Mercurial > hg > orthanc-python
annotate Sources/Plugin.cpp @ 119:cf6decdf9e15
wrapped new SDK callback: orthanc.RegisterStorageCommitmentScpCallback()
author | Alain Mazy <am@osimis.io> |
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date | Mon, 28 Aug 2023 18:30:42 +0200 |
parents | 65ec5597ec70 |
children | c55b0583084b |
rev | line source |
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0 | 1 /** |
2 * Python plugin for Orthanc | |
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3 * Copyright (C) 2020-2023 Osimis S.A., Belgium |
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4 * Copyright (C) 2021-2023 Sebastien Jodogne, ICTEAM UCLouvain, Belgium |
0 | 5 * |
6 * This program is free software: you can redistribute it and/or | |
7 * modify it under the terms of the GNU Affero General Public License | |
8 * as published by the Free Software Foundation, either version 3 of | |
9 * the License, or (at your option) any later version. | |
10 * | |
11 * This program is distributed in the hope that it will be useful, but | |
12 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
13 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
14 * Affero General Public License for more details. | |
15 * | |
16 * You should have received a copy of the GNU Affero General Public License | |
17 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
18 **/ | |
19 | |
20 | |
21 // http://edcjones.tripod.com/refcount.html | |
22 // https://docs.python.org/3/extending/extending.html | |
23 | |
24 // https://www.codevate.com/blog/7-concurrency-with-embedded-python-in-a-multi-threaded-c-application | |
25 // https://fr.slideshare.net/YiLungTsai/embed-python | |
26 | |
27 | |
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28 #include "DicomScpCallbacks.h" |
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29 #include "IncomingHttpRequestFilter.h" |
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30 #include "OnChangeCallback.h" |
0 | 31 #include "OnStoredInstanceCallback.h" |
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32 #include "IncomingInstanceFilter.h" |
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33 #include "ReceivedInstanceCallback.h" |
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34 #include "StorageArea.h" |
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35 #include "StorageCommitmentScpCallback.h" |
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36 |
0 | 37 #include "RestCallbacks.h" |
38 #include "PythonModule.h" | |
39 | |
40 #include "Autogenerated/sdk.h" | |
41 | |
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42 #include "../Resources/Orthanc/Plugins/OrthancPluginCppWrapper.h" |
0 | 43 |
44 #include <boost/algorithm/string/predicate.hpp> | |
45 #include <boost/filesystem.hpp> | |
46 | |
47
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47 // The "dl_iterate_phdr()" function (to walk through shared libraries) |
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48 // is not available on Microsoft Windows and Apple OS X |
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49 #if defined(_WIN32) |
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50 # define HAS_DL_ITERATE 0 |
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51 #elif defined(__APPLE__) && defined(__MACH__) |
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52 # define HAS_DL_ITERATE 0 |
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53 #else |
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54 # define HAS_DL_ITERATE 1 |
0 | 55 #endif |
56 | |
57 | |
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58 #include "PythonString.h" |
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59 |
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60 PyObject* LookupDictionary(PyObject* module, PyObject* args) |
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61 { |
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62 const char* name = NULL; |
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63 |
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64 if (!PyArg_ParseTuple(args, "s", &name)) |
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65 { |
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66 PyErr_SetString(PyExc_TypeError, "Please provide a string containing the name of the DICOM tag of interest"); |
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67 return NULL; |
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68 } |
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69 else |
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70 { |
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71 OrthancPluginDictionaryEntry entry; |
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72 |
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73 OrthancPluginErrorCode code = OrthancPluginLookupDictionary(OrthancPlugins::GetGlobalContext(), &entry, name); |
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74 if (code == OrthancPluginErrorCode_Success) |
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75 { |
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76 /** |
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77 * "PyGILState_Ensure()" can be invoked several times from the |
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78 * same thread, so no problem in creating a PythonLock even if |
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79 * the GIL is already locked. |
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80 **/ |
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81 PythonLock lock; |
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82 |
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83 PythonObject kw(lock, PyDict_New()); |
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84 PyDict_SetItemString(kw.GetPyObject(), "Group", PyLong_FromUnsignedLong(entry.group)); |
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85 PyDict_SetItemString(kw.GetPyObject(), "Element", PyLong_FromUnsignedLong(entry.element)); |
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86 PyDict_SetItemString(kw.GetPyObject(), "ValueRepresentation", PyLong_FromUnsignedLong(entry.vr)); |
