Mercurial > hg > orthanc
view OrthancServer/OrthancRestApi/OrthancRestAnonymizeModify.cpp @ 1389:c236a8b35a3b
integration query-retrieve->default
author | Sebastien Jodogne <s.jodogne@gmail.com> |
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date | Fri, 29 May 2015 15:31:46 +0200 |
parents | 6e7e5ed91c2d |
children | 02f5a3f5c0a0 |
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/** * Orthanc - A Lightweight, RESTful DICOM Store * Copyright (C) 2012-2015 Sebastien Jodogne, Medical Physics * Department, University Hospital of Liege, Belgium * * This program is free software: you can redistribute it and/or * modify it under the terms of the GNU General Public License as * published by the Free Software Foundation, either version 3 of the * License, or (at your option) any later version. * * In addition, as a special exception, the copyright holders of this * program give permission to link the code of its release with the * OpenSSL project's "OpenSSL" library (or with modified versions of it * that use the same license as the "OpenSSL" library), and distribute * the linked executables. You must obey the GNU General Public License * in all respects for all of the code used other than "OpenSSL". If you * modify file(s) with this exception, you may extend this exception to * your version of the file(s), but you are not obligated to do so. If * you do not wish to do so, delete this exception statement from your * version. If you delete this exception statement from all source files * in the program, then also delete it here. * * This program is distributed in the hope that it will be useful, but * WITHOUT ANY WARRANTY; without even the implied warranty of * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU * General Public License for more details. * * You should have received a copy of the GNU General Public License * along with this program. If not, see <http://www.gnu.org/licenses/>. **/ #include "../PrecompiledHeadersServer.h" #include "OrthancRestApi.h" #include "../FromDcmtkBridge.h" #include "../../Core/Uuid.h" #include <glog/logging.h> namespace Orthanc { // Modification of DICOM instances ------------------------------------------ enum TagOperation { TagOperation_Keep, TagOperation_Remove }; static void ParseListOfTags(DicomModification& target, const Json::Value& query, TagOperation operation) { if (!query.isArray()) { throw OrthancException(ErrorCode_BadRequest); } for (Json::Value::ArrayIndex i = 0; i < query.size(); i++) { std::string name = query[i].asString(); DicomTag tag = FromDcmtkBridge::ParseTag(name); switch (operation) { case TagOperation_Keep: target.Keep(tag); VLOG(1) << "Keep: " << name << " " << tag << std::endl; break; case TagOperation_Remove: target.Remove(tag); VLOG(1) << "Remove: " << name << " " << tag << std::endl; break; default: throw OrthancException(ErrorCode_InternalError); } } } static void ParseReplacements(DicomModification& target, const Json::Value& replacements) { if (!replacements.isObject()) { throw OrthancException(ErrorCode_BadRequest); } Json::Value::Members members = replacements.getMemberNames(); for (size_t i = 0; i < members.size(); i++) { const std::string& name = members[i]; std::string value = replacements[name].asString(); DicomTag tag = FromDcmtkBridge::ParseTag(name); target.Replace(tag, value); VLOG(1) << "Replace: " << name << " " << tag << " == " << value << std::endl; } } static std::string GeneratePatientName(ServerContext& context) { uint64_t seq = context.GetIndex().IncrementGlobalSequence(GlobalProperty_AnonymizationSequence); return "Anonymized" + boost::lexical_cast<std::string>(seq); } bool OrthancRestApi::ParseModifyRequest(DicomModification& target, const Json::Value& request) { if (request.isObject()) { if (request.isMember("RemovePrivateTags")) { target.SetRemovePrivateTags(true); } if (request.isMember("Remove")) { ParseListOfTags(target, request["Remove"], TagOperation_Remove); } if (request.isMember("Replace")) { ParseReplacements(target, request["Replace"]); } return true; } else { return false; } } static bool ParseModifyRequest(DicomModification& target, const RestApiPostCall& call) { // curl http://localhost:8042/series/95a6e2bf-9296e2cc-bf614e2f-22b391ee-16e010e0/modify -X POST -d '{"Replace":{"InstitutionName":"My own clinic"}}' Json::Value request; if (call.ParseJsonRequest(request)) { return OrthancRestApi::ParseModifyRequest(target, request); } else { return false; } } static bool ParseAnonymizationRequest(DicomModification& target, RestApiPostCall& call) { // curl http://localhost:8042/instances/6e67da51-d119d6ae-c5667437-87b9a8a5-0f07c49f/anonymize -X POST -d '{"Replace":{"PatientName":"hello","0010-0020":"world"},"Keep":["StudyDescription", "SeriesDescription"],"KeepPrivateTags": null,"Remove":["Modality"]}' > Anonymized.dcm target.SetupAnonymization(); std::string patientName = target.GetReplacement(DICOM_TAG_PATIENT_NAME); Json::Value request; if (call.ParseJsonRequest(request) && request.isObject()) { if (request.isMember("KeepPrivateTags")) { target.SetRemovePrivateTags(false); } if (request.isMember("Remove")) { ParseListOfTags(target, request["Remove"], TagOperation_Remove); } if (request.isMember("Replace")) { ParseReplacements(target, request["Replace"]); } if (request.isMember("Keep")) { ParseListOfTags(target, request["Keep"], TagOperation_Keep); } if (target.IsReplaced(DICOM_TAG_PATIENT_NAME) && target.GetReplacement(DICOM_TAG_PATIENT_NAME) == patientName) { // Overwrite the random Patient's Name by one that is more // user-friendly (provided none was specified by the user) target.Replace(DICOM_TAG_PATIENT_NAME, GeneratePatientName(OrthancRestApi::GetContext(call)), true); } return true; } else { return false; } } static void AnonymizeOrModifyInstance(DicomModification& modification, RestApiPostCall& call) { std::string id = call.GetUriComponent("id", ""); ServerContext::DicomCacheLocker locker(OrthancRestApi::GetContext(call), id); std::auto_ptr<ParsedDicomFile> modified(locker.GetDicom().Clone()); modification.Apply(*modified); modified->Answer(call.GetOutput()); } static void AnonymizeOrModifyResource(DicomModification& modification, MetadataType metadataType, ChangeType changeType, ResourceType resourceType, RestApiPostCall& call) { bool isFirst = true; Json::Value result(Json::objectValue); ServerContext& context = OrthancRestApi::GetContext(call); typedef std::list<std::string> Instances; Instances instances; std::string id = call.GetUriComponent("id", ""); context.GetIndex().GetChildInstances(instances, id); if (instances.empty()) { return; } /** * Loop over all the instances of the resource. **/ for (Instances::const_iterator it = instances.begin(); it != instances.end(); ++it) { LOG(INFO) << "Modifying instance " << *it; std::auto_ptr<ServerContext::DicomCacheLocker> locker; try { locker.reset(new ServerContext::DicomCacheLocker(OrthancRestApi::GetContext(call), *it)); } catch (OrthancException&) { // This child instance has been removed in between continue; } ParsedDicomFile& original = locker->GetDicom(); DicomInstanceHasher originalHasher = original.GetHasher(); /** * Compute the resulting DICOM instance. **/ std::auto_ptr<ParsedDicomFile> modified(original.Clone()); modification.Apply(*modified); DicomInstanceToStore toStore; toStore.SetParsedDicomFile(*modified); /** * Prepare the metadata information to associate with the * resulting DICOM instance (AnonymizedFrom/ModifiedFrom). **/ DicomInstanceHasher modifiedHasher = modified->GetHasher(); if (originalHasher.HashSeries() != modifiedHasher.HashSeries()) { toStore.AddMetadata(ResourceType_Series, metadataType, originalHasher.HashSeries()); } if (originalHasher.HashStudy() != modifiedHasher.HashStudy()) { toStore.AddMetadata(ResourceType_Study, metadataType, originalHasher.HashStudy()); } if (originalHasher.HashPatient() != modifiedHasher.HashPatient()) { toStore.AddMetadata(ResourceType_Patient, metadataType, originalHasher.HashPatient()); } assert(*it == originalHasher.HashInstance()); toStore.AddMetadata(ResourceType_Instance, metadataType, *it); /** * Store the resulting DICOM instance into the Orthanc store. **/ std::string modifiedInstance; if (context.Store(modifiedInstance, toStore) != StoreStatus_Success) { LOG(ERROR) << "Error while storing a modified instance " << *it; return; } // Sanity checks in debug mode assert(modifiedInstance == modifiedHasher.HashInstance()); /** * Compute the JSON object