Mercurial > hg > orthanc-databases
view Framework/Plugins/IndexBackend.cpp @ 584:47b14499455e find-refactoring
fix initialization in ReadOnly mode
author | Alain Mazy <am@orthanc.team> |
---|---|
date | Mon, 04 Nov 2024 17:51:22 +0100 |
parents | ae7375d38607 |
children | 65e39e76c2b6 |
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line source
/** * Orthanc - A Lightweight, RESTful DICOM Store * Copyright (C) 2012-2016 Sebastien Jodogne, Medical Physics * Department, University Hospital of Liege, Belgium * Copyright (C) 2017-2023 Osimis S.A., Belgium * Copyright (C) 2024-2024 Orthanc Team SRL, Belgium * Copyright (C) 2021-2024 Sebastien Jodogne, ICTEAM UCLouvain, Belgium * * This program is free software: you can redistribute it and/or * modify it under the terms of the GNU Affero General Public License * as published by the Free Software Foundation, either version 3 of * the License, or (at your option) any later version. * * 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 * Affero General Public License for more details. * * You should have received a copy of the GNU Affero General Public License * along with this program. If not, see <http://www.gnu.org/licenses/>. **/ #include "IndexBackend.h" #include "../Common/BinaryStringValue.h" #include "../Common/Integer64Value.h" #include "../Common/Utf8StringValue.h" #include "DatabaseBackendAdapterV2.h" #include "DatabaseBackendAdapterV3.h" #include "DatabaseBackendAdapterV4.h" #include "GlobalProperties.h" #include <Compatibility.h> // For std::unique_ptr<> #include <Logging.h> #include <OrthancException.h> #include <Toolbox.h> namespace OrthancDatabases { static std::string ConvertWildcardToLike(const std::string& query) { std::string s = query; for (size_t i = 0; i < s.size(); i++) { if (s[i] == '*') { s[i] = '%'; } else if (s[i] == '?') { s[i] = '_'; } } // TODO Escape underscores and percents return s; } static std::string JoinChanges(const std::set<uint32_t>& changeTypes) { std::set<std::string> changeTypesString; for (std::set<uint32_t>::const_iterator it = changeTypes.begin(); it != changeTypes.end(); ++it) { changeTypesString.insert(boost::lexical_cast<std::string>(*it)); } std::string joinedChangesTypes; Orthanc::Toolbox::JoinStrings(joinedChangesTypes, changeTypesString, ", "); return joinedChangesTypes; } template <typename T> static void ReadListOfIntegers(std::list<T>& target, DatabaseManager::CachedStatement& statement, const Dictionary& args) { statement.Execute(args); target.clear(); if (!statement.IsDone()) { if (statement.GetResultFieldsCount() != 1) { throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); } statement.SetResultFieldType(0, ValueType_Integer64); while (!statement.IsDone()) { target.push_back(static_cast<T>(statement.ReadInteger64(0))); statement.Next(); } } } static void ReadListOfStrings(std::list<std::string>& target, DatabaseManager::CachedStatement& statement, const Dictionary& args) { statement.Execute(args); target.clear(); if (!statement.IsDone()) { if (statement.GetResultFieldsCount() != 1) { throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); } while (!statement.IsDone()) { target.push_back(statement.ReadString(0)); statement.Next(); } } } namespace // Anonymous namespace to avoid clashes between compilation modules { struct Change { int64_t seq_; int32_t changeType_; OrthancPluginResourceType resourceType_; std::string publicId_; std::string changeDate_; Change(int64_t seq, int32_t changeType, OrthancPluginResourceType resourceType, const std::string& publicId, const std::string& changeDate) : seq_(seq), changeType_(changeType), resourceType_(resourceType), publicId_(publicId), changeDate_(changeDate) { } }; } void IndexBackend::ReadChangesInternal(IDatabaseBackendOutput& output, bool& done, DatabaseManager& manager, DatabaseManager::CachedStatement& statement, const Dictionary& args, uint32_t limit, bool returnFirstResults) { statement.Execute(args); std::list<Change> changes; while (!statement.IsDone()) { changes.push_back(Change( statement.ReadInteger64(0), statement.ReadInteger32(1), static_cast<OrthancPluginResourceType>(statement.ReadInteger32(2)), statement.ReadString(3), statement.ReadString(4) )); statement.Next(); } done = changes.size() <= limit; // 'done' means we have returned all requested changes // if we have retrieved more changes than requested -> cleanup if (changes.size() > limit) { assert(changes.size() == limit+1); // the statement should only request 1 element more if (returnFirstResults) { changes.pop_back(); } else { changes.pop_front(); } } for (std::list<Change>::const_iterator it = changes.begin(); it != changes.end(); ++it) { output.AnswerChange(it->seq_, it->changeType_, it->resourceType_, it->publicId_, it->changeDate_); } } void IndexBackend::ReadExportedResourcesInternal(IDatabaseBackendOutput& output, bool& done, DatabaseManager::CachedStatement& statement, const Dictionary& args, uint32_t limit) { statement.Execute(args); uint32_t count = 0; while (count < limit && !statement.IsDone()) { int64_t seq = statement.ReadInteger64(0); OrthancPluginResourceType resourceType = static_cast<OrthancPluginResourceType>(statement.ReadInteger32(1)); std::string publicId = statement.ReadString(2); output.AnswerExportedResource(seq, resourceType, publicId, statement.ReadString(3), // modality statement.ReadString(8), // date statement.ReadString(4), // patient ID statement.ReadString(5), // study instance UID statement.ReadString(6), // series instance UID statement.ReadString(7)); // sop instance UID statement.Next(); count++; } done = (count < limit || statement.IsDone()); } void IndexBackend::ClearRemainingAncestor(DatabaseManager& manager) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "DELETE FROM RemainingAncestor"); statement.Execute(); } void IndexBackend::ClearDeletedFiles(DatabaseManager& manager) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "DELETE FROM DeletedFiles"); statement.Execute(); } void IndexBackend::ClearDeletedResources(DatabaseManager& manager) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "DELETE FROM DeletedResources"); statement.Execute(); } void IndexBackend::SignalDeletedFiles(IDatabaseBackendOutput& output, DatabaseManager& manager) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT uuid, fileType, uncompressedSize, uncompressedHash, compressionType, " "compressedSize, compressedHash FROM DeletedFiles"); statement.SetReadOnly(true); statement.Execute(); while (!statement.IsDone()) { output.SignalDeletedAttachment(statement.ReadString(0), statement.ReadInteger32(1), statement.ReadInteger64(2), statement.ReadString(3), statement.ReadInteger32(4), statement.ReadInteger64(5), statement.ReadString(6)); statement.Next(); } } void IndexBackend::SignalDeletedResources(IDatabaseBackendOutput& output, DatabaseManager& manager) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT resourceType, publicId FROM DeletedResources"); statement.SetReadOnly(true); statement.Execute(); while (!statement.IsDone()) { output.SignalDeletedResource( statement.ReadString(1), static_cast<OrthancPluginResourceType>(statement.ReadInteger32(0))); statement.Next(); } } IndexBackend::IndexBackend(OrthancPluginContext* context, bool readOnly) : context_(context), readOnly_(readOnly) { } void IndexBackend::SetOutputFactory(IDatabaseBackendOutput::IFactory* factory) { boost::unique_lock<boost::shared_mutex> lock(outputFactoryMutex_); if (factory == NULL) { throw Orthanc::OrthancException(Orthanc::ErrorCode_NullPointer); } else if (outputFactory_.get() != NULL) { throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); } else { outputFactory_.reset(factory); } } IDatabaseBackendOutput* IndexBackend::CreateOutput() { boost::shared_lock<boost::shared_mutex> lock(outputFactoryMutex_); if (outputFactory_.get() == NULL) { throw Orthanc::OrthancException(Orthanc::ErrorCode_BadSequenceOfCalls); } else { return outputFactory_->CreateOutput(); } } static void ExecuteAddAttachment(DatabaseManager::CachedStatement& statement, Dictionary& args, int64_t id, const OrthancPluginAttachment& attachment) { statement.SetParameterType("id", ValueType_Integer64); statement.SetParameterType("type", ValueType_Integer64); statement.SetParameterType("uuid", ValueType_Utf8String); statement.SetParameterType("compressed", ValueType_Integer64); statement.SetParameterType("uncompressed", ValueType_Integer64); statement.SetParameterType("compression", ValueType_Integer64); statement.SetParameterType("hash", ValueType_Utf8String); statement.SetParameterType("hash-compressed", ValueType_Utf8String); args.SetIntegerValue("id", id); args.SetIntegerValue("type", attachment.contentType); args.SetUtf8Value("uuid", attachment.uuid); args.SetIntegerValue("compressed", attachment.compressedSize); args.SetIntegerValue("uncompressed", attachment.uncompressedSize); args.SetIntegerValue("compression", attachment.compressionType); args.SetUtf8Value("hash", attachment.uncompressedHash); args.SetUtf8Value("hash-compressed", attachment.compressedHash); statement.Execute(args); } void IndexBackend::AddAttachment(DatabaseManager& manager, int64_t id, const OrthancPluginAttachment& attachment, int64_t revision) { if (HasRevisionsSupport()) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "INSERT INTO AttachedFiles VALUES(${id}, ${type}, ${uuid}, ${compressed}, " "${uncompressed}, ${compression}, ${hash}, ${hash-compressed}, ${revision})"); Dictionary args; statement.SetParameterType("revision", ValueType_Integer64); args.SetIntegerValue("revision", revision); ExecuteAddAttachment(statement, args, id, attachment); } else { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "INSERT INTO AttachedFiles VALUES(${id}, ${type}, ${uuid}, ${compressed}, " "${uncompressed}, ${compression}, ${hash}, ${hash-compressed})"); Dictionary args; ExecuteAddAttachment(statement, args, id, attachment); } } void IndexBackend::AttachChild(DatabaseManager& manager, int64_t parent, int64_t child) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "UPDATE Resources SET parentId = ${parent} WHERE internalId = ${child}"); statement.SetParameterType("parent", ValueType_Integer64); statement.SetParameterType("child", ValueType_Integer64); Dictionary args; args.SetIntegerValue("parent", parent); args.SetIntegerValue("child", child); statement.Execute(args); } void IndexBackend::ClearChanges(DatabaseManager& manager) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "DELETE FROM Changes"); statement.Execute(); } void IndexBackend::ClearExportedResources(DatabaseManager& manager) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "DELETE FROM ExportedResources"); statement.Execute(); } void IndexBackend::DeleteAttachment(IDatabaseBackendOutput& output, DatabaseManager& manager, int64_t id, int32_t attachment) { ClearDeletedFiles(manager); { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "DELETE FROM AttachedFiles WHERE id=${id} AND fileType=${type}"); statement.SetParameterType("id", ValueType_Integer64); statement.SetParameterType("type", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", id); args.SetIntegerValue("type", static_cast<int>(attachment)); statement.Execute(args); } SignalDeletedFiles(output, manager); } void IndexBackend::DeleteMetadata(DatabaseManager& manager, int64_t id, int32_t metadataType) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "DELETE FROM Metadata WHERE id=${id} and type=${type}"); statement.SetParameterType("id", ValueType_Integer64); statement.SetParameterType("type", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", id); args.SetIntegerValue("type", static_cast<int>(metadataType)); statement.Execute(args); } void IndexBackend::DeleteResource(IDatabaseBackendOutput& output, DatabaseManager& manager, int64_t id) { ClearDeletedFiles(manager); ClearDeletedResources(manager); ClearRemainingAncestor(manager); { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "DELETE FROM Resources WHERE internalId=${id}"); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", id); statement.Execute(args); } { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT * FROM RemainingAncestor"); statement.Execute(); if (!statement.IsDone()) { output.SignalRemainingAncestor( statement.ReadString(1), static_cast<OrthancPluginResourceType>(statement.ReadInteger32(0))); // There is at most 1 remaining ancestor assert((statement.Next(), statement.IsDone())); } } SignalDeletedFiles(output, manager); SignalDeletedResources(output, manager); } void IndexBackend::GetAllInternalIds(std::list<int64_t>& target, DatabaseManager& manager, OrthancPluginResourceType resourceType) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT internalId FROM Resources WHERE resourceType=${type}"); statement.SetReadOnly(true); statement.SetParameterType("type", ValueType_Integer64); Dictionary args; args.SetIntegerValue("type", static_cast<int>(resourceType)); ReadListOfIntegers<int64_t>(target, statement, args); } void IndexBackend::GetAllPublicIds(std::list<std::string>& target, DatabaseManager& manager, OrthancPluginResourceType resourceType) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT publicId FROM Resources WHERE resourceType=${type}"); statement.SetReadOnly(true); statement.SetParameterType("type", ValueType_Integer64); Dictionary args; args.SetIntegerValue("type", static_cast<int>(resourceType)); ReadListOfStrings(target, statement, args); } void IndexBackend::GetAllPublicIds(std::list<std::string>& target, DatabaseManager& manager, OrthancPluginResourceType resourceType, int64_t since, uint32_t limit) { std::string suffix; if (manager.GetDialect() == Dialect_MSSQL) { suffix = "OFFSET ${since} ROWS FETCH FIRST ${limit} ROWS ONLY"; } else if (limit > 0) { suffix = "LIMIT ${limit} OFFSET ${since}"; } std::string sql = "SELECT publicId FROM (SELECT publicId FROM Resources " "WHERE resourceType=${type}) AS tmp ORDER BY tmp.publicId " + suffix; DatabaseManager::CachedStatement statement(STATEMENT_FROM_HERE_DYNAMIC(sql), manager, sql); statement.SetReadOnly(true); Dictionary args; statement.SetParameterType("type", ValueType_Integer64); args.SetIntegerValue("type", static_cast<int>(resourceType)); if (limit > 0) { statement.SetParameterType("limit", ValueType_Integer64); statement.SetParameterType("since", ValueType_Integer64); args.SetIntegerValue("limit", limit); args.SetIntegerValue("since", since); } ReadListOfStrings(target, statement, args); } void IndexBackend::GetChanges(IDatabaseBackendOutput& output, bool& done /*out*/, DatabaseManager& manager, int64_t since, uint32_t limit) { std::set<uint32_t> changeTypes; GetChangesExtended(output, done, manager, since, -1, changeTypes, limit); } /* Use GetOutput().AnswerChange() */ void IndexBackend::GetChangesExtended(IDatabaseBackendOutput& output, bool& done /*out*/, DatabaseManager& manager, int64_t since, int64_t to, const std::set<uint32_t>& changeTypes, uint32_t limit) { std::string limitSuffix; if (manager.GetDialect() == Dialect_MSSQL) { limitSuffix = "OFFSET 0 ROWS FETCH FIRST ${limit} ROWS ONLY"; } else { limitSuffix = "LIMIT ${limit}"; } std::vector<std::string> filters; bool hasSince = false; bool hasTo = false; if (since > 0) { hasSince = true; filters.push_back("seq>${since}"); } if (to != -1) { hasTo = true; filters.push_back("seq<=${to}"); } #if ORTHANC_PLUGINS_HAS_CHANGES_EXTENDED == 1 if (changeTypes.size() > 0) { filters.push_back("changeType IN (" + JoinChanges(changeTypes) + ") "); } #endif std::string filtersString; if (filters.size() > 0) { Orthanc::Toolbox::JoinStrings(filtersString, filters, " AND "); filtersString = "WHERE " + filtersString; } std::string sql; bool returnFirstResults; if (hasTo && !hasSince) { // in this case, we want the largest values but we want them ordered in ascending order sql = "SELECT * FROM (SELECT Changes.seq, Changes.changeType, Changes.resourceType, Resources.publicId, Changes.date " "FROM Changes INNER JOIN Resources " "ON Changes.internalId = Resources.internalId " + filtersString + " ORDER BY seq DESC " + limitSuffix + ") AS FilteredChanges ORDER BY seq ASC"; returnFirstResults = false; } else { // default query: we want the smallest values ordered in ascending order sql = "SELECT Changes.seq, Changes.changeType, Changes.resourceType, Resources.publicId, " "Changes.date FROM Changes INNER JOIN Resources " "ON Changes.internalId = Resources.internalId " + filtersString + " ORDER BY seq ASC " + limitSuffix; returnFirstResults = true; } DatabaseManager::CachedStatement statement(STATEMENT_FROM_HERE_DYNAMIC(sql), manager, sql); statement.SetReadOnly(true); Dictionary args; statement.SetParameterType("limit", ValueType_Integer64); args.SetIntegerValue("limit", limit + 1); // we take limit+1 because we use the +1 to know if "Done" must be set to true if (hasSince) { statement.SetParameterType("since", ValueType_Integer64); args.SetIntegerValue("since", since); } if (hasTo) { statement.SetParameterType("to", ValueType_Integer64); args.SetIntegerValue("to", to); } ReadChangesInternal(output, done, manager, statement, args, limit, returnFirstResults); } void IndexBackend::GetChildrenInternalId(std::list<int64_t>& target /*out*/, DatabaseManager& manager, int64_t id) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT a.internalId FROM Resources AS a, Resources AS b " "WHERE a.parentId = b.internalId AND b.internalId = ${id}"); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", id); ReadListOfIntegers<int64_t>(target, statement, args); } void IndexBackend::GetChildrenPublicId(std::list<std::string>& target /*out*/, DatabaseManager& manager, int64_t id) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT a.publicId FROM Resources AS a, Resources AS b " "WHERE a.parentId = b.internalId AND b.internalId = ${id}"); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", id); ReadListOfStrings(target, statement, args); } /* Use GetOutput().AnswerExportedResource() */ void IndexBackend::GetExportedResources(IDatabaseBackendOutput& output, bool& done /*out*/, DatabaseManager& manager, int64_t since, uint32_t limit) { std::string suffix; if (manager.GetDialect() == Dialect_MSSQL) { suffix = "OFFSET 0 ROWS FETCH FIRST ${limit} ROWS ONLY"; } else { suffix = "LIMIT ${limit}"; } DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT * FROM ExportedResources WHERE seq>${since} ORDER BY seq " + suffix); statement.SetReadOnly(true); statement.SetParameterType("limit", ValueType_Integer64); statement.SetParameterType("since", ValueType_Integer64); Dictionary args; args.SetIntegerValue("limit", limit + 1); args.SetIntegerValue("since", since); ReadExportedResourcesInternal(output, done, statement, args, limit); } /* Use GetOutput().AnswerChange() */ void IndexBackend::GetLastChange(IDatabaseBackendOutput& output, DatabaseManager& manager) { std::string suffix; if (manager.GetDialect() == Dialect_MSSQL) { suffix = "OFFSET 0 ROWS FETCH FIRST 1 ROWS ONLY"; } else { suffix = "LIMIT 1"; } DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT Changes.seq, Changes.changeType, Changes.resourceType, Resources.publicId, " "Changes.date FROM Changes INNER JOIN Resources " "ON Changes.internalId = Resources.internalId ORDER BY seq DESC " + suffix); statement.SetReadOnly(true); Dictionary args; bool done; // Ignored ReadChangesInternal(output, done, manager, statement, args, 1, true); } /* Use GetOutput().AnswerExportedResource() */ void IndexBackend::GetLastExportedResource(IDatabaseBackendOutput& output, DatabaseManager& manager) { std::string suffix; if (manager.GetDialect() == Dialect_MSSQL) { suffix = "OFFSET 0 ROWS FETCH FIRST 1 ROWS ONLY"; } else { suffix = "LIMIT 1"; } DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT * FROM ExportedResources ORDER BY seq DESC " + suffix); statement.SetReadOnly(true); Dictionary args; bool done; // Ignored ReadExportedResourcesInternal(output, done, statement, args, 1); } /* Use GetOutput().AnswerDicomTag() */ void IndexBackend::GetMainDicomTags(IDatabaseBackendOutput& output, DatabaseManager& manager, int64_t id) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT * FROM MainDicomTags WHERE id=${id}"); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", id); statement.Execute(args); while (!statement.IsDone()) { output.AnswerDicomTag(static_cast<uint16_t>(statement.ReadInteger64(1)), static_cast<uint16_t>(statement.ReadInteger64(2)), statement.ReadString(3)); statement.Next(); } } std::string IndexBackend::GetPublicId(DatabaseManager& manager, int64_t resourceId) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT publicId FROM Resources WHERE internalId=${id}"); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", resourceId); statement.Execute(args); if (statement.IsDone()) { throw Orthanc::OrthancException(Orthanc::ErrorCode_UnknownResource, "No public id found for internal id"); } else { return statement.ReadString(0); } } uint64_t IndexBackend::GetResourcesCount(DatabaseManager& manager, OrthancPluginResourceType resourceType) { std::unique_ptr<DatabaseManager::CachedStatement> statement; switch (manager.GetDialect()) { case Dialect_MySQL: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "SELECT CAST(COUNT(*) AS UNSIGNED INT) FROM Resources WHERE resourceType=${type}")); break; case Dialect_PostgreSQL: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "SELECT CAST(COUNT(*) AS BIGINT) FROM Resources WHERE resourceType=${type}")); break; case Dialect_MSSQL: case Dialect_SQLite: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "SELECT COUNT(*) FROM Resources WHERE resourceType=${type}")); break; default: throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); } statement->SetReadOnly(true); statement->SetParameterType("type", ValueType_Integer64); Dictionary args; args.SetIntegerValue("type", resourceType); statement->Execute(args); return static_cast<uint64_t>(statement->ReadInteger64(0)); } OrthancPluginResourceType IndexBackend::GetResourceType(DatabaseManager& manager, int64_t resourceId) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT resourceType FROM Resources WHERE internalId=${id}"); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", resourceId); statement.Execute(args); if (statement.IsDone()) { throw Orthanc::OrthancException(Orthanc::ErrorCode_UnknownResource, "No resource type found for internal id."); } else { return static_cast<OrthancPluginResourceType>(statement.ReadInteger32(0)); } } uint64_t IndexBackend::GetTotalCompressedSize(DatabaseManager& manager) { std::unique_ptr<DatabaseManager::CachedStatement> statement; // NB: "COALESCE" is used to replace "NULL" by "0" if the number of rows is empty switch (manager.GetDialect()) { case Dialect_MySQL: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "SELECT CAST(COALESCE(SUM(compressedSize), 0) AS UNSIGNED INTEGER) FROM AttachedFiles")); break; case Dialect_PostgreSQL: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "SELECT CAST(COALESCE(SUM(compressedSize), 0) AS BIGINT) FROM AttachedFiles")); break; case Dialect_MSSQL: case Dialect_SQLite: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "SELECT COALESCE(SUM(compressedSize), 0) FROM AttachedFiles")); break; default: throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); } statement->SetReadOnly(true); statement->Execute(); return static_cast<uint64_t>(statement->ReadInteger64(0)); } uint64_t IndexBackend::GetTotalUncompressedSize(DatabaseManager& manager) { std::unique_ptr<DatabaseManager::CachedStatement> statement; // NB: "COALESCE" is used to replace "NULL" by "0" if the number of rows is empty switch (manager.GetDialect()) { case Dialect_MySQL: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "SELECT CAST(COALESCE(SUM(uncompressedSize), 0) AS UNSIGNED INTEGER) FROM AttachedFiles")); break; case Dialect_PostgreSQL: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "SELECT CAST(COALESCE(SUM(uncompressedSize), 0) AS BIGINT) FROM AttachedFiles")); break; case Dialect_MSSQL: case Dialect_SQLite: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "SELECT COALESCE(SUM(uncompressedSize), 0) FROM AttachedFiles")); break; default: throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); } statement->SetReadOnly(true); statement->Execute(); return static_cast<uint64_t>(statement->ReadInteger64(0)); } bool IndexBackend::IsExistingResource(DatabaseManager& manager, int64_t internalId) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT * FROM Resources WHERE internalId=${id}"); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", internalId); statement.Execute(args); return !statement.IsDone(); } bool IndexBackend::IsProtectedPatient(DatabaseManager& manager, int64_t internalId) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT * FROM PatientRecyclingOrder WHERE patientId = ${id}"); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", internalId); statement.Execute(args); return statement.IsDone(); } void IndexBackend::ListAvailableMetadata(std::list<int32_t>& target /*out*/, DatabaseManager& manager, int64_t id) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT type FROM Metadata WHERE id=${id}"); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", id); ReadListOfIntegers<int32_t>(target, statement, args); } void IndexBackend::ListAvailableAttachments(std::list<int32_t>& target /*out*/, DatabaseManager& manager, int64_t id) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT fileType FROM AttachedFiles WHERE id=${id}"); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", id); ReadListOfIntegers<int32_t>(target, statement, args); } void IndexBackend::LogChange(DatabaseManager& manager, int32_t changeType, int64_t resourceId, OrthancPluginResourceType resourceType, const char* date) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "INSERT INTO Changes VALUES(${AUTOINCREMENT} ${changeType}, ${id}, ${resourceType}, ${date})"); statement.SetParameterType("changeType", ValueType_Integer64); statement.SetParameterType("id", ValueType_Integer64); statement.SetParameterType("resourceType", ValueType_Integer64); statement.SetParameterType("date", ValueType_Utf8String); Dictionary args; args.SetIntegerValue("changeType", changeType); args.SetIntegerValue("id", resourceId); args.SetIntegerValue("resourceType", resourceType); args.SetUtf8Value("date", date); statement.Execute(args); } void IndexBackend::LogExportedResource(DatabaseManager& manager, OrthancPluginResourceType resourceType, const char* publicId, const char* modality, const char* date, const char* patientId, const char* studyInstanceUid, const char* seriesInstanceUid, const char* sopInstanceUid) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "INSERT INTO ExportedResources VALUES(${AUTOINCREMENT} ${type}, ${publicId}, " "${modality}, ${patient}, ${study}, ${series}, ${instance}, ${date})"); statement.SetParameterType("type", ValueType_Integer64); statement.SetParameterType("publicId", ValueType_Utf8String); statement.SetParameterType("modality", ValueType_Utf8String); statement.SetParameterType("patient", ValueType_Utf8String); statement.SetParameterType("study", ValueType_Utf8String); statement.SetParameterType("series", ValueType_Utf8String); statement.SetParameterType("instance", ValueType_Utf8String); statement.SetParameterType("date", ValueType_Utf8String); Dictionary args; args.SetIntegerValue("type", resourceType); args.SetUtf8Value("publicId", publicId); args.SetUtf8Value("modality", modality); args.SetUtf8Value("patient", patientId); args.SetUtf8Value("study", studyInstanceUid); args.SetUtf8Value("series", seriesInstanceUid); args.SetUtf8Value("instance", sopInstanceUid); args.SetUtf8Value("date", date); statement.Execute(args); } static bool ExecuteLookupAttachment(DatabaseManager::CachedStatement& statement, IDatabaseBackendOutput& output, int64_t id, int32_t contentType) { statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); statement.SetParameterType("type", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", id); args.SetIntegerValue("type", static_cast<int>(contentType)); statement.Execute(args); if (statement.IsDone()) { return false; } else { output.AnswerAttachment(statement.ReadString(0), contentType, statement.ReadInteger64(1), statement.ReadString(4), statement.ReadInteger32(2), statement.ReadInteger64(3), statement.ReadString(5)); return true; } } /* Use GetOutput().AnswerAttachment() */ bool IndexBackend::LookupAttachment(IDatabaseBackendOutput& output, int64_t& revision /*out*/, DatabaseManager& manager, int64_t id, int32_t contentType) { if (HasRevisionsSupport()) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT uuid, uncompressedSize, compressionType, compressedSize, uncompressedHash, " "compressedHash, revision FROM AttachedFiles WHERE id=${id} AND fileType=${type}"); if (ExecuteLookupAttachment(statement, output, id, contentType)) { if (statement.GetResultField(6).GetType() == ValueType_Null) { // "NULL" can happen with a database created by PostgreSQL // plugin <= 3.3 (because of "ALTER TABLE AttachedFiles") revision = 0; } else { revision = statement.ReadInteger64(6); } return true; } else { return false; } } else { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT uuid, uncompressedSize, compressionType, compressedSize, uncompressedHash, " "compressedHash FROM AttachedFiles WHERE id=${id} AND fileType=${type}"); revision = 0; return ExecuteLookupAttachment(statement, output, id, contentType); } } static bool ReadGlobalProperty(std::string& target, DatabaseManager::CachedStatement& statement, const Dictionary& args) { statement.Execute(args); statement.SetResultFieldType(0, ValueType_Utf8String); if (statement.IsDone()) { return false; } else { ValueType type = statement.GetResultField(0).GetType(); if (type == ValueType_Null) { return false; } else if (type != ValueType_Utf8String) { throw Orthanc::OrthancException(Orthanc::ErrorCode_Database); } else { target = dynamic_cast<const Utf8StringValue&>(statement.GetResultField(0)).GetContent(); return true; } } } bool IndexBackend::LookupGlobalProperty(std::string& target /*out*/, DatabaseManager& manager, const char* serverIdentifier, int32_t property) { if (serverIdentifier == NULL) { throw Orthanc::OrthancException(Orthanc::ErrorCode_NullPointer); } else { if (strlen(serverIdentifier) == 0) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT value FROM GlobalProperties WHERE property=${property}"); statement.SetReadOnly(true); statement.SetParameterType("property", ValueType_Integer64); Dictionary args; args.SetIntegerValue("property", property); return ReadGlobalProperty(target, statement, args); } else { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT value FROM ServerProperties WHERE server=${server} AND property=${property}"); statement.SetReadOnly(true); statement.SetParameterType("server", ValueType_Utf8String); statement.SetParameterType("property", ValueType_Integer64); Dictionary args; args.SetUtf8Value("server", serverIdentifier); args.SetIntegerValue("property", property); return ReadGlobalProperty(target, statement, args); } } } bool IndexBackend::HasAtomicIncrementGlobalProperty() { return false; // currently only implemented in Postgres } int64_t IndexBackend::IncrementGlobalProperty(DatabaseManager& manager, const char* serverIdentifier, int32_t property, int64_t increment) { throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); } bool IndexBackend::HasUpdateAndGetStatistics() { return false; // currently only implemented in Postgres } void IndexBackend::UpdateAndGetStatistics(DatabaseManager& manager, int64_t& patientsCount, int64_t& studiesCount, int64_t& seriesCount, int64_t& instancesCount, int64_t& compressedSize, int64_t& uncompressedSize) { throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); } bool IndexBackend::HasMeasureLatency() { return true; } void IndexBackend::LookupIdentifier(std::list<int64_t>& target /*out*/, DatabaseManager& manager, OrthancPluginResourceType resourceType, uint16_t group, uint16_t element, OrthancPluginIdentifierConstraint constraint, const char* value) { std::unique_ptr<DatabaseManager::CachedStatement> statement; std::string header = "SELECT d.id FROM DicomIdentifiers AS d, Resources AS r WHERE " "d.id = r.internalId AND r.resourceType=${type} AND d.tagGroup=${group} " "AND d.tagElement=${element} AND "; switch (constraint) { case OrthancPluginIdentifierConstraint_Equal: header += "d.value = ${value}"; statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, header.c_str())); break; case OrthancPluginIdentifierConstraint_SmallerOrEqual: header += "d.value <= ${value}"; statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, header.c_str())); break; case OrthancPluginIdentifierConstraint_GreaterOrEqual: header += "d.value >= ${value}"; statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, header.c_str())); break; case OrthancPluginIdentifierConstraint_Wildcard: header += "d.value LIKE ${value}"; statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, header.c_str())); break; default: throw Orthanc::OrthancException(Orthanc::ErrorCode_Database); } statement->SetReadOnly(true); statement->SetParameterType("type", ValueType_Integer64); statement->SetParameterType("group", ValueType_Integer64); statement->SetParameterType("element", ValueType_Integer64); statement->SetParameterType("value", ValueType_Utf8String); Dictionary args; args.SetIntegerValue("type", resourceType); args.SetIntegerValue("group", group); args.SetIntegerValue("element", element); if (constraint == OrthancPluginIdentifierConstraint_Wildcard) { args.SetUtf8Value("value", ConvertWildcardToLike(value)); } else { args.SetUtf8Value("value", value); } statement->Execute(args); target.clear(); while (!statement->IsDone()) { target.push_back(statement->ReadInteger64(0)); statement->Next(); } } void IndexBackend::LookupIdentifierRange(std::list<int64_t>& target /*out*/, DatabaseManager& manager, OrthancPluginResourceType resourceType, uint16_t group, uint16_t element, const char* start, const char* end) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT d.id FROM DicomIdentifiers AS d, Resources AS r WHERE " "d.id = r.internalId AND r.resourceType=${type} AND d.tagGroup=${group} " "AND d.tagElement=${element} AND d.value>=${start} AND d.value<=${end}"); statement.SetReadOnly(true); statement.SetParameterType("type", ValueType_Integer64); statement.SetParameterType("group", ValueType_Integer64); statement.SetParameterType("element", ValueType_Integer64); statement.SetParameterType("start", ValueType_Utf8String); statement.SetParameterType("end", ValueType_Utf8String); Dictionary args; args.SetIntegerValue("type", resourceType); args.SetIntegerValue("group", group); args.SetIntegerValue("element", element); args.SetUtf8Value("start", start); args.SetUtf8Value("end", end); statement.Execute(args); target.clear(); while (!statement.IsDone()) { target.push_back(statement.ReadInteger64(0)); statement.Next(); } } bool IndexBackend::LookupMetadata(std::string& target /*out*/, int64_t& revision /*out*/, DatabaseManager& manager, int64_t id, int32_t metadataType) { std::unique_ptr<DatabaseManager::CachedStatement> statement; if (HasRevisionsSupport()) { statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "SELECT value, revision FROM Metadata WHERE id=${id} and type=${type}")); } else { statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "SELECT value FROM Metadata WHERE id=${id} and type=${type}")); } statement->SetReadOnly(true); statement->SetParameterType("id", ValueType_Integer64); statement->SetParameterType("type", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", id); args.SetIntegerValue("type", metadataType); statement->Execute(args); if (statement->IsDone()) { return false; } else { target = statement->ReadString(0); if (HasRevisionsSupport()) { if (statement->GetResultField(1).GetType() == ValueType_Null) { // "NULL" can happen with a database created by PostgreSQL // plugin <= 3.3 (because of "ALTER TABLE AttachedFiles") revision = 0; } else { revision = statement->ReadInteger64(1); } } else { revision = 0; // No support for revisions } return true; } } bool IndexBackend::LookupParent(int64_t& parentId /*out*/, DatabaseManager& manager, int64_t