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87 PyDict_SetItemString(kw.GetPyObject(), "MinMultiplicity", PyLong_FromUnsignedLong(entry.minMultiplicity)); |
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88 PyDict_SetItemString(kw.GetPyObject(), "MaxMultiplicity", PyLong_FromUnsignedLong(entry.maxMultiplicity)); |
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89 |
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90 return kw.Release(); |
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91 } |
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92 else |
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93 { |
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94 std::string message = "Unknown DICOM tag: " + std::string(name); |
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95 PyErr_SetString(PyExc_TypeError, message.c_str()); |
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96 return NULL; |
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97 } |
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98 } |
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99 } |
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100 |
0 | 101 |
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102 PyObject* CreateDicom(PyObject* module, PyObject* args) |
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103 { |
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104 // The GIL is locked at this point (no need to create "PythonLock") |
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105 const char* json = NULL; |
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106 PyObject* pixelData = NULL; |
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107 long int flags = 0; |
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108 |
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109 if (!PyArg_ParseTuple(args, "sOl", &json, &pixelData, &flags)) |
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110 { |
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111 PyErr_SetString(PyExc_TypeError, "Please provide a JSON string, an orthanc.Image object, and a set of orthanc.CreateDicomFlags"); |
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112 return NULL; |
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113 } |
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114 else |
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115 { |
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116 OrthancPluginImage* image = NULL; |
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117 |
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118 if (pixelData == Py_None) |
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119 { |
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120 // No pixel data |
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121 } |
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122 else if (Py_TYPE(pixelData) == GetOrthancPluginImageType()) |
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123 { |
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124 image = reinterpret_cast<sdk_OrthancPluginImage_Object*>(pixelData)->object_; |
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125 } |
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126 else |
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127 { |
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128 PyErr_SetString(PyExc_TypeError, "Second parameter is not a valid orthanc.Image object"); |
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129 return NULL; |
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130 } |
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131 |
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132 OrthancPlugins::MemoryBuffer buffer; |
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133 OrthancPluginErrorCode code = OrthancPluginCreateDicom(OrthancPlugins::GetGlobalContext(), *buffer, json, image, |
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134 static_cast<OrthancPluginCreateDicomFlags>(flags)); |
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135 |
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136 if (code == OrthancPluginErrorCode_Success) |
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137 { |
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138 return PyBytes_FromStringAndSize(buffer.GetData(), buffer.GetSize()); |
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139 } |
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140 else |
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141 { |
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142 PyErr_SetString(PyExc_ValueError, "Cannot create the DICOM instance"); |
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143 return NULL; |
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144 } |
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145 } |
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146 } |
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147 |
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148 |
65
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149 PyObject* GetInstanceData(sdk_OrthancPluginDicomInstance_Object* self, PyObject *args) |
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150 { |
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151 // The GIL is locked at this point (no need to create "PythonLock") |
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152 |
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153 if (self->object_ == NULL) |
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154 { |
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155 PyErr_SetString(PyExc_ValueError, "Invalid object"); |
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156 return NULL; |
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157 } |
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158 else |
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159 { |
