Mercurial > hg > orthanc-stone
annotate Applications/Samples/README.md @ 1953:0661115af939 deep-learning
first successful application of deep learning
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Tue, 16 Aug 2022 15:05:51 +0200 |
| parents | 9b69970fbdb5 |
| children | 5653b6335642 |
| rev | line source |
|---|---|
| 1360 | 1 General |
| 2 ======= | |
| 3 These samples assume that a recent version of Orthanc is checked out in an | |
| 4 `orthanc` folder next to the `orthanc-stone` folder. Let's call the top folder | |
| 5 the `devroot` folder. This name does not matter and is not used anywhere. | |
| 6 | |
| 7 Here's the directory layout that we suggest: | |
| 8 | |
| 9 ``` | |
| 10 devroot/ | |
| 11 | | |
| 12 +- orthanc/ | |
| 13 | | |
| 14 +- orthanc-stone/ | |
| 15 | | |
| 16 ... | |
| 17 ``` | |
| 18 | |
| 19 Orthanc can be retrieved with: | |
| 20 ``` | |
| 21 hg clone https://hg.orthanc-server.com/orthanc | |
| 22 ``` | |
| 1378 | 23 |
| 24 Furthermore, the samples usually assume that an Orthanc is running locally, | |
| 25 without authentication, on port 8042. The samples can easily be tweaked if | |
| 26 your setup is different. | |
| 27 | |
| 28 When Dicom resources are to be displayed, their IDs can be supplied in the | |
| 29 various ways suitable for the platform (command-line arguments, URL parameters | |
| 30 or through the GUI) | |
| 31 | |
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32 |
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33 This repo contains two sample projects: |
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34 |
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35 SingleFrameViewer |
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36 ----------------- |
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37 |
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38 This sample application displays a single frame of a Dicom instance that can |
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39 be loaded from Orthanc, either by using the Orthanc REST API or through the |
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40 Dicomweb server functionality of Orthanc. |
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41 |
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42 RtViewer |
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43 -------- |
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44 |
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45 This sample application displays set of Radiotherapy data: |
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46 - a CT scan |
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47 - an RT-Dose |
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48 - an RT-Struct |
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49 |
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50 The WebAssembly version displays 3 viewports with MPR data |
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51 while the SDL sample displays a single viewport. |
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52 |
| 1360 | 53 |
| 54 WebAssembly samples | |
| 55 =================== | |
| 56 | |
| 57 Building the WebAssembly samples require the Emscripten SDK | |
| 58 (https://emscripten.org/). This SDK goes far beyond the simple compilation to | |
| 59 the wasm (Web Assembly) bytecode and provides a comprehensive library that | |
| 60 eases porting native C and C++ programs and libraries. The Emscripten SDK also | |
| 61 makes it easy to generate the companion Javascript files requires to use a | |
| 62 wasm module in a web application. | |
| 63 | |
| 64 Although Emscripten runs on all major platforms, Stone of Orthanc is developed | |
| 65 and tested with the Linux version of Emscripten. | |
| 66 | |
| 67 Emscripten runs perfectly fine under the Windows Subsystem for Linux (that is | |
| 68 the environment used quite often by the Stone of Orthanc team) | |
| 69 | |
| 70 **Important note:** The following examples **and the build scripts** will | |
| 71 assume that you have installed the Emscripten SDK in `~/apps/emsdk`. | |
| 72 | |
| 73 The following packages should get you going (a Debian-like distribution such | |
| 74 as Debian or Ubuntu is assumed) | |
| 75 | |
| 76 ``` | |
| 77 sudo apt-get update | |
| 78 sudo apt-get install -y build-essential curl wget git python cmake pkg-config | |
| 79 sudo apt-get install -y mercurial unzip npm ninja-build p7zip-full gettext-base | |
| 80 ``` | |
| 81 | |
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82 To build the Wasm samples, just launch the `build-wasm-samples.sh` script from |
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83 this folder. Optionaly, you can pass the build type as an argument. |
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84 We suggest that you do *not* use the `Debug` configuration unless you really |
| 1360 | 85 need it, for the additional checks that are made will lead to a very long |
| 86 build time and much slower execution (more severe than with a native non-wasm | |
| 87 target) | |
| 1378 | 88 |
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89 In order to run the sample, you may serve it with the ServeFolders plugin. |
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90 You can i.e: add such a section in your orthanc configuration file: |
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91 |
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92 ``` |
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93 { |
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94 "Plugins" : ["LibServeFolders.so], |
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95 "ServeFolders" : { |
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96 "/single-frame-viewer" : "..../out/install-stone-wasm-samples-RelWithDebInfo/SingleFrameViewer", |
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97 "/rt-viewer": "..../out/install-stone-wasm-samples-RelWithDebInfo/RtViewer" |
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98 } |
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99 } |
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100 ``` |
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101 |
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102 You'll then be able to open the single-frame-viewer demo at `http://localhost:8042/single-frame-viewer/index.html` |
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103 |
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104 The rt-viewer demo at |
