Mercurial > hg > orthanc-python
annotate Sources/Plugin.cpp @ 220:7ecdfdcb49d5
NEWS
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Thu, 04 Jul 2024 08:32:24 +0200 |
| parents | 3678a028f1f6 |
| children |
| rev | line source |
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1 /** |
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2 * SPDX-FileCopyrightText: 2020-2023 Osimis S.A., 2024-2024 Orthanc Team SRL, 2021-2024 Sebastien Jodogne, ICTEAM UCLouvain |
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3 * SPDX-License-Identifier: AGPL-3.0-or-later |
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4 */ |
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5 |
| 0 | 6 /** |
| 7 * Python plugin for Orthanc | |
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8 * Copyright (C) 2020-2023 Osimis S.A., Belgium |
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9 * Copyright (C) 2024-2024 Orthanc Team SRL, Belgium |
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10 * Copyright (C) 2021-2024 Sebastien Jodogne, ICTEAM UCLouvain, Belgium |
| 0 | 11 * |
| 12 * This program is free software: you can redistribute it and/or | |
| 13 * modify it under the terms of the GNU Affero General Public License | |
| 14 * as published by the Free Software Foundation, either version 3 of | |
| 15 * the License, or (at your option) any later version. | |
| 16 * | |
| 17 * This program is distributed in the hope that it will be useful, but | |
| 18 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
| 19 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
| 20 * Affero General Public License for more details. | |
| 21 * | |
| 22 * You should have received a copy of the GNU Affero General Public License | |
| 23 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
| 24 **/ | |
| 25 | |
| 26 | |
| 27 // http://edcjones.tripod.com/refcount.html | |
| 28 // https://docs.python.org/3/extending/extending.html | |
| 29 | |
| 30 // https://www.codevate.com/blog/7-concurrency-with-embedded-python-in-a-multi-threaded-c-application | |
| 31 // https://fr.slideshare.net/YiLungTsai/embed-python | |
| 32 | |
| 33 | |
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34 #include "DicomScpCallbacks.h" |
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35 #include "IncomingHttpRequestFilter.h" |
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36 #include "OnChangeCallback.h" |
| 0 | 37 #include "OnStoredInstanceCallback.h" |
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38 #include "IncomingInstanceFilter.h" |
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39 #include "ReceivedInstanceCallback.h" |
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40 #include "StorageArea.h" |
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41 #include "StorageCommitmentScpCallback.h" |
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42 |
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43 #include "PythonModule.h" |
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44 #include "PythonThreadsAllower.h" |
| 0 | 45 #include "RestCallbacks.h" |
| 46 | |
| 47 #include "Autogenerated/sdk.h" | |
| 48 | |
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49 #include "../Resources/Orthanc/Plugins/OrthancPluginCppWrapper.h" |
| 0 | 50 |
| 51 #include <boost/algorithm/string/predicate.hpp> | |
| 52 #include <boost/filesystem.hpp> | |
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53 #include <boost/thread.hpp> |
| 0 | 54 |
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55 // The "dl_iterate_phdr()" function (to walk through shared libraries) |
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56 // is not available on Microsoft Windows and Apple OS X |
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57 #if defined(_WIN32) |
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58 # define HAS_DL_ITERATE 0 |
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59 #elif defined(__APPLE__) && defined(__MACH__) |
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60 # define HAS_DL_ITERATE 0 |
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61 #else |
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62 # define HAS_DL_ITERATE 1 |
| 0 | 63 #endif |
| 64 | |
| 65 | |
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66 #include "PythonString.h" |
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67 |
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68 PyObject* LookupDictionary(PyObject* module, PyObject* args) |
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69 { |
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70 const char* name = NULL; |
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71 |
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72 if (!PyArg_ParseTuple(args, "s", &name)) |
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73 { |
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74 PyErr_SetString(PyExc_TypeError, "Please provide a string containing the name of the DICOM tag of interest"); |
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75 return NULL; |
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76 } |
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77 else |
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78 { |
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79 OrthancPluginDictionaryEntry entry; |
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80 OrthancPluginErrorCode code; |
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81 |
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82 { |
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83 PythonThreadsAllower allower; |
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84 code = OrthancPluginLookupDictionary(OrthancPlugins::GetGlobalContext(), &entry, name); |
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85 } |
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86 |
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87 if (code == OrthancPluginErrorCode_Success) |
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88 { |
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89 /** |
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90 * "PyGILState_Ensure()" can be invoked several times from the |
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91 * same thread, so no problem in creating a PythonLock even if |
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92 * the GIL is already locked. |
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93 **/ |
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94 PythonLock lock; |
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95 |
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96 PythonObject dict(lock, PyDict_New()); |