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160 OrthancPluginDicomInstance* instance = reinterpret_cast<sdk_OrthancPluginDicomInstance_Object*>(self)->object_; |
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161 |
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162 const void* data = OrthancPluginGetInstanceData(OrthancPlugins::GetGlobalContext(), instance); |
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163 size_t size = OrthancPluginGetInstanceSize(OrthancPlugins::GetGlobalContext(), instance); |
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164 |
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165 if (data == NULL && |
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166 size != 0) |
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167 { |
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168 PyErr_SetString(PyExc_ValueError, "Accessing an invalid orthanc.DicomInstance object"); |
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169 return NULL; |
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170 } |
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171 else |
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172 { |
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173 return PyBytes_FromStringAndSize(reinterpret_cast<const char*>(data), size); |
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174 } |
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175 } |
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176 } |
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177 |
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178 |
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179 /** |
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180 * Contrarily to "OrthancPluginGetImageBuffer()" that provides a |
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181 * read-write pointer, the method "orthanc.Image.GetImageBuffer()" |
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182 * returns a copy of the image buffer. Use "CreateImageFromBuffer()" |
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183 * to create an image from a Python buffer. |
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184 **/ |
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185 PyObject* GetImageBuffer(sdk_OrthancPluginImage_Object* self, PyObject *args) |
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186 { |
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187 // The GIL is locked at this point (no need to create "PythonLock") |
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188 |
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189 if (self->object_ == NULL) |
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190 { |
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191 PyErr_SetString(PyExc_ValueError, "Invalid object"); |
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192 return NULL; |
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193 } |
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194 else |
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195 { |
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196 OrthancPluginImage* image = reinterpret_cast<sdk_OrthancPluginImage_Object*>(self)->object_; |
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197 |
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198 const void* buffer = OrthancPluginGetImageBuffer(OrthancPlugins::GetGlobalContext(), image); |
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199 size_t size = (OrthancPluginGetImagePitch(OrthancPlugins::GetGlobalContext(), image) * |
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200 OrthancPluginGetImageHeight(OrthancPlugins::GetGlobalContext(), image)); |
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201 |
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202 if (buffer == NULL && |
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203 size != 0) |
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204 { |
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205 PyErr_SetString(PyExc_ValueError, "Accessing an invalid orthanc.Image object"); |
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206 return NULL; |
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207 } |
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208 else |
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209 { |
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210 return PyBytes_FromStringAndSize(reinterpret_cast<const char*>(buffer), size); |
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211 } |
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212 } |
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213 } |
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214 |
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215 |
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216 /** |
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217 * This function is the Python alternative for function |
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218 * "OrthancPluginCreateImageAccessor()". Indeed, it is not possible to |
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219 * share a memory buffer between Orthanc and Python, so we have to |
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220 * create a copy of the image. |
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221 **/ |
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222 PyObject* CreateImageFromBuffer(PyObject* module, PyObject* args) |
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223 { |
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224 // The GIL is locked at this point (no need to create "PythonLock") |
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225 |
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226 unsigned long format, width, height, sourcePitch; |
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227 Py_buffer buffer; |
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228 |
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229 if (!PyArg_ParseTuple(args, "kkkks*", &format, &width, &height, &sourcePitch, &buffer)) |
