`-3` |
---|
1044 | .. |sr^-1| replace:: sr\ :sup:`-1` |
---|
1045 | |
---|
1046 | .. |cdot| unicode:: U+00B7 |
---|
1047 | .. |deg| unicode:: U+00B0 |
---|
1048 | .. |g/cm^3| replace:: g\ |cdot|\ cm\ :sup:`-3` |
---|
1049 | .. |mg/m^2| replace:: mg\ |cdot|\ m\ :sup:`-2` |
---|
1050 | .. |fm^2| replace:: fm\ :sup:`2` |
---|
1051 | .. |Ang*cm^-1| replace:: |Ang|\ |cdot|\ cm\ :sup:`-1` |
---|
1052 | """ |
---|
1053 | |
---|
1054 | # TODO: make a better fake reference role |
---|
1055 | RST_ROLES = """\ |
---|
1056 | .. role:: ref |
---|
1057 | |
---|
1058 | .. role:: numref |
---|
1059 | |
---|
1060 | """ |
---|
1061 | |
---|
1062 | def make_html(model_info): |
---|
1063 | # type: (ModelInfo) -> str |
---|
1064 | """ |
---|
1065 | Convert model docs directly to html. |
---|
1066 | """ |
---|
1067 | from . import rst2html |
---|
1068 | |
---|
1069 | rst = make_doc(model_info) |
---|
1070 | return rst2html.rst2html("".join((RST_ROLES, RST_PROLOG, rst))) |
---|
1071 | |
---|
1072 | def view_html(model_name): |
---|
1073 | # type: (str) -> None |
---|
1074 | """ |
---|
1075 | Load the model definition and view its help. |
---|
1076 | """ |
---|
1077 | from . import modelinfo |
---|
1078 | kernel_module = load_kernel_module(model_name) |
---|
1079 | info = modelinfo.make_model_info(kernel_module) |
---|
1080 | view_html_from_info(info) |
---|
1081 | |
---|
1082 | def view_html_from_info(info): |
---|
1083 | # type: (ModelInfo) -> None |
---|
1084 | """ |
---|
1085 | View the help for a loaded model definition. |
---|
1086 | """ |
---|
1087 | from . import rst2html |
---|
1088 | url = "file://"+dirname(info.filename)+"/" |
---|
1089 | rst2html.view_html(make_html(info), url=url) |
---|
1090 | |
---|
1091 | def demo_time(): |
---|
1092 | # type: () -> None |
---|
1093 | """ |
---|
1094 | Show how long it takes to process a model. |
---|
1095 | """ |
---|
1096 | import datetime |
---|
1097 | from .modelinfo import make_model_info |
---|
1098 | from .models import cylinder |
---|
1099 | |
---|
1100 | tic = datetime.datetime.now() |
---|
1101 | make_source(make_model_info(cylinder)) |
---|
1102 | toc = (datetime.datetime.now() - tic).total_seconds() |
---|
1103 | print("time: %g"%toc) |
---|
1104 | |
---|
1105 | |
---|
1106 | def main(): |
---|
1107 | # type: () -> None |
---|
1108 | """ |
---|
1109 | Program which prints the source produced by the model. |
---|
1110 | """ |
---|
1111 | from .modelinfo import make_model_info |
---|
1112 | |
---|
1113 | if len(sys.argv) <= 1: |
---|
1114 | print("usage: python -m sasmodels.generate modelname") |
---|
1115 | else: |
---|
1116 | name = sys.argv[1] |
---|
1117 | kernel_module = load_kernel_module(name) |
---|
1118 | model_info = make_model_info(kernel_module) |
---|
1119 | source = make_source(model_info) |
---|
1120 | print(source['dll']) |
---|
1121 | |
---|
1122 | |
---|
1123 | if __name__ == "__main__": |
---|
1124 | main() |
---|