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97 |
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98 { |
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99 PythonObject tmp(lock, PyLong_FromUnsignedLong(entry.group)); |
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100 PyDict_SetItemString(dict.GetPyObject(), "Group", tmp.GetPyObject()); |
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101 } |
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102 |
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103 { |
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104 PythonObject tmp(lock, PyLong_FromUnsignedLong(entry.element)); |
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105 PyDict_SetItemString(dict.GetPyObject(), "Element", tmp.GetPyObject()); |
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106 } |
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107 |
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108 { |
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109 PythonObject tmp(lock, PyLong_FromUnsignedLong(entry.vr)); |
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110 PyDict_SetItemString(dict.GetPyObject(), "ValueRepresentation", tmp.GetPyObject()); |
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111 } |
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112 |
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113 { |
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114 PythonObject tmp(lock, PyLong_FromUnsignedLong(entry.minMultiplicity)); |
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115 PyDict_SetItemString(dict.GetPyObject(), "MinMultiplicity", tmp.GetPyObject()); |
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116 } |
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117 |
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118 { |
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119 PythonObject tmp(lock, PyLong_FromUnsignedLong(entry.maxMultiplicity)); |
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120 PyDict_SetItemString(dict.GetPyObject(), "MaxMultiplicity", tmp.GetPyObject()); |
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121 } |
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122 |
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123 return dict.Release(); |
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124 } |
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125 else |
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126 { |
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127 std::string message = "Unknown DICOM tag: " + std::string(name); |
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128 PyErr_SetString(PyExc_TypeError, message.c_str()); |
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129 return NULL; |
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130 } |
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131 } |
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132 } |
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133 |
| 0 | 134 |
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135 PyObject* GetInstanceData(sdk_OrthancPluginDicomInstance_Object* self, PyObject *args) |
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136 { |
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137 // The GIL is locked at this point (no need to create "PythonLock") |
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138 |
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139 if (self->object_ == NULL) |
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140 { |
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141 PyErr_SetString(PyExc_ValueError, "Invalid object"); |
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142 return NULL; |
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143 } |
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144 else |
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145 { |
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146 OrthancPluginDicomInstance* instance = reinterpret_cast<sdk_OrthancPluginDicomInstance_Object*>(self)->object_; |
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147 |
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216
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148 const void* data; |
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149 size_t size; |
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150 |
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151 { |
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152 PythonThreadsAllower allower; |
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153 data = OrthancPluginGetInstanceData(OrthancPlugins::GetGlobalContext(), instance); |
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154 size = OrthancPluginGetInstanceSize(OrthancPlugins::GetGlobalContext(), instance); |
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155 } |
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156 |
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157 if (data == NULL && |
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158 size != 0) |
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159 { |
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160 PyErr_SetString(PyExc_ValueError, "Accessing an invalid orthanc.DicomInstance object"); |
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161 return NULL; |
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162 } |
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163 else |
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164 { |
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165 return PyBytes_FromStringAndSize(reinterpret_cast<const char*>(data), size); |
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166 } |
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167 } |
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168 } |
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169 |
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170 |
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171 /** |
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172 * Contrarily to "OrthancPluginGetImageBuffer()" that provides a |
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173 * read-write pointer, the method "orthanc.Image.GetImageBuffer()" |
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174 * returns a copy of the image buffer. Use "CreateImageFromBuffer()" |
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175 * to create an image from a Python buffer. |
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176 **/ |
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177 PyObject* GetImageBuffer(sdk_OrthancPluginImage_Object* self, PyObject *args) |
