Mercurial > hg > orthanc
annotate OrthancServer/RadiotherapyRestApi.cpp @ 532:b22312081388 dicom-rt
extract roi geometry
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Fri, 30 Aug 2013 16:09:19 +0200 |
parents | bd2087bb6450 |
children | da8e064d0d49 |
rev | line source |
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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" | |
532
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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 | |
532
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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 { | |
532
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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 { |
532
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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 |