Mercurial > hg > orthanc
annotate OrthancServer/RadiotherapyRestApi.cpp @ 532:b22312081388 dicom-rt
extract roi geometry
| author | Sebastien Jodogne <s.jodogne@gmail.com> |
|---|---|
| date | Fri, 30 Aug 2013 16:09:19 +0200 |
| parents | bd2087bb6450 |
| children | da8e064d0d49 |
| rev | line source |
|---|---|
| 526 | 1 /** |
| 2 * Orthanc - A Lightweight, RESTful DICOM Store | |
| 3 * Copyright (C) 2012-2013 Medical Physics Department, CHU of Liege, | |
| 4 * Belgium | |
| 5 * | |
| 6 * This program is free software: you can redistribute it and/or | |
| 7 * modify it under the terms of the GNU General Public License as | |
| 8 * published by the Free Software Foundation, either version 3 of the | |
| 9 * License, or (at your option) any later version. | |
| 10 * | |
| 11 * In addition, as a special exception, the copyright holders of this | |
| 12 * program give permission to link the code of its release with the | |
| 13 * OpenSSL project's "OpenSSL" library (or with modified versions of it | |
| 14 * that use the same license as the "OpenSSL" library), and distribute | |
| 15 * the linked executables. You must obey the GNU General Public License | |
| 16 * in all respects for all of the code used other than "OpenSSL". If you | |
| 17 * modify file(s) with this exception, you may extend this exception to | |
| 18 * your version of the file(s), but you are not obligated to do so. If | |
| 19 * you do not wish to do so, delete this exception statement from your | |
| 20 * version. If you delete this exception statement from all source files | |
| 21 * in the program, then also delete it here. | |
| 22 * | |
| 23 * This program is distributed in the hope that it will be useful, but | |
| 24 * WITHOUT ANY WARRANTY; without even the implied warranty of | |
| 25 * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU | |
| 26 * General Public License for more details. | |
| 27 * | |
| 28 * You should have received a copy of the GNU General Public License | |
| 29 * along with this program. If not, see <http://www.gnu.org/licenses/>. | |
| 30 **/ | |
| 31 | |
| 32 | |
| 33 #include "RadiotherapyRestApi.h" | |
| 34 | |
| 35 #include "ServerToolbox.h" | |
| 36 | |
| 37 #define RETRIEVE_CONTEXT(call) \ | |
| 38 OrthancRestApi& contextApi = \ | |
| 39 dynamic_cast<OrthancRestApi&>(call.GetContext()); \ | |
| 40 ServerContext& context = contextApi.GetContext() | |
| 41 | |
| 42 | |
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43 // DICOM tags for RT-STRUCT |
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44 |
| 526 | 45 #define REFERENCED_STUDY_SEQUENCE "0008,1110" |
| 46 #define REFERENCED_SOP_INSTANCE_UID "0008,1155" | |
| 47 #define FRAME_OF_REFERENCE_UID "0020,0052" | |
| 48 #define REFERENCED_FRAME_OF_REFERENCE_SEQUENCE "3006,0010" | |
| 529 | 49 #define STRUCTURE_SET_ROI_SEQUENCE "3006,0020" |
| 50 #define ROI_NUMBER "3006,0022" | |
| 51 #define ROI_NAME "3006,0026" | |
| 52 #define ROI_GENERATION_ALGORITHM "3006,0036" | |
| 53 #define ROI_CONTOUR_SEQUENCE "3006,0039" | |
| 54 #define REFERENCED_ROI_NUMBER "3006,0084" | |
| 55 #define ROI_DISPLAY_COLOR "3006,002a" | |
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56 #define CONTOUR_SEQUENCE "3006,0040" |
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57 #define CONTOUR_IMAGE_SEQUENCE "3006,0016" |
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58 #define CONTOUR_GEOMETRIC_TYPE "3006,0042" |
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59 #define NUMBER_OF_CONTOUR_POINTS "3006,0046" |
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60 #define CONTOUR_DATA "3006,0050" |
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61 |
| 526 | 62 |
| 63 namespace Orthanc | |
| 64 { | |
| 65 static bool CheckSeriesModality(Json::Value& study, | |
| 66 Json::Value& series, | |
| 67 Json::Value& content, | |
| 68 ServerContext& context, | |
| 69 const std::string& seriesId, | |
| 70 const std::string& modality) | |
| 71 { | |
| 72 if (!context.GetIndex().LookupResource(series, seriesId, ResourceType_Series)) | |
| 73 { | |
| 74 return false; | |
| 75 } | |
| 76 | |
| 77 // Retrieve the parent study | |
| 78 std::string studyId = series["ParentStudy"].asString(); | |
| 79 if (!context.GetIndex().LookupResource(study, studyId, ResourceType_Study)) | |
| 80 { | |
| 81 return false; | |
| 82 } | |
| 83 | |
| 84 // Check the modality and that there is a single instance inside the series | |
| 85 if (!series["MainDicomTags"].isMember("Modality") || | |
| 86 series["MainDicomTags"]["Modality"].asString() != modality || | |
| 87 series["Instances"].size() != 1) | |
| 88 { | |
| 89 return false; | |
| 90 } | |
| 91 | |
| 92 // Retrieve the instance data | |
| 93 std::string instanceId = series["Instances"][0].asString(); | |
| 94 | |
| 95 Json::Value info; | |
| 96 context.ReadJson(content, instanceId); | |
| 97 | |
| 98 return true; | |
| 99 } | |
| 100 | |
| 101 | |
| 102 static bool GetRtStructuresInfo(Json::Value& study, | |
| 103 Json::Value& series, | |
| 104 Json::Value& content, | |
| 105 std::string& frameOfReference, | |
| 106 ServerContext& context, | |