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178 { |
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179 // The GIL is locked at this point (no need to create "PythonLock") |
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180 |
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181 if (self->object_ == NULL) |
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182 { |
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183 PyErr_SetString(PyExc_ValueError, "Invalid object"); |
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184 return NULL; |
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185 } |
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186 else |
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187 { |
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188 OrthancPluginImage* image = reinterpret_cast<sdk_OrthancPluginImage_Object*>(self)->object_; |
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189 |
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190 const void* buffer; |
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191 size_t size; |
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192 |
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193 { |
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194 PythonThreadsAllower allower; |
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195 buffer = OrthancPluginGetImageBuffer(OrthancPlugins::GetGlobalContext(), image); |
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196 size = (OrthancPluginGetImagePitch(OrthancPlugins::GetGlobalContext(), image) * |
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197 OrthancPluginGetImageHeight(OrthancPlugins::GetGlobalContext(), image)); |
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198 } |
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199 |
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200 if (buffer == NULL && |
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201 size != 0) |
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202 { |
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203 PyErr_SetString(PyExc_ValueError, "Accessing an invalid orthanc.Image object"); |
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204 return NULL; |
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205 } |
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206 else |
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207 { |
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208 return PyBytes_FromStringAndSize(reinterpret_cast<const char*>(buffer), size); |
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209 } |
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210 } |
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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 * This function is the Python alternative for function |
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216 * "OrthancPluginCreateImageAccessor()". Indeed, it is not possible to |
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217 * share a memory buffer between Orthanc and Python, so we have to |
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218 * create a copy of the image. |
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219 **/ |
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220 PyObject* CreateImageFromBuffer(PyObject* module, PyObject* args) |
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221 { |
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222 // The GIL is locked at this point (no need to create "PythonLock") |
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223 |
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224 unsigned long format, width, height, sourcePitch; |
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225 Py_buffer buffer; |
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226 |
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227 if (!PyArg_ParseTuple(args, "kkkks*", &format, &width, &height, &sourcePitch, &buffer)) |
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228 { |
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229 PyErr_SetString(PyExc_TypeError, "5 arguments are needed: image.PixelFormat, width, height, pitch and memory buffer"); |
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230 return NULL; |
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231 } |
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232 else if (static_cast<Py_ssize_t>(sourcePitch * height) != buffer.len) |
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233 { |
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234 PyBuffer_Release(&buffer); |
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235 |
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236 PyErr_SetString(PyExc_TypeError, "The size of the memory buffer must match the product of height by pitch"); |
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237 return NULL; |
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238 } |
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239 else |
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240 { |
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216
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241 OrthancPluginImage* image; |
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242 unsigned long targetPitch = 0; |
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243 |
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244 { |
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245 PythonThreadsAllower allower; |
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246 image = OrthancPluginCreateImage( |
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247 OrthancPlugins::GetGlobalContext(), static_cast<OrthancPluginPixelFormat>(format), width, height); |
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248 |
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249 if (image != NULL) |
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250 { |
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251 targetPitch = OrthancPluginGetImagePitch(OrthancPlugins::GetGlobalContext(), image); |
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252 } |
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253 } |
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254 |
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255 if (image == NULL) |
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256 { |
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257 PyBuffer_Release(&buffer); |
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258 |
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259 PyErr_SetString(PyExc_ValueError, "Cannot create the image"); |