resourceId) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT parentId FROM Resources WHERE internalId=${id}"); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", resourceId); statement.Execute(args); if (statement.IsDone() || statement.GetResultField(0).GetType() == ValueType_Null) { return false; } else { parentId = statement.ReadInteger64(0); return true; } } bool IndexBackend::LookupResource(int64_t& id /*out*/, OrthancPluginResourceType& type /*out*/, DatabaseManager& manager, const char* publicId) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT internalId, resourceType FROM Resources WHERE publicId=${id}"); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Utf8String); Dictionary args; args.SetUtf8Value("id", publicId); statement.Execute(args); if (statement.IsDone()) { return false; } else { id = statement.ReadInteger64(0); type = static_cast<OrthancPluginResourceType>(statement.ReadInteger32(1)); return true; } } bool IndexBackend::SelectPatientToRecycle(int64_t& internalId /*out*/, DatabaseManager& manager) { std::string suffix; if (manager.GetDialect() == Dialect_MSSQL) { suffix = "OFFSET 0 ROWS FETCH FIRST 1 ROWS ONLY"; } else { suffix = "LIMIT 1"; } DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT patientId FROM PatientRecyclingOrder ORDER BY seq ASC " + suffix); statement.SetReadOnly(true); statement.Execute(); if (statement.IsDone()) { return false; } else { internalId = statement.ReadInteger64(0); return true; } } bool IndexBackend::SelectPatientToRecycle(int64_t& internalId /*out*/, DatabaseManager& manager, int64_t patientIdToAvoid) { std::string suffix; if (manager.GetDialect() == Dialect_MSSQL) { suffix = "OFFSET 0 ROWS FETCH FIRST 1 ROWS ONLY"; } else { suffix = "LIMIT 1"; } DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT patientId FROM PatientRecyclingOrder " "WHERE patientId != ${id} ORDER BY seq ASC " + suffix); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", patientIdToAvoid); statement.Execute(args); if (statement.IsDone()) { return false; } else { internalId = statement.ReadInteger64(0); return true; } } static void RunSetGlobalPropertyStatement(DatabaseManager::CachedStatement& statement, bool hasServer, bool hasValue, const char* serverIdentifier, int32_t property, const char* utf8) { Dictionary args; statement.SetParameterType("property", ValueType_Integer64); args.SetIntegerValue("property", static_cast<int>(property)); if (hasValue) { assert(utf8 != NULL); statement.SetParameterType("value", ValueType_Utf8String); args.SetUtf8Value("value", utf8); } else { assert(utf8 == NULL); } if (hasServer) { assert(serverIdentifier != NULL && strlen(serverIdentifier) > 0); statement.SetParameterType("server", ValueType_Utf8String); args.SetUtf8Value("server", serverIdentifier); } else { assert(serverIdentifier == NULL); } statement.Execute(args); } void IndexBackend::SetGlobalProperty(DatabaseManager& manager, const char* serverIdentifier, int32_t property, const char* utf8) { if (serverIdentifier == NULL) { throw Orthanc::OrthancException(Orthanc::ErrorCode_NullPointer); } else if (manager.GetDialect() == Dialect_SQLite) { bool hasServer = (strlen(serverIdentifier) != 0); if (hasServer) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "INSERT OR REPLACE INTO ServerProperties VALUES (${server}, ${property}, ${value})"); RunSetGlobalPropertyStatement(statement, true, true, serverIdentifier, property, utf8); } else { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "INSERT OR REPLACE INTO GlobalProperties VALUES (${property}, ${value})"); RunSetGlobalPropertyStatement(statement, false, true, NULL, property, utf8); } } else { bool hasServer = (strlen(serverIdentifier) != 0); if (hasServer) { { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "DELETE FROM ServerProperties WHERE server=${server} AND property=${property}"); RunSetGlobalPropertyStatement(statement, true, false, serverIdentifier, property, NULL); } { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "INSERT INTO ServerProperties VALUES (${server}, ${property}, ${value})"); RunSetGlobalPropertyStatement(statement, true, true, serverIdentifier, property, utf8); } } else { { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "DELETE FROM GlobalProperties WHERE property=${property}"); RunSetGlobalPropertyStatement(statement, false, false, NULL, property, NULL); } { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "INSERT INTO GlobalProperties VALUES (${property}, ${value})"); RunSetGlobalPropertyStatement(statement, false, true, NULL, property, utf8); } } } } static void ExecuteSetTag(DatabaseManager::CachedStatement& statement, int64_t id, uint16_t group, uint16_t element, const char* value) { statement.SetParameterType("id", ValueType_Integer64); statement.SetParameterType("group", ValueType_Integer64); statement.SetParameterType("element", ValueType_Integer64); statement.SetParameterType("value", ValueType_Utf8String); Dictionary args; args.SetIntegerValue("id", id); args.SetIntegerValue("group", group); args.SetIntegerValue("element", element); args.SetUtf8Value("value", value); statement.Execute(args); } void IndexBackend::SetMainDicomTag(DatabaseManager& manager, int64_t id, uint16_t group, uint16_t element, const char* value) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "INSERT INTO MainDicomTags VALUES(${id}, ${group}, ${element}, ${value})"); ExecuteSetTag(statement, id, group, element, value); } void IndexBackend::SetIdentifierTag(DatabaseManager& manager, int64_t id, uint16_t group, uint16_t element, const char* value) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "INSERT INTO DicomIdentifiers VALUES(${id}, ${group}, ${element}, ${value})"); ExecuteSetTag(statement, id, group, element, value); } static void ExecuteSetMetadata(DatabaseManager::CachedStatement& statement, Dictionary& args, int64_t id, int32_t metadataType, const char* value) { statement.SetParameterType("id", ValueType_Integer64); statement.SetParameterType("type", ValueType_Integer64); statement.SetParameterType("value", ValueType_Utf8String); args.SetIntegerValue("id", id); args.SetIntegerValue("type", metadataType); args.SetUtf8Value("value", value); statement.Execute(args); } void IndexBackend::SetMetadata(DatabaseManager& manager, int64_t id, int32_t metadataType, const char* value, int64_t revision) { if (manager.GetDialect() == Dialect_SQLite) { assert(HasRevisionsSupport()); DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "INSERT OR REPLACE INTO Metadata VALUES (${id}, ${type}, ${value}, ${revision})"); Dictionary args; statement.SetParameterType("revision", ValueType_Integer64); args.SetIntegerValue("revision", revision); ExecuteSetMetadata(statement, args, id, metadataType, value); } else { { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "DELETE FROM Metadata WHERE id=${id} AND type=${type}"); statement.SetParameterType("id", ValueType_Integer64); statement.SetParameterType("type", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", id); args.SetIntegerValue("type", metadataType); statement.Execute(args); } if (HasRevisionsSupport()) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "INSERT INTO Metadata VALUES (${id}, ${type}, ${value}, ${revision})"); Dictionary args; statement.SetParameterType("revision", ValueType_Integer64); args.SetIntegerValue("revision", revision); ExecuteSetMetadata(statement, args, id, metadataType, value); } else { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "INSERT INTO Metadata VALUES (${id}, ${type}, ${value})"); Dictionary args; ExecuteSetMetadata(statement, args, id, metadataType, value); } } } void IndexBackend::SetProtectedPatient(DatabaseManager& manager, int64_t internalId, bool isProtected) { if (isProtected) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "DELETE FROM PatientRecyclingOrder WHERE patientId=${id}"); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", internalId); statement.Execute(args); } else if (IsProtectedPatient(manager, internalId)) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "INSERT INTO PatientRecyclingOrder VALUES(${AUTOINCREMENT} ${id})"); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", internalId); statement.Execute(args); } else { // Nothing to do: The patient is already unprotected } } uint32_t IndexBackend::GetDatabaseVersion(DatabaseManager& manager) { // Create a read-only, explicit transaction to read the database // version (this was a read-write, implicit transaction in // PostgreSQL plugin <= 3.3 and MySQL plugin <= 3.0) DatabaseManager::Transaction transaction(manager, TransactionType_ReadOnly); std::string version = "unknown"; if (LookupGlobalProperty(version, manager, MISSING_SERVER_IDENTIFIER, Orthanc::GlobalProperty_DatabaseSchemaVersion)) { try { return boost::lexical_cast<unsigned int>(version); } catch (boost::bad_lexical_cast&) { } } LOG(ERROR) << "The database is corrupted. Drop it manually for Orthanc to recreate it"; throw Orthanc::OrthancException(Orthanc::ErrorCode_Database); } /** * Upgrade the database to the specified version of the database * schema. The upgrade script is allowed to make calls to * OrthancPluginReconstructMainDicomTags(). **/ void IndexBackend::UpgradeDatabase(DatabaseManager& manager, uint32_t targetVersion, OrthancPluginStorageArea* storageArea) { LOG(ERROR) << "Upgrading database is not implemented by this plugin"; throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); } void IndexBackend::ClearMainDicomTags(DatabaseManager& manager, int64_t internalId) { { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "DELETE FROM MainDicomTags WHERE id=${id}"); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", internalId); statement.Execute(args); } { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "DELETE FROM DicomIdentifiers WHERE id=${id}"); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", internalId); statement.Execute(args); } } // For unit testing only! uint64_t IndexBackend::GetAllResourcesCount(DatabaseManager& manager) { std::unique_ptr<DatabaseManager::CachedStatement> statement; switch (manager.GetDialect()) { case Dialect_MySQL: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "SELECT CAST(COUNT(*) AS UNSIGNED INT) FROM Resources")); break; case Dialect_PostgreSQL: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "SELECT CAST(COUNT(*) AS BIGINT) FROM Resources")); break; case Dialect_SQLite: case Dialect_MSSQL: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "SELECT COUNT(*) FROM Resources")); break; default: throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); } statement->SetReadOnly(true); statement->Execute(); return static_cast<uint64_t>(statement->ReadInteger64(0)); } // For unit testing only! uint64_t IndexBackend::GetUnprotectedPatientsCount(DatabaseManager& manager) { std::unique_ptr<DatabaseManager::CachedStatement> statement; switch (manager.GetDialect()) { case Dialect_MySQL: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "SELECT CAST(COUNT(*) AS UNSIGNED INT) FROM PatientRecyclingOrder")); break; case Dialect_PostgreSQL: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "SELECT CAST(COUNT(*) AS BIGINT) FROM PatientRecyclingOrder")); break; case Dialect_MSSQL: case Dialect_SQLite: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "SELECT COUNT(*) FROM PatientRecyclingOrder")); break; default: throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); } statement->SetReadOnly(true); statement->Execute(); return static_cast<uint64_t>(statement->ReadInteger64(0)); } // For unit testing only! bool IndexBackend::GetParentPublicId(std::string& target, DatabaseManager& manager, int64_t id) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT a.publicId FROM Resources AS a, Resources AS b " "WHERE a.internalId = b.parentId AND b.internalId = ${id}"); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", id); statement.Execute(args); if (statement.IsDone()) { return false; } else { target = statement.ReadString(0); return true; } } // For unit tests only! void