| 107 const std::string& seriesId) | |
| 108 { | |
| 109 if (!CheckSeriesModality(study, series, content, context, seriesId, "RTSTRUCT")) | |
| 110 { | |
| 111 return false; | |
| 112 } | |
| 113 | |
| 114 // Check that the "ReferencedStudySequence" is the same as the parent study. | |
| 115 if (!content.isMember(REFERENCED_STUDY_SEQUENCE) || | |
| 116 content[REFERENCED_STUDY_SEQUENCE]["Value"].size() != 1 || | |
| 117 !content[REFERENCED_STUDY_SEQUENCE]["Value"][0].isMember(REFERENCED_SOP_INSTANCE_UID) || | |
| 118 content[REFERENCED_STUDY_SEQUENCE]["Value"][0][REFERENCED_SOP_INSTANCE_UID]["Value"].asString() != | |
| 119 study["MainDicomTags"]["StudyInstanceUID"].asString()) | |
| 120 { | |
| 121 return false; | |
| 122 } | |
| 123 | |
| 124 // Lookup for the frame of reference. Orthanc does not support | |
| 125 // RTSTRUCT with multiple frames of reference. | |
| 126 if (!content.isMember(REFERENCED_FRAME_OF_REFERENCE_SEQUENCE) || | |
| 127 content[REFERENCED_FRAME_OF_REFERENCE_SEQUENCE]["Value"].size() != 1 || | |
| 128 !content[REFERENCED_FRAME_OF_REFERENCE_SEQUENCE]["Value"][0].isMember(FRAME_OF_REFERENCE_UID)) | |
| 129 { | |
| 130 return false; | |
| 131 } | |
| 132 | |
| 133 frameOfReference = content[REFERENCED_FRAME_OF_REFERENCE_SEQUENCE]["Value"][0][FRAME_OF_REFERENCE_UID]["Value"].asString(); | |
| 134 | |
| 135 return true; | |
| 136 } | |
| 137 | |
| 138 | |
| 139 static void GetRtStructuresInfo(RestApi::GetCall& call) | |
| 140 { | |
| 141 RETRIEVE_CONTEXT(call); | |
| 142 | |
| 143 Json::Value study, series, content; | |
| 144 std::string frameOfReference; | |
| 145 if (GetRtStructuresInfo(study, series, content, frameOfReference, context, call.GetUriComponent("id", ""))) | |
| 146 { | |
| 147 Json::Value result; | |
| 148 | |
| 149 result["Study"] = study["ID"]; | |
| 150 | |
| 151 | |
| 152 // Lookup the series with the same frame of reference inside this study | |
| 153 result["RelatedSeries"] = Json::arrayValue; | |
| 154 | |
| 155 for (Json::Value::ArrayIndex i = 0; i < study["Series"].size(); i++) | |
| 156 { | |
| 157 Json::Value otherSeries; | |
| 158 if (context.GetIndex().LookupResource(otherSeries, study["Series"][i].asString(), ResourceType_Series) && | |
| 159 otherSeries["Instances"].size() > 0) | |
| 160 { | |
| 161 Json::Value info; | |
| 162 context.ReadJson(info, otherSeries["Instances"][0].asString()); | |
| 163 | |
| 164 if (info.isMember(FRAME_OF_REFERENCE_UID)) | |
| 165 { | |
| 166 result["RelatedSeries"].append(study["Series"][i].asString()); | |
| 167 } | |
| 168 } | |
| 169 } | |
| 170 | |
| 529 | 171 |
| 526 | 172 call.GetOutput().AnswerJson(result); |
| 173 } | |
| 174 } | |
| 175 | |
| 176 | |
| 529 | 177 static void GetRtStructuresListOfROIs(RestApi::GetCall& call) |
| 178 { | |
| 179 RETRIEVE_CONTEXT(call); | |
| 180 | |
| 181 Json::Value study, series, content; | |
| 182 std::string frameOfReference; | |
| 183 if (GetRtStructuresInfo(study, series, content, frameOfReference, context, call.GetUriComponent("id", ""))) | |
| 184 { | |
| 185 Json::Value result(Json::arrayValue); | |
| 186 | |
| 187 if (content.isMember(STRUCTURE_SET_ROI_SEQUENCE)) | |
| 188 { | |
| 189 for (Json::Value::ArrayIndex i = 0; i < content[STRUCTURE_SET_ROI_SEQUENCE]["Value"].size(); i++) | |
| 190 { | |
| 191 if (content[STRUCTURE_SET_ROI_SEQUENCE]["Value"][i].isMember(ROI_NUMBER)) | |
| 192 { | |
| 193 result.append(content[STRUCTURE_SET_ROI_SEQUENCE]["Value"][i][ROI_NUMBER]["Value"].asString()); | |
| 194 } | |
| 195 } | |
| 196 } | |
| 197 | |
| 198 call.GetOutput().AnswerJson(result); | |
| 199 } | |
| 200 } | |
| 201 | |
| 202 | |
| 203 static void GetRtStructuresROI(RestApi::GetCall& call) | |
| 204 { | |
| 205 RETRIEVE_CONTEXT(call); | |
| 206 | |
| 207 Json::Value study, series, content; | |
| 208 std::string frameOfReference; | |
| 209 if (GetRtStructuresInfo(study, series, content, frameOfReference, context, call.GetUriComponent("id", ""))) | |
| 210 { | |
| 211 if (content.isMember(STRUCTURE_SET_ROI_SEQUENCE) && | |
| 212 content.isMember(ROI_CONTOUR_SEQUENCE)) | |
| 213 { | |
| 214 Json::Value result; | |
| 215 | |
| 216 bool found = false; | |
| 217 for (Json::Value::ArrayIndex i = 0; i < content[STRUCTURE_SET_ROI_SEQUENCE]["Value"].size(); i++) | |
| 218 { | |
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219 const Json::Value& roi = content[STRUCTURE_SET_ROI_SEQUENCE]["Value"][i]; |
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220 |
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221 if (roi.isMember(ROI_NUMBER) && |
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222 roi.isMember(ROI_NAME) && |
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223 roi[ROI_NUMBER]["Value"].asString() == call.GetUriComponent("roi", "")) |
| 529 | 224 { |
| 225 result["Number"] = call.GetUriComponent("roi", ""); | |
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226 result["Name"] = roi[ROI_NAME]["Value"].asString(); |
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227 result["GenerationAlgorithm"] = roi[ROI_GENERATION_ALGORITHM]["Value"].asString(); |
| 529 | 228 found = true; |
| 229 } | |
| 230 } | |