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260 return NULL; |
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261 } |
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262 else |
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263 { |
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264 // Copy the image line by line |
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265 const uint8_t* sourcePixels = reinterpret_cast<const uint8_t*>(buffer.buf); |
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266 uint8_t* targetPixels = reinterpret_cast<uint8_t*>(OrthancPluginGetImageBuffer(OrthancPlugins::GetGlobalContext(), image)); |
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267 |
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268 unsigned long rowSize = std::min(sourcePitch, targetPitch); |
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269 |
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270 for (unsigned int y = 0; y < height; y++) |
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271 { |
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272 memcpy(targetPixels, sourcePixels, rowSize); |
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273 targetPixels += targetPitch; |
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274 sourcePixels += sourcePitch; |
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275 } |
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276 |
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277 PyBuffer_Release(&buffer); |
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278 |
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279 { |
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280 PyObject *argList = Py_BuildValue("Lb", image, false /* not borrowed */); |
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281 PyObject *python = PyObject_CallObject((PyObject *) GetOrthancPluginImageType(), argList); |
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282 Py_DECREF(argList); |
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283 return python; |
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284 } |
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285 } |
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286 } |
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287 } |
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288 |
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289 |
|
63
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290 |
| 0 | 291 static bool pythonEnabled_ = false; |
| 292 static std::string userScriptName_; | |
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293 static boost::thread displayMemoryUsageThread_; |
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294 static bool displayMemoryUsageStopping_ = false; |
| 0 | 295 |
| 296 | |
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47
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297 #if HAS_DL_ITERATE == 1 |
| 0 | 298 |
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299 #include <dlfcn.h> |
| 0 | 300 #include <link.h> // For dl_phdr_info |
| 301 | |
| 302 static int ForceImportCallback(struct dl_phdr_info *info, size_t size, void *data) | |
| 303 { | |
| 304 /** | |
| 305 * The following line solves the error: "ImportError: | |
| 306 * /usr/lib/python2.7/dist-packages/PIL/_imaging.x86_64-linux-gnu.so: | |
| 307 * undefined symbol: PyExc_SystemError" | |
| 308 * https://stackoverflow.com/a/48517485/881731 | |
| 309 * | |
| 310 * dlopen("/usr/lib/x86_64-linux-gnu/libpython2.7.so", RTLD_NOW | RTLD_LAZY | RTLD_GLOBAL); | |
| 311 * | |
| 312 * Another fix consists in using LD_PRELOAD as follows: | |
| 313 * LD_PRELOAD=/usr/lib/x86_64-linux-gnu/libpython2.7.so ~/Subversion/orthanc/i/Orthanc tutu.json | |
| 314 **/ | |
| 315 | |
| 316 std::string module(info->dlpi_name); | |
| 317 | |
| 318 if (module.find("python") != std::string::npos) | |
| 319 { | |
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320 ORTHANC_PLUGINS_LOG_WARNING("Force global loading of Python shared library: " + module); |
| 0 | 321 dlopen(module.c_str(), RTLD_NOW | RTLD_LAZY | RTLD_GLOBAL); |
| 322 } | |
| 323 | |
| 324 return 0; | |
| 325 } | |
| 326 | |
| 327 #endif | |
| 328 | |
| 329 | |
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330 static void DisplayMemoryUsageThread() |
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331 { |
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332 { |
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333 PythonLock lock; |
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334 lock.ExecuteCommand("import tracemalloc"); |
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335 lock.ExecuteCommand("tracemalloc.start()"); |
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336 } |
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337 |
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338 while (!displayMemoryUsageStopping_) |
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339 { |
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340 { |
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341 PythonLock lock; |
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342 lock.ExecuteCommand("print('Python memory usage: %0.03fMB' % " |
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343 "(tracemalloc.get_traced_memory() [0] / (1024.0 * 1024.0)))"); |
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344 } |
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345 |
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346 boost::this_thread::sleep(boost::posix_time::seconds(1)); |
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347 } |
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348 } |
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349 |
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350 |
| 0 | 351 extern "C" |
| 352 { | |
| 353 ORTHANC_PLUGINS_API int32_t OrthancPluginInitialize(OrthancPluginContext* c) | |
| 354 { | |
|
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355 OrthancPlugins::SetGlobalContext(c, PLUGIN_NAME); |
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356 ORTHANC_PLUGINS_LOG_WARNING("Python plugin is initializing"); |
| 0 | 357 |
| 358 | |
| 359 /* Check the version of the Orthanc core */ | |
| 360 if (OrthancPluginCheckVersion(c) == 0) | |
| 361 { | |
| 362 char info[1024]; | |
| 363 sprintf(info, "Your version of Orthanc (%s) must be above %d.%d.%d to run this plugin", | |
| 364 c->orthancVersion, | |
| 365 ORTHANC_PLUGINS_MINIMAL_MAJOR_NUMBER, | |
| 366 ORTHANC_PLUGINS_MINIMAL_MINOR_NUMBER, | |
| 367 ORTHANC_PLUGINS_MINIMAL_REVISION_NUMBER); | |
| 368 OrthancPluginLogError(c, info); | |