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105 `http://localhost:8044/rt-viewer/index.html?ctseries=a04ecf01-79b2fc33-58239f7e-ad9db983-28e81afa&rtdose=eac822ef-a395f94e-e8121fe0-8411fef8-1f7bffad&rtstruct=54460695-ba3885ee-ddf61ac0-f028e31d-a6e474d9`. Note that you must provide 3 ids in the url: |
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106 |
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107 - the CT series Orthanc ID |
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108 - the RT-Dose instance Orthanc ID |
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109 - the RT-Struct instance Orthanc ID |
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110 |
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111 |
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112 RtViewer |
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113 ----------------- |
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114 |
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115 This sample application displays three MPR views of a CT+RTDOSE+RTSTRUCT dataset, loaded from Orthanc. The Orthanc IDs of the dataset must be supplied as URL parameters like: |
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116 |
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117 ``` |
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118 http://localhost:9979/stone-rtviewer/index.html?loglevel=info&ctseries=a04ecf01-79b2fc33-58239f7e-ad9db983-28e81afa&rtdose=830a69ff-8e4b5ee3-b7f966c8-bccc20fb-d322dceb&rtstruct=54460695-ba3885ee-ddf61ac0-f028e31d-a6e474d9 |
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119 ``` |
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120 |
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121 (notice the loglevel parameter that can be `warning`, `info` or `trace`, in increasing verbosity order) |
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122 |
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123 This sample uses plain Javascript and requires the |
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124 Emscripten toolchain and cmake, in addition to a few standard packages. |
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125 |
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126 To build it, just launch the `build-wasm-RtViewer.sh` script from |
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127 this folder. Optionaly, you can pass the build type as an argument. |
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128 We suggest that you do *not* use the `Debug` configuration unless you really |
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129 need it, for the additional checks that are made will lead to a very long |
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130 build time and much slower execution (more severe than with a native non-wasm |
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131 target) |
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132 |
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133 In order to run the sample, you may serve it with the ServeFolders plugin. |
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134 You can i.e: add such a section in your orthanc configuration file: |
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135 |
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136 ``` |
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137 { |
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138 "Plugins" : ["LibServeFolders.so], |
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139 "ServeFolders" : { |
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140 "/rt-viewer" : "..../out/install-stone-wasm-RtViewer-RelWithDebInfo" |
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141 } |
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142 } |
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143 ``` |
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144 |
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145 You'll then be able to open the demo at `http://localhost:8042/rt-viewer/index.html` |
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146 |
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147 |
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148 RtViewerPlugin |
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149 --------------- |
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150 This C++ plugin allows to extend the Orthanc Explorer to add a button labeled "Stone RT Viewer" |
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151 in the series page. |
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152 |
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153 It also embeds and serves the RT Viewer files and is thus a standalone way of using this viewer. |
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154 |
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155 Please note that building this plugin requires that the RtViewer be built inside the wasm-binaries |
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156 folder of the repo. |
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157 |
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158 This will automatically be the case if you use the `<REPO-ROOT>/OrthancStone/Samples/WebAssembly/docker-build.sh` script. |
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159 |
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160 If you use the `build-wasm-samples.sh` script above, you will have the copy `RtViewer` **folder** |
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161 from `<REPO-ROOT>/out/install-stone-wasm-RtViewer-RelWithDebInfo` to `<REPO-ROOT>/wasm-binaries/`. |
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162 |
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163 TL;DR: Build like this (assuming `~/orthanc-stone` is the repo ): |
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164 |
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165 ``` |
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166 ~/orthanc-stone/OrthancStone/Samples/WebAssembly/docker-build.sh |
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167 ~/orthanc-stone/OrthancStone/Samples/RtViewerPlugin/docker-build.sh |
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168 ``` |
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169 |
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170 Once this is done, the plugin can be found in: |