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230 { |
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231 PyErr_SetString(PyExc_TypeError, "5 arguments are needed: image.PixelFormat, width, height, pitch and memory buffer"); |
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232 return NULL; |
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233 } |
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234 else if (static_cast<Py_ssize_t>(sourcePitch * height) != buffer.len) |
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235 { |
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236 PyBuffer_Release(&buffer); |
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237 |
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238 PyErr_SetString(PyExc_TypeError, "The size of the memory buffer must match the product of height by pitch"); |
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239 return NULL; |
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240 } |
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241 else |
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242 { |
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243 OrthancPluginImage* image = OrthancPluginCreateImage( |
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244 OrthancPlugins::GetGlobalContext(), static_cast<OrthancPluginPixelFormat>(format), width, height); |
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245 |
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246 if (image == NULL) |
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247 { |
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248 PyBuffer_Release(&buffer); |
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249 |
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250 PyErr_SetString(PyExc_ValueError, "Cannot create the image"); |
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251 return NULL; |
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252 } |
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253 else |
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254 { |
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255 // Copy the image line by line |
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256 unsigned long targetPitch = OrthancPluginGetImagePitch(OrthancPlugins::GetGlobalContext(), image); |
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257 |
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258 const uint8_t* sourcePixels = reinterpret_cast<const uint8_t*>(buffer.buf); |
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259 uint8_t* targetPixels = reinterpret_cast<uint8_t*>(OrthancPluginGetImageBuffer(OrthancPlugins::GetGlobalContext(), image)); |
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260 |
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261 unsigned long rowSize = std::min(sourcePitch, targetPitch); |
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262 |
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263 for (unsigned int y = 0; y < height; y++) |
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264 { |
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265 memcpy(targetPixels, sourcePixels, rowSize); |
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266 targetPixels += targetPitch; |
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267 sourcePixels += sourcePitch; |
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268 } |
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269 |
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270 PyBuffer_Release(&buffer); |
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271 |
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272 { |
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273 PyObject *argList = Py_BuildValue("Lb", image, false /* not borrowed */); |
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274 PyObject *python = PyObject_CallObject((PyObject *) GetOrthancPluginImageType(), argList); |
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275 Py_DECREF(argList); |
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276 return python; |
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277 } |
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278 } |
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279 } |
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280 } |
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281 |
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282 |
63
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283 |
0 | 284 static bool pythonEnabled_ = false; |
285 static std::string userScriptName_; | |
286 static std::vector<PyMethodDef> globalFunctions_; | |
287 | |
288 | |
289 static void InstallClasses(PyObject* module) | |
290 { | |
291 RegisterOrthancSdk(module); | |
292 } | |
293 | |
294 | |
295 static void SetupGlobalFunctions() | |
296 { | |
297 if (!globalFunctions_.empty()) | |
298 { | |
299 ORTHANC_PLUGINS_THROW_EXCEPTION(BadSequenceOfCalls); | |
300 } | |
301 | |
302 /** | |
303 * Add all the manual global functions | |
304 **/ | |
305 | |
306 std::list<PyMethodDef> functions; | |
307 | |
308 { | |
309 PyMethodDef f = { "RegisterRestCallback", RegisterRestCallback, METH_VARARGS, "" }; | |
310 functions.push_back(f); | |
311 } | |
312 | |
313 { | |
314 PyMethodDef f = { "RegisterOnChangeCallback", RegisterOnChangeCallback, METH_VARARGS, "" }; | |
315 functions.push_back(f); | |
316 } | |
317 | |
318 { | |
319 PyMethodDef f = { "RegisterOnStoredInstanceCallback", RegisterOnStoredInstanceCallback, | |
320 METH_VARARGS, "" }; | |
321 functions.push_back(f); | |
322 } | |
50
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323 |
63
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324 |
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325 /** |
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326 * New in release 3.0 |
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327 **/ |
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328 |
50
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329 { |