| 369 return -1; | |
| 370 } | |
| 11 | 371 |
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154
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372 OrthancPlugins::SetDescription(PLUGIN_NAME, "Run Python scripts as Orthanc plugins"); |
| 11 | 373 |
| 0 | 374 try |
| 375 { | |
| 376 /** | |
| 377 * Detection of the user script | |
| 378 **/ | |
| 379 | |
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380 OrthancPlugins::OrthancConfiguration globalConfig; |
| 0 | 381 |
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382 OrthancPlugins::OrthancConfiguration pythonConfig; |
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383 globalConfig.GetSection(pythonConfig, "Python"); |
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384 |
| 0 | 385 std::string script; |
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386 if (!globalConfig.LookupStringValue(script, "PythonScript") && |
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387 !pythonConfig.LookupStringValue(script, "Path")) |
| 0 | 388 { |
| 389 pythonEnabled_ = false; | |
| 390 | |
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391 ORTHANC_PLUGINS_LOG_WARNING("Options \"PythonScript\" and \"Python.Path\" are not provided: " |
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392 "Python scripting is disabled"); |
| 0 | 393 } |
| 394 else | |
| 395 { | |
| 396 pythonEnabled_ = true; | |
| 397 | |
| 398 /** | |
| 399 * Installation of the user script | |
| 400 **/ | |
| 401 | |
| 402 const boost::filesystem::path path(script); | |
| 403 if (!boost::iequals(path.extension().string(), ".py")) | |
| 404 { | |
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405 ORTHANC_PLUGINS_LOG_ERROR("Python script must have the \".py\" file extension: " + |
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406 path.string()); |
| 0 | 407 return -1; |
| 408 } | |
| 409 | |
| 410 if (!boost::filesystem::is_regular_file(path)) | |
| 411 { | |
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412 ORTHANC_PLUGINS_LOG_ERROR("Inexistent directory for the Python script: " + |
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413 path.string()); |
| 0 | 414 return -1; |
| 415 } | |
| 416 | |
| 417 boost::filesystem::path userScriptDirectory = boost::filesystem::absolute(path).parent_path(); | |
| 418 | |
| 419 { | |
| 420 boost::filesystem::path module = path.filename().replace_extension(""); | |
| 421 userScriptName_ = module.string(); | |
| 422 } | |
| 423 | |
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424 ORTHANC_PLUGINS_LOG_WARNING("Using Python script \"" + userScriptName_ + |
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425 ".py\" from directory: " + userScriptDirectory.string()); |
| 0 | 426 |
| 427 | |
| 428 /** | |
| 429 * Initialization of Python | |
| 430 **/ | |
| 431 | |
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432 PythonThreadsAllower::SetAllowThreads(pythonConfig.GetBooleanValue("AllowThreads", false)); |
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433 |
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434 const bool isVerbose = (globalConfig.GetBooleanValue("PythonVerbose", false) || |
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435 pythonConfig.GetBooleanValue("Verbose", false)); |
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436 |
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437 #if HAS_DL_ITERATE == 1 |
| 0 | 438 dl_iterate_phdr(ForceImportCallback, NULL); |
| 439 #endif | |
| 440 | |
| 215 | 441 PythonLock::GlobalInitialize("orthanc", "OrthancException", GetOrthancSdkFunctions, RegisterOrthancSdk, isVerbose); |
| 0 | 442 PythonLock::AddSysPath(userScriptDirectory.string()); |
| 443 | |
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444 if (pythonConfig.GetBooleanValue("DisplayMemoryUsage", false)) |
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445 { |
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446 displayMemoryUsageThread_ = boost::thread(DisplayMemoryUsageThread); |
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447 } |
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448 |
| 0 | 449 |
| 450 /** | |
| 451 * Force loading the declarations in the user script | |
| 452 **/ | |
| 453 | |
| 454 PythonLock lock; | |
| 455 | |
| 456 { | |
| 457 PythonModule module(lock, userScriptName_); | |
| 458 } | |
| 459 | |
| 460 std::string traceback; | |
| 461 if (lock.HasErrorOccurred(traceback)) | |
| 462 { | |
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463 ORTHANC_PLUGINS_LOG_ERROR("Error during the installation of the Python script, " |
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464 "traceback:\n" + traceback); |
| 0 | 465 return -1; |
| 466 } | |
| 467 } | |
| 468 } | |
| 469 catch (ORTHANC_PLUGINS_EXCEPTION_CLASS& e) | |
| 470 { | |
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471 ORTHANC_PLUGINS_LOG_ERROR("Exception while starting the Python plugin: " + |
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472 std::string(e.What(c))); |
| 0 | 473 return -1; |
| 474 } | |
| 475 | |
| 476 return 0; | |
| 477 } | |
| 478 | |
| 479 | |
| 480 ORTHANC_PLUGINS_API void OrthancPluginFinalize() | |
| 481 { | |
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482 ORTHANC_PLUGINS_LOG_WARNING("Python plugin is finalizing"); |
| 0 | 483 |
| 484 if (pythonEnabled_) | |
| 485 { | |
| 486 FinalizeOnChangeCallback(); | |
| 487 FinalizeRestCallbacks(); | |
| 488 FinalizeOnStoredInstanceCallback(); | |
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489 FinalizeIncomingHttpRequestFilter(); |
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490 FinalizeDicomScpCallbacks(); |
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491 |
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492 displayMemoryUsageStopping_ = true; |
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493 |
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494 if (displayMemoryUsageThread_.joinable()) |
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495 { |
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496 displayMemoryUsageThread_.join(); |
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497 } |
| 0 | 498 |
| 499 PythonLock::GlobalFinalize(); | |
| 500 } | |
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501 |
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502 OrthancPlugins::ResetGlobalContext(); |
| 0 | 503 } |
| 504 | |
| 505 | |
| 506 ORTHANC_PLUGINS_API const char* OrthancPluginGetName() | |
| 507 { | |
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508 return PLUGIN_NAME; |
| 0 | 509 } |
| 510 | |
| 511 | |
| 512 ORTHANC_PLUGINS_API const char* OrthancPluginGetVersion() | |
| 513 { | |
| 514 return PLUGIN_VERSION; | |
| 515 } | |
| 516 } |