IndexBackend::GetChildren(std::list<std::string>& childrenPublicIds, DatabaseManager& manager, int64_t id) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT publicId FROM Resources WHERE parentId=${id}"); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", id); ReadListOfStrings(childrenPublicIds, statement, args); } #if ORTHANC_PLUGINS_HAS_DATABASE_CONSTRAINT == 1 class IndexBackend::LookupFormatter : public ISqlLookupFormatter { private: Dialect dialect_; size_t count_; Dictionary dictionary_; static std::string FormatParameter(size_t index) { return "p" + boost::lexical_cast<std::string>(index); } public: LookupFormatter(Dialect dialect) : dialect_(dialect), count_(0) { } virtual std::string GenerateParameter(const std::string& value) { const std::string key = FormatParameter(count_); count_ ++; dictionary_.SetUtf8Value(key, value); return "${" + key + "}"; } virtual std::string FormatResourceType(Orthanc::ResourceType level) { return boost::lexical_cast<std::string>(MessagesToolbox::ConvertToPlainC(level)); } virtual std::string FormatWildcardEscape() { switch (dialect_) { case Dialect_MSSQL: case Dialect_SQLite: case Dialect_PostgreSQL: return "ESCAPE '\\'"; case Dialect_MySQL: return "ESCAPE '\\\\'"; default: throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); } } virtual std::string FormatNull(const char* type) { switch (dialect_) { case Dialect_PostgreSQL: return std::string("NULL::") + type; case Dialect_MSSQL: case Dialect_SQLite: case Dialect_MySQL: return "NULL"; default: throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); } } virtual std::string FormatLimits(uint64_t since, uint64_t count) { std::string sql; switch (dialect_) { case Dialect_MSSQL: { if (count > 0 || since > 0) { sql += " OFFSET " + boost::lexical_cast<std::string>(since) + " ROWS "; } if (count > 0) { sql += " FETCH NEXT " + boost::lexical_cast<std::string>(count) + " ROWS ONLY "; } }; break; case Dialect_SQLite: case Dialect_PostgreSQL: { if (count > 0) { sql += " LIMIT " + boost::lexical_cast<std::string>(count); } if (since > 0) { sql += " OFFSET " + boost::lexical_cast<std::string>(since); } }; break; case Dialect_MySQL: { if (count > 0 && since > 0) { sql += " LIMIT " + boost::lexical_cast<std::string>(since) + ", " + boost::lexical_cast<std::string>(count); } else if (count > 0) { sql += " LIMIT " + boost::lexical_cast<std::string>(count); } else if (since > 0) { sql += " LIMIT " + boost::lexical_cast<std::string>(since) + ", 18446744073709551615"; // max uint64 value when you don't want any limit } }; break; default: throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); } return sql; } virtual bool IsEscapeBrackets() const { // This was initially done at a bad location by the following changeset: // https://orthanc.uclouvain.be/hg/orthanc-databases/rev/389c037387ea return (dialect_ == Dialect_MSSQL); } virtual bool SupportsNullsLast() const { return (dialect_ == Dialect_PostgreSQL); } void PrepareStatement(DatabaseManager::StandaloneStatement& statement) const { statement.SetReadOnly(true); for (size_t i = 0; i < count_; i++) { statement.SetParameterType(FormatParameter(i), ValueType_Utf8String); } } const Dictionary& GetDictionary() const { return dictionary_; } }; #endif #if ORTHANC_PLUGINS_HAS_DATABASE_CONSTRAINT == 1 // New primitive since Orthanc 1.5.2 void IndexBackend::LookupResources(IDatabaseBackendOutput& output, DatabaseManager& manager, const DatabaseConstraints& lookup, OrthancPluginResourceType queryLevel_, const std::set<std::string>& labels, LabelsConstraint labelsConstraint, uint32_t limit, bool requestSomeInstance) { LookupFormatter formatter(manager.GetDialect()); Orthanc::ResourceType queryLevel = MessagesToolbox::Convert(queryLevel_); Orthanc::ResourceType lowerLevel, upperLevel; ISqlLookupFormatter::GetLookupLevels(lowerLevel, upperLevel, queryLevel, lookup); std::string sql; bool enableNewStudyCode = true; if (enableNewStudyCode && lowerLevel == queryLevel && upperLevel == queryLevel) { ISqlLookupFormatter::ApplySingleLevel(sql, formatter, lookup, queryLevel, labels, labelsConstraint, limit); if (requestSomeInstance) { // Composite query to find some instance if requested switch (queryLevel) { case Orthanc::ResourceType_Patient: sql = ("SELECT patients_studies.patients_public_id, MIN(instances.publicId) AS instances_public_id " "FROM (SELECT patients.publicId AS patients_public_id, MIN(studies.internalId) AS studies_internal_id " "FROM (" + sql + ") AS patients " "INNER JOIN Resources studies ON studies.parentId = patients.internalId " "GROUP BY patients.publicId " ") AS patients_studies " "INNER JOIN Resources series ON series.parentId = patients_studies.studies_internal_id " "INNER JOIN Resources instances ON instances.parentId = series.internalId " "GROUP BY patients_studies.patients_public_id"); break; case Orthanc::ResourceType_Study: sql = ("SELECT studies_series.studies_public_id, MIN(instances.publicId) AS instances_public_id " "FROM (SELECT studies.publicId AS studies_public_id, MIN(series.internalId) AS series_internal_id " "FROM (" + sql + ") AS studies " "INNER JOIN Resources series ON series.parentId = studies.internalId " "GROUP BY studies.publicId " ") AS studies_series " "INNER JOIN Resources instances ON instances.parentId = studies_series.series_internal_id " "GROUP BY studies_series.studies_public_id"); break; case Orthanc::ResourceType_Series: sql = ("SELECT series.publicId AS series_public_id, MIN(instances.publicId) AS instances_public_id " "FROM (" + sql + ") AS series " "INNER JOIN Resources instances ON instances.parentId = series.internalId " "GROUP BY series.publicId "); break; case Orthanc::ResourceType_Instance: sql = ("SELECT instances.publicId, instances.publicId FROM (" + sql + ") instances"); break; default: throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); } } } else { ISqlLookupFormatter::Apply(sql, formatter, lookup, queryLevel, labels, labelsConstraint, limit); if (requestSomeInstance) { // Composite query to find some instance if requested switch (queryLevel) { case Orthanc::ResourceType_Patient: sql = ("SELECT patients.publicId, MIN(instances.publicId) FROM (" + sql + ") patients " "INNER JOIN Resources studies ON studies.parentId = patients.internalId " "INNER JOIN Resources series ON series.parentId = studies.internalId " "INNER JOIN Resources instances ON instances.parentId = series.internalId " "GROUP BY patients.publicId"); break; case Orthanc::ResourceType_Study: sql = ("SELECT studies.publicId, MIN(instances.publicId) FROM (" + sql + ") studies " "INNER JOIN Resources series ON series.parentId = studies.internalId " "INNER JOIN Resources instances ON instances.parentId = series.internalId " "GROUP BY studies.publicId"); break; case Orthanc::ResourceType_Series: sql = ("SELECT series.publicId, MIN(instances.publicId) FROM (" + sql + ") series " "INNER JOIN Resources instances ON instances.parentId = series.internalId " "GROUP BY series.publicId"); break; case Orthanc::ResourceType_Instance: sql = ("SELECT instances.publicId, instances.publicId FROM (" + sql + ") instances"); break; default: throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); } } } DatabaseManager::StandaloneStatement statement(manager, sql); formatter.PrepareStatement(statement); statement.Execute(formatter.GetDictionary()); while (!statement.IsDone()) { if (requestSomeInstance) { output.AnswerMatchingResource(statement.ReadString(0), statement.ReadString(1)); } else { output.AnswerMatchingResource(statement.ReadString(0)); } statement.Next(); } } #endif #if ORTHANC_PLUGINS_HAS_DATABASE_CONSTRAINT == 1 static void ExecuteSetResourcesContentTags( DatabaseManager& manager, const std::string& table, const std::string& variablePrefix, uint32_t count, const OrthancPluginResourcesContentTags* tags) { std::string sql; Dictionary args; for (uint32_t i = 0; i < count; i++) { std::string name = variablePrefix + boost::lexical_cast<std::string>(i); args.SetUtf8Value(name, tags[i].value); std::string insert = ("(" + boost::lexical_cast<std::string>(tags[i].resource) + ", " + boost::lexical_cast<std::string>(tags[i].group) + ", " + boost::lexical_cast<std::string>(tags[i].element) + ", " + "${" + name + "})"); if (sql.empty()) { sql = "INSERT INTO " + table + " VALUES " + insert; } else { sql += ", " + insert; } } if (!sql.empty()) { DatabaseManager::StandaloneStatement statement(manager, sql); for (uint32_t i = 0; i < count; i++) { statement.SetParameterType(variablePrefix + boost::lexical_cast<std::string>(i), ValueType_Utf8String); } statement.Execute(args); } } #endif #if ORTHANC_PLUGINS_HAS_DATABASE_CONSTRAINT == 1 static void ExecuteSetResourcesContentMetadata( DatabaseManager& manager, bool hasRevisionsSupport, uint32_t count, const OrthancPluginResourcesContentMetadata* metadata) { std::string sqlRemove; // To overwrite std::string sqlInsert; Dictionary args; for (uint32_t i = 0; i < count; i++) { std::string name = "m" + boost::lexical_cast<std::string>(i); args.SetUtf8Value(name, metadata[i].value); std::string revisionSuffix; if (hasRevisionsSupport) { revisionSuffix = ", 0"; } std::string insert = ("(" + boost::lexical_cast<std::string>(metadata[i].resource) + ", " + boost::lexical_cast<std::string>(metadata[i].metadata) + ", " + "${" + name + "}" + revisionSuffix + ")"); std::string remove = ("(id=" + boost::lexical_cast<std::string>(metadata[i].resource) + " AND type=" + boost::lexical_cast<std::string>(metadata[i].metadata) + ")"); if (sqlInsert.empty()) { sqlInsert = "INSERT INTO Metadata VALUES " + insert; } else { sqlInsert += ", " + insert; } if (sqlRemove.empty()) { sqlRemove = "DELETE FROM Metadata WHERE " + remove; } else { sqlRemove += " OR " + remove; } } if (!sqlRemove.empty()) { DatabaseManager::StandaloneStatement statement(manager, sqlRemove); statement.Execute(); } if (!sqlInsert.empty()) { DatabaseManager::StandaloneStatement statement(manager, sqlInsert); for (uint32_t i = 0; i < count; i++) { statement.SetParameterType("m" + boost::lexical_cast<std::string>(i), ValueType_Utf8String); } statement.Execute(args); } } #endif #if ORTHANC_PLUGINS_HAS_DATABASE_CONSTRAINT == 1 // New primitive since Orthanc 1.5.2 void IndexBackend::SetResourcesContent( DatabaseManager& manager, uint32_t countIdentifierTags, const OrthancPluginResourcesContentTags* identifierTags, uint32_t countMainDicomTags, const OrthancPluginResourcesContentTags* mainDicomTags, uint32_t countMetadata, const OrthancPluginResourcesContentMetadata* metadata) { /** * TODO - PostgreSQL doesn't allow multiple commands in a prepared * statement, so we execute 3 separate commands (for identifiers, * main tags and metadata). Maybe MySQL does not suffer from the * same limitation, to check. **/ ExecuteSetResourcesContentTags(manager, "DicomIdentifiers", "i", countIdentifierTags, identifierTags); ExecuteSetResourcesContentTags(manager, "MainDicomTags", "t", countMainDicomTags, mainDicomTags); ExecuteSetResourcesContentMetadata(manager, HasRevisionsSupport(), countMetadata, metadata); } #endif // New primitive since Orthanc 1.5.2 void IndexBackend::GetChildrenMetadata(std::list<std::string>& target, DatabaseManager& manager, int64_t resourceId, int32_t metadata) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT value FROM Metadata WHERE type=${metadata} AND " "id IN (SELECT internalId FROM Resources WHERE parentId=${id})"); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); statement.SetParameterType("metadata", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", static_cast<int>(resourceId)); args.SetIntegerValue("metadata", static_cast<int>(metadata)); ReadListOfStrings(target, statement, args); } // New primitive since Orthanc 1.5.2 void IndexBackend::TagMostRecentPatient(DatabaseManager& manager, int64_t patient) { std::string suffix; if (manager.GetDialect() == Dialect_MSSQL) { suffix = "OFFSET 0 ROWS FETCH FIRST 2 ROWS ONLY"; } else { suffix = "LIMIT 2"; } int64_t seq; { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT * FROM PatientRecyclingOrder WHERE seq >= " "(SELECT seq FROM PatientRecyclingOrder WHERE