| 231 | |
| 232 if (!found) | |
| 233 { | |
| 234 return; | |
| 235 } | |
| 236 | |
| 237 found = false; | |
| 238 | |
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239 boost::mutex::scoped_lock lock(context.GetDicomFileMutex()); |
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240 ParsedDicomFile& dicom = context.GetDicomFile(series["Instances"][0].asString()); |
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241 |
| 529 | 242 for (Json::Value::ArrayIndex i = 0; i < content[ROI_CONTOUR_SEQUENCE]["Value"].size(); i++) |
| 243 { | |
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244 const Json::Value& contour = content[ROI_CONTOUR_SEQUENCE]["Value"][i]; |
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245 |
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246 if (contour.isMember(REFERENCED_ROI_NUMBER) && |
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247 contour.isMember(ROI_DISPLAY_COLOR) && |
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248 contour.isMember(CONTOUR_SEQUENCE) && |
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249 contour[REFERENCED_ROI_NUMBER]["Value"].asString() == call.GetUriComponent("roi", "")) |
| 529 | 250 { |
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251 std::vector<std::string> color; |
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252 Toolbox::Split(color, contour[ROI_DISPLAY_COLOR]["Value"].asString(), '\\'); |
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253 |
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254 result["Points"] = Json::objectValue; |
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255 result["ClosedPlanar"] = Json::objectValue; |
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256 result["DisplayColor"] = Json::arrayValue; |
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257 for (size_t k = 0; k < color.size(); k++) |
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258 { |
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259 result["DisplayColor"].append(boost::lexical_cast<int>(color[k])); |
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260 } |
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261 |
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262 for (Json::Value::ArrayIndex j = 0; j < contour[CONTOUR_SEQUENCE]["Value"].size(); j++) |
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263 { |
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264 const Json::Value& contourSequence = contour[CONTOUR_SEQUENCE]["Value"][j]; |
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265 |
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266 if (contourSequence.isMember(CONTOUR_IMAGE_SEQUENCE) && |
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267 contourSequence.isMember(CONTOUR_GEOMETRIC_TYPE) && |
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268 contourSequence.isMember(NUMBER_OF_CONTOUR_POINTS) && |
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269 contourSequence.isMember(CONTOUR_DATA) && |
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270 contourSequence[CONTOUR_IMAGE_SEQUENCE]["Value"].size() == 1 && |
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271 contourSequence[CONTOUR_IMAGE_SEQUENCE]["Value"][0].isMember(REFERENCED_SOP_INSTANCE_UID)) |
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272 { |
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273 const std::string type = contourSequence[CONTOUR_GEOMETRIC_TYPE]["Value"].asString(); |
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274 if (type != "POINT" && type != "CLOSED_PLANAR") |
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275 { |
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276 continue; |
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277 } |
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278 |
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279 const std::string uid = (contourSequence[CONTOUR_IMAGE_SEQUENCE]["Value"][0] |
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280 [REFERENCED_SOP_INSTANCE_UID]["Value"].asString()); |
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281 |
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282 std::list<std::string> instance; |
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283 context.GetIndex().LookupTagValue(instance, DICOM_TAG_SOP_INSTANCE_UID, uid); |
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284 if (instance.size() != 1) |
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285 { |
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286 continue; |
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287 } |
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288 |
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289 unsigned int countPoints = boost::lexical_cast<unsigned int> |
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290 (contourSequence[NUMBER_OF_CONTOUR_POINTS]["Value"].asString()); |
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291 if (countPoints <= 0) |
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292 { |