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330 PyMethodDef f = { "RegisterIncomingHttpRequestFilter", RegisterIncomingHttpRequestFilter, METH_VARARGS, "" }; |
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331 functions.push_back(f); |
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332 } |
63
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333 |
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334 |
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335 /** |
64
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336 * New in release 3.2 |
63
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337 **/ |
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338 |
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339 { |
66
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340 PyMethodDef f = { "LookupDictionary", LookupDictionary, METH_VARARGS, "" }; |
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341 functions.push_back(f); |
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342 } |
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343 |
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344 { |
63
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345 PyMethodDef f = { "CreateDicom", CreateDicom, METH_VARARGS, "" }; |
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346 functions.push_back(f); |
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347 } |
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348 |
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349 { |
65
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350 PyMethodDef f = { "CreateImageFromBuffer", CreateImageFromBuffer, METH_VARARGS, "" }; |
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351 functions.push_back(f); |
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352 } |
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353 |
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354 { |
63
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355 PyMethodDef f = { "RegisterFindCallback", RegisterFindCallback, METH_VARARGS, "" }; |
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356 functions.push_back(f); |
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357 } |
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358 |
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359 { |
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360 PyMethodDef f = { "RegisterMoveCallback", RegisterMoveCallback, METH_VARARGS, "" }; |
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361 functions.push_back(f); |
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362 } |
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363 |
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364 { |
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365 PyMethodDef f = { "RegisterWorklistCallback", RegisterWorklistCallback, METH_VARARGS, "" }; |
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366 functions.push_back(f); |
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367 } |
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368 |
0 | 369 |
370 /** | |
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371 * New in release 3.3 |
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372 **/ |
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373 |
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374 { |
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375 PyMethodDef f = { "RegisterStorageArea", RegisterStorageArea, METH_VARARGS, "" }; |
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376 functions.push_back(f); |
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377 } |
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378 |
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379 |
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380 /** |
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381 * New in release 3.5 |
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382 **/ |
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383 |
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384 { |
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385 PyMethodDef f = { "RegisterIncomingCStoreInstanceFilter", RegisterIncomingCStoreInstanceFilter, METH_VARARGS, "" }; |
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386 functions.push_back(f); |
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387 } |
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388 |
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389 { |
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390 PyMethodDef f = { "RegisterReceivedInstanceCallback", RegisterReceivedInstanceCallback, METH_VARARGS, "" }; |
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391 functions.push_back(f); |
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392 } |
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393 |
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394 /** |
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395 * New in release 4.1 |
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396 **/ |
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397 |
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398 { |
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399 PyMethodDef f = { "RegisterStorageCommitmentScpCallback", RegisterStorageCommitmentScpCallback, METH_VARARGS, "" }; |
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400 functions.push_back(f); |
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401 } |
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402 |
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403 /** |
0 | 404 * Append all the global functions that were automatically generated |
405 **/ | |
406 | |
407 const PyMethodDef* sdk = GetOrthancSdkFunctions(); | |
408 | |
409 for (size_t i = 0; sdk[i].ml_name != NULL; i++) | |
410 { | |
411 functions.push_back(sdk[i]); | |
412 } | |
413 | |
414 /** | |
415 * Flatten the list of functions into the vector | |
416 **/ | |
417 | |
418 globalFunctions_.resize(functions.size()); | |
419 std::copy(functions.begin(), functions.end(), globalFunctions_.begin()); | |