that is returned by the REST call. **/ if (isFirst) { std::string newId; switch (resourceType) { case ResourceType_Series: newId = modifiedHasher.HashSeries(); break; case ResourceType_Study: newId = modifiedHasher.HashStudy(); break; case ResourceType_Patient: newId = modifiedHasher.HashPatient(); break; default: throw OrthancException(ErrorCode_InternalError); } result["Type"] = EnumerationToString(resourceType); result["ID"] = newId; result["Path"] = GetBasePath(resourceType, newId); result["PatientID"] = modifiedHasher.HashPatient(); isFirst = false; } } call.GetOutput().AnswerJson(result); } static void ModifyInstance(RestApiPostCall& call) { DicomModification modification; modification.SetAllowManualIdentifiers(true); if (ParseModifyRequest(modification, call)) { if (modification.IsReplaced(DICOM_TAG_PATIENT_ID)) { modification.SetLevel(ResourceType_Patient); } else if (modification.IsReplaced(DICOM_TAG_STUDY_INSTANCE_UID)) { modification.SetLevel(ResourceType_Study); } else if (modification.IsReplaced(DICOM_TAG_SERIES_INSTANCE_UID)) { modification.SetLevel(ResourceType_Series); } else { modification.SetLevel(ResourceType_Instance); } AnonymizeOrModifyInstance(modification, call); } } static void AnonymizeInstance(RestApiPostCall& call) { DicomModification modification; modification.SetAllowManualIdentifiers(true); if (ParseAnonymizationRequest(modification, call)) { AnonymizeOrModifyInstance(modification, call); } } template <enum ChangeType changeType, enum ResourceType resourceType> static void ModifyResource(RestApiPostCall& call) { DicomModification modification; if (ParseModifyRequest(modification, call)) { modification.SetLevel(resourceType); AnonymizeOrModifyResource(modification, MetadataType_ModifiedFrom, changeType, resourceType, call); } } template <enum ChangeType changeType, enum ResourceType resourceType> static void AnonymizeResource(RestApiPostCall& call) { DicomModification modification; if (ParseAnonymizationRequest(modification, call)) { AnonymizeOrModifyResource(modification, MetadataType_AnonymizedFrom, changeType, resourceType, call); } } static void CreateDicom(RestApiPostCall& call) { // curl http://localhost:8042/tools/create-dicom -X POST -d '{"PatientName":"Hello^World"}' // curl http://localhost:8042/tools/create-dicom -X POST -d '{"PatientName":"Hello^World","PixelData":"data:image/png;base64,iVBORw0KGgoAAAANSUhEUgAAABAAAAAQCAAAAAA6mKC9AAAACXBIWXMAAAsTAAALEwEAmpwYAAAAB3RJTUUH3gUGDDcB53FulQAAAElJREFUGNNtj0sSAEEEQ1+U+185s1CtmRkblQ9CZldsKHJDk6DLGLJa6chjh0ooQmpjXMM86zPwydGEj6Ed/UGykkEM8X+p3u8/8LcOJIWLGeMAAAAASUVORK5CYII="}' Json::Value replacements; if (call.ParseJsonRequest(replacements) && replacements.isObject()) { ParsedDicomFile dicom; Json::Value::Members members = replacements.getMemberNames(); for (size_t i = 0; i < members.size(); i++) { const std::string& name = members[i]; std::string value = replacements[name].asString(); DicomTag tag = FromDcmtkBridge::ParseTag(name); if (tag == DICOM_TAG_PIXEL_DATA) { dicom.EmbedImage(value); } else { dicom.Replace(tag, value); } } DicomInstanceToStore toStore; toStore.SetParsedDicomFile(dicom); std::string id; StoreStatus status = OrthancRestApi::GetContext(call).Store(id, toStore); if (status == StoreStatus_Failure) { LOG(ERROR) << "Error while storing a manually-created instance"; return; } OrthancRestApi::GetApi(call).AnswerStoredInstance(call, id, status); } } void OrthancRestApi::RegisterAnonymizeModify() { Register("/instances/{id}/modify", ModifyInstance); Register("/series/{id}/modify", ModifyResource<ChangeType_ModifiedSeries, ResourceType_Series>); Register("/studies/{id}/modify", ModifyResource<ChangeType_ModifiedStudy, ResourceType_Study>); Register("/patients/{id}/modify", ModifyResource<ChangeType_ModifiedPatient, ResourceType_Patient>); Register("/instances/{id}/anonymize", AnonymizeInstance); Register("/series/{id}/anonymize", AnonymizeResource<ChangeType_ModifiedSeries, ResourceType_Series>); Register("/studies/{id}/anonymize", AnonymizeResource<ChangeType_ModifiedStudy, ResourceType_Study>); Register("/patients/{id}/anonymize", AnonymizeResource<ChangeType_ModifiedPatient, ResourceType_Patient>); Register("/tools/create-dicom", CreateDicom); } }