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293 continue; |
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294 } |
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295 |
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296 ParsedDicomFile::SequencePath path; |
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297 path.push_back(std::make_pair(DicomTag(0x3006, 0x0039 /* ROIContourSequence */), i)); |
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298 path.push_back(std::make_pair(DicomTag(0x3006, 0x0040 /* ContourSequence */), j)); |
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299 |
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300 std::string contourData; |
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301 dicom.GetTagValue(contourData, path, DicomTag(0x3006, 0x0050 /* ContourData */)); |
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302 |
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303 std::vector<std::string> points; |
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304 Toolbox::Split(points, contourData, '\\'); |
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305 |
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306 Json::Value* target; |
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307 Json::Value item = Json::arrayValue; |
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308 |
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309 if (type == "POINT" && |
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310 countPoints == 1 && |
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311 points.size() == 3) |
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312 { |
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313 target = &result["Points"]; |
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314 item.append(boost::lexical_cast<float>(points[0])); |
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315 item.append(boost::lexical_cast<float>(points[1])); |
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316 item.append(boost::lexical_cast<float>(points[2])); |
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317 } |
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318 else if (type == "CLOSED_PLANAR" && |
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319 points.size() == 3 * countPoints) |
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320 { |
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321 target = &result["ClosedPlanar"]; |
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322 for (size_t k = 0; k < countPoints; k++) |
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323 { |
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324 Json::Value p = Json::arrayValue; |
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325 p.append(boost::lexical_cast<float>(points[3 * k])); |
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326 p.append(boost::lexical_cast<float>(points[3 * k + 1])); |
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327 p.append(boost::lexical_cast<float>(points[3 * k + 2])); |
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328 item.append(p); |
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329 } |
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330 } |
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331 else |
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332 { |
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333 continue; |
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334 } |
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335 |
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336 if (!target->isMember(instance.front())) |
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337 { |
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338 (*target) [instance.front()] = Json::arrayValue; |
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339 } |
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340 |
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341 (*target) [instance.front()].append(item); |
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342 } |
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343 } |
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344 |
| 529 | 345 found = true; |
| 346 } | |
| 347 } | |
| 348 | |
| 349 if (found) | |
| 350 { | |
| 351 call.GetOutput().AnswerJson(result); | |
| 352 } | |
| 353 } | |
| 354 } | |
| 355 } | |
| 356 | |
| 357 | |
| 526 | 358 RadiotherapyRestApi::RadiotherapyRestApi(ServerContext& context) : OrthancRestApi(context) |
| 359 { | |
| 360 Register("/series/{id}/rt-structures", GetRtStructuresInfo); | |
| 529 | 361 Register("/series/{id}/rt-structures/roi", GetRtStructuresListOfROIs); |
| 362 Register("/series/{id}/rt-structures/roi/{roi}", GetRtStructuresROI); | |
| 526 | 363 } |
| 529 | 364 |
| 526 | 365 } |
| 366 | |
| 367 | |
| 368 // curl http://localhost:8042/series/0b9e2bb2-605a59aa-f27c0260-9cc4faf6-9d8bf457/rt-structures | |
| 369 // curl http://localhost:8042/series/ef041e6b-c855e775-f7e0f7fe-dc3c17dc-533cb8c5/rt-structures |