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171 |
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172 ``` |
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173 ~/orthanc-stone/wasm-binaries/share/orthanc/plugins/libRtViewerPlugin.so |
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174 ``` |
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175 |
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176 Add this path to the `"Plugins"` section of your Orthanc configuration, start Orthanc, and you |
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177 should now see a "Stone MPR RT Viewer" button in the Orthanc Explorer, at the *series* level. |
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178 |
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179 Open it on a CT series, and the RTSTRUCT and RTDOSE series of the same study will be loaded in |
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180 the viewer. |
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181 |
| 1378 | 182 Native samples |
| 183 ================= | |
| 184 | |
| 185 ### Windows build | |
| 186 | |
| 187 Here's how to build the SdlSimpleViewer example using Visual Studio 2019 | |
| 188 (the shell is Powershell, but the legacy shell can also be used with some | |
| 189 tweaks). This example is meant to be launched from the folder above | |
| 190 orthanc-stone. | |
| 191 | |
| 192 ``` | |
| 193 # create the build folder and navigate to it | |
| 194 $buildDir = "build-stone-sdlviewer-msvc16-x64" | |
| 195 | |
| 196 if (-not (Test-Path $buildDir)) { | |
| 197 mkdir -p $buildDir | Out-Null | |
| 198 } | |
| 199 | |
| 200 cd $buildDir | |
| 201 | |
| 202 # perform the configuration | |
| 203 cmake -G "Visual Studio 16 2019" -A x64 ` | |
| 204 -DMSVC_MULTIPLE_PROCESSES=ON ` | |
| 205 -DALLOW_DOWNLOADS=ON ` | |
| 206 -DSTATIC_BUILD=ON ` | |
| 207 -DOPENSSL_NO_CAPIENG=ON ` | |
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208 ../orthanc-stone/OrthancStone/Samples/Sdl |
| 1378 | 209 |
| 210 $solutionPath = ls -filter *.sln | |
| 211 Write-Host "Solution file(s) available at: $solutionPath" | |
| 212 ``` | |
| 213 | |
| 214 The initial configuration step will be quite lengthy, for CMake needs to | |
| 215 setup its internal cache based on your environment and build tools. | |
| 216 | |
| 217 Subsequent runs will be several orders of magnitude faster! | |
| 218 | |
| 219 One the solution (.sln) file is ready, you can open it using the Visual Studio | |
| 220 IDE and choose Build --> Build solution. | |
| 221 | |
| 222 An alternative is to execute `cmake --build .` in the build folder created by | |
| 223 the script. | |
| 224 | |
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225 In order to run the sample, make sure you've an Orthanc server running i.e. on |
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226 port 8042 and launch: |
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227 |
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228 ``` |
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229 ./SdlSimpleViewer --orthanc http://localhost:8042 --instance 7fc84013-abef174e-3354ca83-b9cdb2a4-f1a74368 |
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230 |
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231 ./RtViewerSdl --orthanc http://localhost:8042 --ctseries a04ecf01-79b2fc33-58239f7e-ad9db983-28e81afa --rtdose 830a69ff-8e4b5ee3-b7f966c8-bccc20fb-d322dceb --rtstruct 54460695-ba3885ee-ddf61ac0-f028e31d-a6e474d9 |
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232 ``` |
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233 |
| 1744 | 234 |
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235 RtViewer |
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236 --------------- |
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237 |
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238 ### Windows build |
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239 |
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240 Here's how to build the SdlSimpleViewer example using Visual Studio 2019 |
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241 (the shell is Powershell, but the legacy shell can also be used with some |
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242 tweaks). This example is meant to be launched from the folder above |
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243 orthanc-stone. |
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244 |
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245 ``` |
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246 $buildRootDir = "out" |
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247 $buildDirName = "build-stone-sdl-RtViewer-msvc16-x64" |
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248 $buildDir = Join-Path -Path $buildRootDir -ChildPath $buildDirName |
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249 |
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250 if (-not (Test-Path $buildDir)) { |
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251 mkdir -p $buildDir | Out-Null |
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252 } |
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253 |
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254 cd $buildDir |
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255 |
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256 cmake -G "Visual Studio 16 2019" -A x64 ` |
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257 -DMSVC_MULTIPLE_PROCESSES=ON ` |
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258 -DALLOW_DOWNLOADS=ON ` |
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259 -DSTATIC_BUILD=ON ` |
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260 -DOPENSSL_NO_CAPIENG=ON ` |
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261 ../../orthanc-stone/OrthancStone/Samples/Sdl/RtViewer |
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262 ``` |
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263 |
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264 Executing `cmake --build .` in the build folder will launch the Microsoft |
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265 builder on the solution. |
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266 |
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267 Alternatively, you can open and build the solution using Visual Studio 2019. |
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268 |