420 | |
421 PyMethodDef sentinel = { NULL }; | |
422 globalFunctions_.push_back(sentinel); | |
423 } | |
424 | |
425 | |
426 static PyMethodDef* GetGlobalFunctions() | |
427 { | |
428 if (globalFunctions_.empty()) | |
429 { | |
430 // "SetupGlobalFunctions()" should have been called | |
431 ORTHANC_PLUGINS_THROW_EXCEPTION(BadSequenceOfCalls); | |
432 } | |
433 else | |
434 { | |
435 return &globalFunctions_[0]; | |
436 } | |
437 } | |
438 | |
439 | |
440 | |
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441 #if HAS_DL_ITERATE == 1 |
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443 #include <dlfcn.h> |
0 | 444 #include <link.h> // For dl_phdr_info |
445 | |
446 static int ForceImportCallback(struct dl_phdr_info *info, size_t size, void *data) | |
447 { | |
448 /** | |
449 * The following line solves the error: "ImportError: | |
450 * /usr/lib/python2.7/dist-packages/PIL/_imaging.x86_64-linux-gnu.so: | |
451 * undefined symbol: PyExc_SystemError" | |
452 * https://stackoverflow.com/a/48517485/881731 | |
453 * | |
454 * dlopen("/usr/lib/x86_64-linux-gnu/libpython2.7.so", RTLD_NOW | RTLD_LAZY | RTLD_GLOBAL); | |
455 * | |
456 * Another fix consists in using LD_PRELOAD as follows: | |
457 * LD_PRELOAD=/usr/lib/x86_64-linux-gnu/libpython2.7.so ~/Subversion/orthanc/i/Orthanc tutu.json | |
458 **/ | |
459 | |
460 std::string module(info->dlpi_name); | |
461 | |
462 if (module.find("python") != std::string::npos) | |
463 { | |
464 OrthancPlugins::LogWarning("Force global loading of Python shared library: " + module); | |
465 dlopen(module.c_str(), RTLD_NOW | RTLD_LAZY | RTLD_GLOBAL); | |
466 } | |
467 | |
468 return 0; | |
469 } | |
470 | |
471 #endif | |
472 | |
473 | |
474 extern "C" | |
475 { | |
476 ORTHANC_PLUGINS_API int32_t OrthancPluginInitialize(OrthancPluginContext* c) | |
477 { | |
478 OrthancPlugins::SetGlobalContext(c); | |
479 OrthancPlugins::LogWarning("Python plugin is initializing"); | |
480 | |
481 | |
482 /* Check the version of the Orthanc core */ | |
483 if (OrthancPluginCheckVersion(c) == 0) | |
484 { | |
485 char info[1024]; | |
486 sprintf(info, "Your version of Orthanc (%s) must be above %d.%d.%d to run this plugin", | |
487 c->orthancVersion, | |
488 ORTHANC_PLUGINS_MINIMAL_MAJOR_NUMBER, | |
489 ORTHANC_PLUGINS_MINIMAL_MINOR_NUMBER, | |
490 ORTHANC_PLUGINS_MINIMAL_REVISION_NUMBER); | |
491 OrthancPluginLogError(c, info); | |
492 return -1; | |
493 } | |
11 | 494 |
495 OrthancPluginSetDescription(c, "Run Python scripts as Orthanc plugins"); | |
496 | |
0 | 497 try |
498 { | |
499 /** | |
500 * Detection of the user script | |
501 **/ | |
502 | |
503 OrthancPlugins::OrthancConfiguration config; | |
504 | |
505 static const char* const OPTION = "PythonScript"; | |
506 | |
507 std::string script; | |
508 if (!config.LookupStringValue(script, OPTION)) | |
509 { | |
510 pythonEnabled_ = false; | |
511 | |
512 OrthancPlugins::LogWarning("The option \"" + std::string(OPTION) + "\" is not provided: " + | |
513 "Python scripting is disabled"); | |
514 } | |
515 else | |
516 { | |
517 pythonEnabled_ = true; | |
518 | |
519 /** | |
520 * Installation of the user script | |
521 **/ | |
522 | |
523 const boost::filesystem::path path(script); | |
524 if (!boost::iequals(path.extension().string(), ".py")) | |
525 { | |
526 OrthancPlugins::LogError("Python script must have the \".py\" file extension: " + | |
527 path.string()); | |
528 return -1; | |
529 } | |
530 | |
531 if (!boost::filesystem::is_regular_file(path)) | |
532 { | |
533 OrthancPlugins::LogError("Inexistent directory for the Python script: " + | |
534 path.string()); | |
535 return -1; | |
536 } | |
537 | |
538 boost::filesystem::path userScriptDirectory = boost::filesystem::absolute(path).parent_path(); | |
539 | |
540 { | |
541 boost::filesystem::path module = path.filename().replace_extension(""); | |
542 userScriptName_ = module.string(); | |
543 } | |
544 | |
545 OrthancPlugins::LogWarning("Using Python script \"" + userScriptName_ + | |
546 ".py\" from directory: " + userScriptDirectory.string()); | |
547 | |
548 | |
549 /** | |
550 * Initialization of Python | |
551 **/ | |
552 | |
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553 #if HAS_DL_ITERATE == 1 |
0 | 554 dl_iterate_phdr(ForceImportCallback, NULL); |
555 #endif | |
556 | |
557 SetupGlobalFunctions(); | |
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558 PythonLock::GlobalInitialize("orthanc", "OrthancException", |
0 | 559 GetGlobalFunctions, InstallClasses, |
560 config.GetBooleanValue("PythonVerbose", false)); | |
561 PythonLock::AddSysPath(userScriptDirectory.string()); | |
562 | |
563 | |
564 /** | |
565 * Force loading the declarations in the user script | |
566 **/ | |
567 | |
568 PythonLock lock; | |
569 | |
570 { | |
571 PythonModule module(lock, userScriptName_); | |
572 } | |
573 | |
574 std::string traceback; | |
575 if (lock.HasErrorOccurred(traceback)) | |
576 { | |
577 OrthancPlugins::LogError("Error during the installation of the Python script, " | |
578 "traceback:\n" + traceback); | |
579 return -1; | |
580 } | |
581 } | |
582 } | |
583 catch (ORTHANC_PLUGINS_EXCEPTION_CLASS& e) | |
584 { | |
585 OrthancPlugins::LogError("Exception while starting the Python plugin: " + | |
586 std::string(e.What(c))); | |
587 return -1; | |
588 } | |
589 | |
590 return 0; | |
591 } | |
592 | |
593 | |
594 ORTHANC_PLUGINS_API void OrthancPluginFinalize() | |
595 { | |
596 OrthancPlugins::LogWarning("Python plugin is finalizing"); | |
597 | |
598 if (pythonEnabled_) | |
599 { | |
600 FinalizeOnChangeCallback(); | |
601 FinalizeRestCallbacks(); | |
602 FinalizeOnStoredInstanceCallback(); | |
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603 FinalizeIncomingHttpRequestFilter(); |
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604 FinalizeDicomScpCallbacks(); |
0 | 605 |
606 PythonLock::GlobalFinalize(); | |
607 } | |
608 } | |
609 | |
610 | |
611 ORTHANC_PLUGINS_API const char* OrthancPluginGetName() | |
612 { | |
613 return "python"; | |
614 } | |
615 | |
616 | |
617 ORTHANC_PLUGINS_API const char* OrthancPluginGetVersion() | |
618 { | |
619 return PLUGIN_VERSION; | |
620 } | |
621 } |