patientid=${id}) ORDER BY seq " + suffix); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", patient); statement.Execute(args); if (statement.IsDone()) { // The patient is protected, don't add it to the recycling order return; } seq = statement.ReadInteger64(0); statement.Next(); if (statement.IsDone()) { // The patient is already at the end of the recycling order // (because of the "LIMIT 2" above), no need to modify the table return; } } // Delete the old position of the patient in the recycling order { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "DELETE FROM PatientRecyclingOrder WHERE seq=${seq}"); statement.SetParameterType("seq", ValueType_Integer64); Dictionary args; args.SetIntegerValue("seq", seq); statement.Execute(args); } // Add the patient to the end of the recycling order { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "INSERT INTO PatientRecyclingOrder VALUES(${AUTOINCREMENT} ${id})"); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", patient); statement.Execute(args); } } // New primitive since Orthanc 1.5.4 bool IndexBackend::LookupResourceAndParent(int64_t& id, OrthancPluginResourceType& type, std::string& parentPublicId, DatabaseManager& manager, const char* publicId) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT resource.internalId, resource.resourceType, parent.publicId " "FROM Resources AS resource LEFT JOIN Resources parent ON parent.internalId=resource.parentId " "WHERE resource.publicId=${id}"); statement.SetParameterType("id", ValueType_Utf8String); Dictionary args; args.SetUtf8Value("id", publicId); statement.Execute(args); if (statement.IsDone()) { return false; } else { if (statement.GetResultFieldsCount() != 3) { throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); } statement.SetResultFieldType(0, ValueType_Integer64); statement.SetResultFieldType(1, ValueType_Integer64); statement.SetResultFieldType(2, ValueType_Utf8String); id = statement.ReadInteger64(0); type = static_cast<OrthancPluginResourceType>(statement.ReadInteger32(1)); const IValue& value = statement.GetResultField(2); switch (value.GetType()) { case ValueType_Null: parentPublicId.clear(); break; case ValueType_Utf8String: parentPublicId = dynamic_cast<const Utf8StringValue&>(value).GetContent(); break; default: throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); } assert((statement.Next(), statement.IsDone())); return true; } } // New primitive since Orthanc 1.5.4 void IndexBackend::GetAllMetadata(std::map<int32_t, std::string>& result, DatabaseManager& manager, int64_t id) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT type, value FROM Metadata WHERE id=${id}"); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", id); statement.Execute(args); result.clear(); if (!statement.IsDone()) { if (statement.GetResultFieldsCount() != 2) { throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); } statement.SetResultFieldType(0, ValueType_Integer64); statement.SetResultFieldType(1, ValueType_Utf8String); while (!statement.IsDone()) { result[statement.ReadInteger32(0)] = statement.ReadString(1); statement.Next(); } } } #if ORTHANC_PLUGINS_HAS_DATABASE_CONSTRAINT == 1 void IndexBackend::CreateInstanceGeneric(OrthancPluginCreateInstanceResult& result, DatabaseManager& manager, const char* hashPatient, const char* hashStudy, const char* hashSeries, const char* hashInstance) { // Check out "OrthancServer/Sources/Database/Compatibility/ICreateInstance.cpp" { OrthancPluginResourceType type; int64_t tmp; if (LookupResource(tmp, type, manager, hashInstance)) { // The instance already exists assert(type == OrthancPluginResourceType_Instance); result.instanceId = tmp; result.isNewInstance = false; return; } } result.instanceId = CreateResource(manager, hashInstance, OrthancPluginResourceType_Instance); result.isNewInstance = true; result.isNewPatient = false; result.isNewStudy = false; result.isNewSeries = false; result.patientId = -1; result.studyId = -1; result.seriesId = -1; // Detect up to which level the patient/study/series/instance // hierarchy must be created { OrthancPluginResourceType dummy; if (LookupResource(result.seriesId, dummy, manager, hashSeries)) { assert(dummy == OrthancPluginResourceType_Series); // The patient, the study and the series already exist bool ok = (LookupResource(result.patientId, dummy, manager, hashPatient) && LookupResource(result.studyId, dummy, manager, hashStudy)); (void) ok; // Remove warning about unused variable in release builds assert(ok); } else if (LookupResource(result.studyId, dummy, manager, hashStudy)) { assert(dummy == OrthancPluginResourceType_Study); // New series: The patient and the study already exist result.isNewSeries = true; bool ok = LookupResource(result.patientId, dummy, manager, hashPatient); (void) ok; // Remove warning about unused variable in release builds assert(ok); } else if (LookupResource(result.patientId, dummy, manager, hashPatient)) { assert(dummy == OrthancPluginResourceType_Patient); // New study and series: The patient already exist result.isNewStudy = true; result.isNewSeries = true; } else { // New patient, study and series: Nothing exists result.isNewPatient = true; result.isNewStudy = true; result.isNewSeries = true; } } // Create the series if needed if (result.isNewSeries) { result.seriesId = CreateResource(manager, hashSeries, OrthancPluginResourceType_Series); } // Create the study if needed if (result.isNewStudy) { result.studyId = CreateResource(manager, hashStudy, OrthancPluginResourceType_Study); } // Create the patient if needed if (result.isNewPatient) { result.patientId = CreateResource(manager, hashPatient, OrthancPluginResourceType_Patient); } // Create the parent-to-child links AttachChild(manager, result.seriesId, result.instanceId); if (result.isNewSeries) { AttachChild(manager, result.studyId, result.seriesId); } if (result.isNewStudy) { AttachChild(manager, result.patientId, result.studyId); } TagMostRecentPatient(manager, result.patientId); // Sanity checks assert(result.patientId != -1); assert(result.studyId != -1); assert(result.seriesId != -1); assert(result.instanceId != -1); } #endif void IndexBackend::AddLabel(DatabaseManager& manager, int64_t resource, const std::string& label) { std::unique_ptr<DatabaseManager::CachedStatement> statement; switch (manager.GetDialect()) { case Dialect_PostgreSQL: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "INSERT INTO Labels VALUES(${id}, ${label}) ON CONFLICT DO NOTHING")); break; case Dialect_SQLite: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "INSERT OR IGNORE INTO Labels VALUES(${id}, ${label})")); break; case Dialect_MySQL: statement.reset(new DatabaseManager::CachedStatement( STATEMENT_FROM_HERE, manager, "INSERT IGNORE INTO Labels VALUES(${id}, ${label})")); break; default: throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); } statement->SetParameterType("id", ValueType_Integer64); statement->SetParameterType("label", ValueType_Utf8String); Dictionary args; args.SetIntegerValue("id", resource); args.SetUtf8Value("label", label); statement->Execute(args); } void IndexBackend::RemoveLabel(DatabaseManager& manager, int64_t resource, const std::string& label) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "DELETE FROM Labels WHERE id=${id} AND label=${label}"); statement.SetParameterType("id", ValueType_Integer64); statement.SetParameterType("label", ValueType_Utf8String); Dictionary args; args.SetIntegerValue("id", resource); args.SetUtf8Value("label", label); statement.Execute(args); } void IndexBackend::ListLabels(std::list<std::string>& target, DatabaseManager& manager, int64_t resource) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT label FROM Labels WHERE id=${id}"); statement.SetReadOnly(true); statement.SetParameterType("id", ValueType_Integer64); Dictionary args; args.SetIntegerValue("id", resource); ReadListOfStrings(target, statement, args); } void IndexBackend::ListAllLabels(std::list<std::string>& target, DatabaseManager& manager) { DatabaseManager::CachedStatement statement( STATEMENT_FROM_HERE, manager, "SELECT DISTINCT label FROM Labels"); Dictionary args; ReadListOfStrings(target, statement, args); } void IndexBackend::Register(IndexBackend* backend, size_t countConnections, unsigned int maxDatabaseRetries) { if (backend == NULL) { throw Orthanc::OrthancException(Orthanc::ErrorCode_NullPointer); } LOG(WARNING) << "The index plugin will use " << countConnections << " connection(s) to the database, " << "and will retry up to " << maxDatabaseRetries << " time(s) in the case of a collision"; #if defined(ORTHANC_PLUGINS_VERSION_IS_ABOVE) // Macro introduced in Orthanc 1.3.1 # if ORTHANC_PLUGINS_VERSION_IS_ABOVE(1, 12, 0) if (OrthancPluginCheckVersionAdvanced(backend->GetContext(), 1, 12, 0) == 1) { DatabaseBackendAdapterV4::Register(backend, countConnections, maxDatabaseRetries); return; } # endif #endif #if defined(ORTHANC_PLUGINS_VERSION_IS_ABOVE) // Macro introduced in Orthanc 1.3.1 # if ORTHANC_PLUGINS_VERSION_IS_ABOVE(1, 9, 2) if (OrthancPluginCheckVersionAdvanced(backend->GetContext(), 1, 9, 2) == 1) { DatabaseBackendAdapterV3::Register(backend, countConnections, maxDatabaseRetries); return; } # endif #endif LOG(WARNING) << "Performance warning: Your version of the Orthanc core or SDK doesn't support multiple readers/writers"; DatabaseBackendAdapterV2::Register(backend); } bool IndexBackend::LookupGlobalIntegerProperty(int& target, DatabaseManager& manager, const char* serverIdentifier, int32_t property) { std::string value; if (LookupGlobalProperty(value, manager, serverIdentifier, property)) { try { target = boost::lexical_cast<int>(value); return true; } catch (boost::bad_lexical_cast&) { LOG(ERROR) << "Corrupted database"; throw Orthanc::OrthancException(Orthanc::ErrorCode_Database); } } else { return false; } } void IndexBackend::SetGlobalIntegerProperty(DatabaseManager& manager, const char* serverIdentifier, int32_t property, int value) { std::string s = boost::lexical_cast<std::string>(value); SetGlobalProperty(manager, serverIdentifier, property, s.c_str()); } void IndexBackend::Finalize() { DatabaseBackendAdapterV2::Finalize(); #if defined(ORTHANC_PLUGINS_VERSION_IS_ABOVE) // Macro introduced in Orthanc 1.3.1 # if ORTHANC_PLUGINS_VERSION_IS_ABOVE(1, 9, 2) DatabaseBackendAdapterV3::Finalize(); # endif #endif #if defined(ORTHANC_PLUGINS_VERSION_IS_ABOVE) // Macro introduced in Orthanc 1.3.1 # if ORTHANC_PLUGINS_VERSION_IS_ABOVE(1, 12, 0) DatabaseBackendAdapterV4::Finalize(); # endif #endif } uint64_t IndexBackend::MeasureLatency(DatabaseManager& manager) { // execute 11x the simplest statement and return the median value std::vector<uint64_t> measures; for (int i = 0; i < 11; i++) { DatabaseManager::StandaloneStatement statement(manager, "SELECT 1"); Orthanc::Toolbox::ElapsedTimer timer; statement.ExecuteWithoutResult(); measures.push_back(timer.GetElapsedMicroseconds()); } std::sort(measures.begin(), measures.end()); return measures[measures.size() / 2]; } DatabaseManager* IndexBackend::CreateSingleDatabaseManager(IDatabaseBackend& backend, bool hasIdentifierTags, const std::list<IdentifierTag>& identifierTags) { std::unique_ptr<DatabaseManager> manager(new DatabaseManager(backend.CreateDatabaseFactory())); backend.ConfigureDatabase(*manager, hasIdentifierTags, identifierTags); return manager.release(); } #if ORTHANC_PLUGINS_VERSION_IS_ABOVE(1, 12, 5) bool IndexBackend::HasFindSupport() const { // TODO-FIND move to child plugins ? return true; } #endif #if ORTHANC_PLUGINS_VERSION_IS_ABOVE(1, 12, 5) Orthanc::DatabasePluginMessages::Find_Response_ResourceContent* GetResourceContent( Orthanc::DatabasePluginMessages::Find_Response* response, Orthanc::DatabasePluginMessages::ResourceType level) { Orthanc::DatabasePluginMessages::Find_Response_ResourceContent* content = NULL; // the protobuf response will be the owner switch (level) { case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_PATIENT: content = response->mutable_patient_content(); break; case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_STUDY: content = response->mutable_study_content(); break; case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_SERIES: content =response->mutable_series_content(); break; case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_INSTANCE: content = response->mutable_instance_content(); break; default: throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); } return content; } Orthanc::DatabasePluginMessages::Find_Response_ChildrenContent* GetChildrenContent( Orthanc::DatabasePluginMessages::Find_Response* response, Orthanc::DatabasePluginMessages::ResourceType childrenLevel) { Orthanc::DatabasePluginMessages::Find_Response_ChildrenContent* content = NULL; // the protobuf response will be the owner switch (childrenLevel) { case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_STUDY: content = response->mutable_children_studies_content(); break; case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_SERIES: content =response->mutable_children_series_content(); break; case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_INSTANCE: content = response->mutable_children_instances_content(); break; default: throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); } return content; } std::string JoinRequestedMetadata(const Orthanc::DatabasePluginMessages::Find_Request_ChildrenSpecification* childrenSpec) { std::set<std::string> metadataTypes; for (int i = 0; i < childrenSpec->retrieve_metadata_size(); ++i) { metadataTypes.insert(boost::lexical_cast<std::string>(childrenSpec->retrieve_metadata(i))); } std::string joinedMetadataTypes; Orthanc::Toolbox::JoinStrings(joinedMetadataTypes, metadataTypes, ", "); return joinedMetadataTypes; } std::string JoinRequestedTags(const Orthanc::DatabasePluginMessages::Find_Request_ChildrenSpecification* childrenSpec) { std::set<std::string> tags; for (int i = 0; i < childrenSpec->retrieve_main_dicom_tags_size(); ++i) { tags.insert("(" + boost::lexical_cast<std::string>(childrenSpec->retrieve_main_dicom_tags(i).group()) + ", " + boost::lexical_cast<std::string>(childrenSpec->retrieve_main_dicom_tags(i).element()) + ")"); } std::string joinedTags; Orthanc::Toolbox::JoinStrings(joinedTags, tags, ", "); return joinedTags; } #define C0_QUERY_ID 0 #define C1_INTERNAL_ID 1 #define C2_ROW_NUMBER 2 #define C3_STRING_1 3 #define C4_STRING_2 4 #define C5_STRING_3 5 #define C6_INT_1 6 #define C7_INT_2 7 #define C8_BIG_INT_1 8 #define C9_BIG_INT_2 9 #define QUERY_LOOKUP 1 #define QUERY_MAIN_DICOM_TAGS 2 #define QUERY_ATTACHMENTS 3 #define QUERY_METADATA 4 #define QUERY_LABELS 5 #define QUERY_PARENT_MAIN_DICOM_TAGS 10 #define QUERY_PARENT_IDENTIFIER 11 #define QUERY_PARENT_METADATA 12 #define QUERY_GRAND_PARENT_MAIN_DICOM_TAGS 15 #define QUERY_GRAND_PARENT_METADATA 16 #define QUERY_CHILDREN_IDENTIFIERS 20 #define QUERY_CHILDREN_MAIN_DICOM_TAGS 21 #define QUERY_CHILDREN_METADATA 22 #define QUERY_GRAND_CHILDREN_IDENTIFIERS 30 #define QUERY_GRAND_CHILDREN_MAIN_DICOM_TAGS 31 #define QUERY_GRAND_CHILDREN_METADATA 32 #define QUERY_GRAND_GRAND_CHILDREN_IDENTIFIERS 40 #define QUERY_ONE_INSTANCE_IDENTIFIER 50 #define QUERY_ONE_INSTANCE_METADATA 51 #define QUERY_ONE_INSTANCE_ATTACHMENTS 52 #define STRINGIFY(x) #x #define TOSTRING(x) STRINGIFY(x) void IndexBackend::ExecuteCount(Orthanc::DatabasePluginMessages::TransactionResponse& response, DatabaseManager& manager, const Orthanc::DatabasePluginMessages::Find_Request& request) { std::string sql; LookupFormatter formatter(manager.GetDialect()); std::string lookupSql; ISqlLookupFormatter::Apply(lookupSql, formatter, request); sql = "WITH Lookup AS (" + lookupSql + ") SELECT COUNT(*) FROM Lookup"; DatabaseManager::CachedStatement statement(STATEMENT_FROM_HERE_DYNAMIC(sql), manager, sql); statement.Execute(formatter.GetDictionary()); response.mutable_count_resources()->set_count(statement.ReadInteger64(0)); } void IndexBackend::ExecuteFind(Orthanc::DatabasePluginMessages::TransactionResponse& response, DatabaseManager& manager, const Orthanc::DatabasePluginMessages::Find_Request& request) { // TODO-FIND move to child plugins ? // If we want the Find to use a read-only transaction, we can not create temporary tables with // the lookup results. So we must use a CTE (Common Table Expression). // However, a CTE can only be used in a single query -> we must unionize all the following // queries to retrieve values from various tables. // However, to use UNION, all tables must have the same columns (numbers and types). That's // why we have generic column names. // So, at the end we'll have only one very big query ! std::string sql; // extract the resource id of interest by executing the lookup in a CTE LookupFormatter formatter(manager.GetDialect()); std::string lookupSqlCTE; ISqlLookupFormatter::Apply(lookupSqlCTE, formatter, request); // base query, retrieve the ordered internalId and publicId of the selected resources sql = "WITH Lookup AS (" + lookupSqlCTE + ") "; std::string oneInstanceSqlCTE; if (request.level() != Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_INSTANCE && request.retrieve_one_instance_metadata_and_attachments()) { switch (request.level()) { case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_SERIES: { oneInstanceSqlCTE = "SELECT Lookup.internalId AS parentInternalId, childLevel.publicId AS instancePublicId, childLevel.internalId AS instanceInternalId, ROW_NUMBER() OVER (PARTITION BY Lookup.internalId ORDER BY childLevel.publicId) AS rowNum" " FROM Resources AS childLevel " " INNER JOIN Lookup ON childLevel.parentId = Lookup.internalId"; }; break; case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_STUDY: { oneInstanceSqlCTE = "SELECT Lookup.internalId AS parentInternalId, grandChildLevel.publicId AS instancePublicId, grandChildLevel.internalId AS instanceInternalId, ROW_NUMBER() OVER (PARTITION BY Lookup.internalId ORDER BY grandChildLevel.publicId) AS rowNum" " FROM Resources AS grandChildLevel " " INNER JOIN Resources childLevel ON grandChildLevel.parentId = childLevel.internalId " " INNER JOIN Lookup ON childLevel.parentId = Lookup.internalId"; }; break; case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_PATIENT: { oneInstanceSqlCTE = "SELECT Lookup.internalId AS parentInternalId, grandGrandChildLevel.publicId AS instancePublicId, grandGrandChildLevel.internalId AS instanceInternalId, ROW_NUMBER() OVER (PARTITION BY Lookup.internalId ORDER BY grandGrandChildLevel.publicId) AS rowNum" " FROM Resources AS grandGrandChildLevel " " INNER JOIN Resources grandChildLevel ON grandGrandChildLevel.parentId = grandChildLevel.internalId " " INNER JOIN Resources childLevel ON grandChildLevel.parentId = childLevel.internalId " " INNER JOIN Lookup ON childLevel.parentId = Lookup.internalId"; }; break; default: throw Orthanc::OrthancException(Orthanc::ErrorCode_InternalError); } sql += ", _OneInstance AS (" + oneInstanceSqlCTE + ") "; sql += ", OneInstance AS (SELECT parentInternalId, instancePublicId, instanceInternalId FROM _OneInstance WHERE rowNum = 1) "; // this is a generic way to implement DISTINCT ON } // if (!oneInstanceSqlCTE.empty() && (manager.GetDialect() == Dialect_MySQL || manager.GetDialect() == Dialect_SQLite)) // { // all CTEs must be declared first in some dialects // } sql += " SELECT " " " TOSTRING(QUERY_LOOKUP) " AS c0_queryId, " " Lookup.internalId AS c1_internalId, " " Lookup.rowNumber AS c2_rowNumber, " " Lookup.publicId AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " " + formatter.FormatNull("INT") + " AS c6_int1, " " " + formatter.FormatNull("INT") + " AS c7_int2, " " " + formatter.FormatNull("BIGINT") + " AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " " FROM Lookup "; // need MainDicomTags from resource ? if (request.retrieve_main_dicom_tags()) { sql += "UNION ALL SELECT " " " TOSTRING(QUERY_MAIN_DICOM_TAGS) " AS c0_queryId, " " Lookup.internalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " value AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " tagGroup AS c6_int1, " " tagElement AS c7_int2, " " " + formatter.FormatNull("BIGINT") + " AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " "FROM Lookup " "INNER JOIN MainDicomTags ON MainDicomTags.id = Lookup.internalId "; } // need resource metadata ? if (request.retrieve_metadata()) { sql += "UNION ALL SELECT " " " TOSTRING(QUERY_METADATA) " AS c0_queryId, " " Lookup.internalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " value AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " type AS c6_int1, " " " + formatter.FormatNull("INT") + " AS c7_int2, " " " + formatter.FormatNull("BIGINT") + " AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " "FROM Lookup " "INNER JOIN Metadata ON Metadata.id = Lookup.internalId "; } // need resource attachments ? if (request.retrieve_attachments()) { sql += "UNION ALL SELECT " " " TOSTRING(QUERY_ATTACHMENTS) " AS c0_queryId, " " Lookup.internalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " uuid AS c3_string1, " " uncompressedHash AS c4_string2, " " compressedHash AS c5_string3, " " fileType AS c6_int1, " " compressionType AS c7_int2, " " compressedSize AS c8_big_int1, " " uncompressedSize AS c9_big_int2 " "FROM Lookup " "INNER JOIN AttachedFiles ON AttachedFiles.id = Lookup.internalId "; } // need resource labels ? if (request.retrieve_labels()) { sql += "UNION ALL SELECT " " " TOSTRING(QUERY_LABELS) " AS c0_queryId, " " Lookup.internalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " label AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " " + formatter.FormatNull("INT") + " AS c6_int1, " " " + formatter.FormatNull("INT") + " AS c7_int2, " " " + formatter.FormatNull("BIGINT") + " AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " "FROM Lookup " "INNER JOIN Labels ON Labels.id = Lookup.internalId "; } // need MainDicomTags from parent ? if (request.level() > Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_PATIENT) { const Orthanc::DatabasePluginMessages::Find_Request_ParentSpecification* parentSpec = NULL; switch (request.level()) { case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_STUDY: parentSpec = &(request.parent_patient()); break; case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_SERIES: parentSpec = &(request.parent_study()); break; case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_INSTANCE: parentSpec = &(request.parent_series()); break; default: break; } if (parentSpec->retrieve_main_dicom_tags()) { sql += "UNION ALL SELECT " " " TOSTRING(QUERY_PARENT_MAIN_DICOM_TAGS) " AS c0_queryId, " " Lookup.internalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " value AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " tagGroup AS c6_int1, " " tagElement AS c7_int2, " " " + formatter.FormatNull("BIGINT") + " AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " "FROM Lookup " "INNER JOIN Resources currentLevel ON Lookup.internalId = currentLevel.internalId " "INNER JOIN MainDicomTags ON MainDicomTags.id = currentLevel.parentId "; } if (parentSpec->retrieve_metadata()) { sql += "UNION ALL SELECT " " " TOSTRING(QUERY_PARENT_METADATA) " AS c0_queryId, " " Lookup.internalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " value AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " type AS c6_int1, " " " + formatter.FormatNull("INT") + " AS c7_int2, " " " + formatter.FormatNull("BIGINT") + " AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " "FROM Lookup " "INNER JOIN Resources currentLevel ON Lookup.internalId = currentLevel.internalId " "INNER JOIN Metadata ON Metadata.id = currentLevel.parentId "; } // need MainDicomTags from grandparent ? if (request.level() > Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_STUDY) { const Orthanc::DatabasePluginMessages::Find_Request_ParentSpecification* grandparentSpec = NULL; switch (request.level()) { case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_SERIES: grandparentSpec = &(request.parent_patient()); break; case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_INSTANCE: grandparentSpec = &(request.parent_study()); break; default: break; } if (grandparentSpec->retrieve_main_dicom_tags()) { sql += "UNION ALL SELECT " " " TOSTRING(QUERY_GRAND_PARENT_MAIN_DICOM_TAGS) " AS c0_queryId, " " Lookup.internalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " value AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " tagGroup AS c6_int1, " " tagElement AS c7_int2, " " " + formatter.FormatNull("BIGINT") + " AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " "FROM Lookup " "INNER JOIN Resources currentLevel ON Lookup.internalId = currentLevel.internalId " "INNER JOIN Resources parentLevel ON currentLevel.parentId = parentLevel.internalId " "INNER JOIN MainDicomTags ON MainDicomTags.id = parentLevel.parentId "; } if (grandparentSpec->retrieve_metadata()) { sql += "UNION ALL SELECT " " " TOSTRING(QUERY_GRAND_PARENT_METADATA) " AS c0_queryId, " " Lookup.internalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " value AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " type AS c6_int1, " " " + formatter.FormatNull("INT") + " AS c7_int2, " " " + formatter.FormatNull("BIGINT") + " AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " "FROM Lookup " "INNER JOIN Resources currentLevel ON Lookup.internalId = currentLevel.internalId " "INNER JOIN Resources parentLevel ON currentLevel.parentId = parentLevel.internalId " "INNER JOIN Metadata ON Metadata.id = parentLevel.parentId "; } } } // need MainDicomTags from children ? if (request.level() <= Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_SERIES) { const Orthanc::DatabasePluginMessages::Find_Request_ChildrenSpecification* childrenSpec = NULL; switch (request.level()) { case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_PATIENT: childrenSpec = &(request.children_studies()); break; case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_STUDY: childrenSpec = &(request.children_series()); break; case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_SERIES: childrenSpec = &(request.children_instances()); break; default: break; } if (childrenSpec->retrieve_main_dicom_tags_size() > 0) { sql += "UNION ALL SELECT " " " TOSTRING(QUERY_CHILDREN_MAIN_DICOM_TAGS) " AS c0_queryId, " " Lookup.internalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " value AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " tagGroup AS c6_int1, " " tagElement AS c7_int2, " " " + formatter.FormatNull("BIGINT") + " AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " "FROM Lookup " " INNER JOIN Resources childLevel ON childLevel.parentId = Lookup.internalId " " INNER JOIN MainDicomTags ON MainDicomTags.id = childLevel.internalId AND (tagGroup, tagElement) IN (" + JoinRequestedTags(childrenSpec) + ")"; } // need children identifiers ? if (childrenSpec->retrieve_identifiers()) { sql += "UNION ALL SELECT " " " TOSTRING(QUERY_CHILDREN_IDENTIFIERS) " AS c0_queryId, " " Lookup.internalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " childLevel.publicId AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " " + formatter.FormatNull("INT") + " AS c6_int1, " " " + formatter.FormatNull("INT") + " AS c7_int2, " " " + formatter.FormatNull("BIGINT") + " AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " "FROM Lookup " " INNER JOIN Resources childLevel ON Lookup.internalId = childLevel.parentId "; } if (childrenSpec->retrieve_metadata_size() > 0) { sql += "UNION ALL SELECT " " " TOSTRING(QUERY_CHILDREN_METADATA) " AS c0_queryId, " " Lookup.internalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " value AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " type AS c6_int1, " " " + formatter.FormatNull("INT") + " AS c7_int2, " " " + formatter.FormatNull("BIGINT") + " AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " "FROM Lookup " " INNER JOIN Resources childLevel ON childLevel.parentId = Lookup.internalId " " INNER JOIN Metadata ON Metadata.id = childLevel.internalId AND Metadata.type IN (" + JoinRequestedMetadata(childrenSpec) + ") "; } if (request.level() <= Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_STUDY) { const Orthanc::DatabasePluginMessages::Find_Request_ChildrenSpecification* grandchildrenSpec = NULL; switch (request.level()) { case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_PATIENT: grandchildrenSpec = &(request.children_series()); break; case Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_STUDY: grandchildrenSpec = &(request.children_instances()); break; default: break; } // need grand children identifiers ? if (grandchildrenSpec->retrieve_identifiers()) { sql += "UNION ALL SELECT " " " TOSTRING(QUERY_GRAND_CHILDREN_IDENTIFIERS) " AS c0_queryId, " " Lookup.internalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " grandChildLevel.publicId AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " " + formatter.FormatNull("INT") + " AS c6_int1, " " " + formatter.FormatNull("INT") + " AS c7_int2, " " " + formatter.FormatNull("BIGINT") + " AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " "FROM Lookup " "INNER JOIN Resources childLevel ON Lookup.internalId = childLevel.parentId " "INNER JOIN Resources grandChildLevel ON childLevel.internalId = grandChildLevel.parentId "; } if (grandchildrenSpec->retrieve_main_dicom_tags_size() > 0) { sql += "UNION ALL SELECT " " " TOSTRING(QUERY_GRAND_CHILDREN_MAIN_DICOM_TAGS) " AS c0_queryId, " " Lookup.internalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " value AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " tagGroup AS c6_int1, " " tagElement AS c7_int2, " " " + formatter.FormatNull("BIGINT") + " AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " "FROM Lookup " " INNER JOIN Resources childLevel ON childLevel.parentId = Lookup.internalId " " INNER JOIN Resources grandChildLevel ON grandChildLevel.parentId = childLevel.internalId " " INNER JOIN MainDicomTags ON MainDicomTags.id = grandChildLevel.internalId AND (tagGroup, tagElement) IN (" + JoinRequestedTags(grandchildrenSpec) + ")"; } if (grandchildrenSpec->retrieve_metadata_size() > 0) { sql += "UNION ALL SELECT " " " TOSTRING(QUERY_GRAND_CHILDREN_METADATA) " AS c0_queryId, " " Lookup.internalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " value AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " type AS c6_int1, " " " + formatter.FormatNull("INT") + " AS c7_int2, " " " + formatter.FormatNull("BIGINT") + " AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " "FROM Lookup " " INNER JOIN Resources childLevel ON childLevel.parentId = Lookup.internalId " " INNER JOIN Resources grandChildLevel ON grandChildLevel.parentId = childLevel.internalId " " INNER JOIN Metadata ON Metadata.id = grandChildLevel.internalId AND Metadata.type IN (" + JoinRequestedMetadata(grandchildrenSpec) + ") "; } if (request.level() == Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_PATIENT) { const Orthanc::DatabasePluginMessages::Find_Request_ChildrenSpecification* grandgrandchildrenSpec = &(request.children_instances()); // need grand children identifiers ? if (grandgrandchildrenSpec->retrieve_identifiers()) { sql += "UNION ALL SELECT " " " TOSTRING(QUERY_GRAND_GRAND_CHILDREN_IDENTIFIERS) " AS c0_queryId, " " Lookup.internalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " grandGrandChildLevel.publicId AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " " + formatter.FormatNull("INT") + " AS c6_int1, " " " + formatter.FormatNull("INT") + " AS c7_int2, " " " + formatter.FormatNull("BIGINT") + " AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " "FROM Lookup " "INNER JOIN Resources childLevel ON Lookup.internalId = childLevel.parentId " "INNER JOIN Resources grandChildLevel ON childLevel.internalId = grandChildLevel.parentId " "INNER JOIN Resources grandGrandChildLevel ON grandChildLevel.internalId = grandGrandChildLevel.parentId "; } } } } // need parent identifier ? if (request.retrieve_parent_identifier()) { sql += "UNION ALL SELECT " " " TOSTRING(QUERY_PARENT_IDENTIFIER) " AS c0_queryId, " " Lookup.internalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " parentLevel.publicId AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " " + formatter.FormatNull("INT") + " AS c6_int1, " " " + formatter.FormatNull("INT") + " AS c7_int2, " " " + formatter.FormatNull("BIGINT") + " AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " "FROM Lookup " " INNER JOIN Resources currentLevel ON currentLevel.internalId = Lookup.internalId " " INNER JOIN Resources parentLevel ON currentLevel.parentId = parentLevel.internalId "; } // need one instance info ? if (request.level() != Orthanc::DatabasePluginMessages::ResourceType::RESOURCE_INSTANCE && request.retrieve_one_instance_metadata_and_attachments()) { sql += " UNION ALL SELECT" " " TOSTRING(QUERY_ONE_INSTANCE_IDENTIFIER) " AS c0_queryId, " " parentInternalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " instancePublicId AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " " + formatter.FormatNull("INT") + " AS c6_int1, " " " + formatter.FormatNull("INT") + " AS c7_int2, " " instanceInternalId AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " " FROM OneInstance "; sql += " UNION ALL SELECT" " " TOSTRING(QUERY_ONE_INSTANCE_METADATA) " AS c0_queryId, " " parentInternalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " Metadata.value AS c3_string1, " " " + formatter.FormatNull("TEXT") + " AS c4_string2, " " " + formatter.FormatNull("TEXT") + " AS c5_string3, " " Metadata.type AS c6_int1, " " " + formatter.FormatNull("INT") + " AS c7_int2, " " " + formatter.FormatNull("BIGINT") + " AS c8_big_int1, " " " + formatter.FormatNull("BIGINT") + " AS c9_big_int2 " " FROM Metadata " " INNER JOIN OneInstance ON Metadata.id = OneInstance.instanceInternalId"; sql += " UNION ALL SELECT" " " TOSTRING(QUERY_ONE_INSTANCE_ATTACHMENTS) " AS c0_queryId, " " parentInternalId AS c1_internalId, " " " + formatter.FormatNull("BIGINT") + " AS c2_rowNumber, " " uuid AS c3_string1, " " uncompressedHash AS c4_string2, " " compressedHash AS c5_string3, " " fileType AS c6_int1, " " compressionType AS c7_int2, " " compressedSize AS c8_big_int1, " " uncompressedSize AS c9_big_int2 " " FROM AttachedFiles " " INNER JOIN OneInstance ON AttachedFiles.id = OneInstance.instanceInternalId"; // sql += " ) "; } sql += " ORDER BY c0_queryId, c2_rowNumber"; // this is really important to make sure that the Lookup query is the first one to provide results since we use it to create the responses element ! std::unique_ptr<DatabaseManager::StatementBase> statement; if (manager.GetDialect() == Dialect_MySQL) { // TODO: investigate why "complex" cached statement do not seem to work properly in MySQL statement.reset(new DatabaseManager::StandaloneStatement(manager, sql)); } else { statement.reset(new DatabaseManager::CachedStatement(STATEMENT_FROM_HERE_DYNAMIC(sql), manager, sql)); } statement->Execute(formatter.GetDictionary()); // LOG(INFO) << sql; std::map<int64_t, Orthanc::DatabasePluginMessages::Find_Response*> responses; while (!statement->IsDone()) { int32_t queryId = statement->ReadInteger32(C0_QUERY_ID); int64_t internalId = statement->ReadInteger64(C1_INTERNAL_ID); assert(queryId == QUERY_LOOKUP || responses.find(internalId) != responses.end()); // the QUERY_LOOKUP must be read first and must create the response before any other query tries to populate the fields // LOG(INFO) << queryId << " " << statement->ReadString(C3_STRING_1); switch (queryId) { case QUERY_LOOKUP: responses[internalId] = response.add_find(); responses[internalId]->set_public_id(statement->ReadString(C3_STRING_1)); responses[internalId]->set_internal_id(internalId); break; case QUERY_LABELS: responses[internalId]->add_labels(statement->ReadString(C3_STRING_1)); break; case QUERY_MAIN_DICOM_TAGS: { Orthanc::DatabasePluginMessages::Find_Response_ResourceContent* content = GetResourceContent(responses[internalId], request.level()); Orthanc::DatabasePluginMessages::Find_Response_Tag* tag = content->add_main_dicom_tags(); tag->set_value(statement->ReadString(C3_STRING_1)); tag->set_group(statement->ReadInteger32(C6_INT_1)); tag->set_element(statement->ReadInteger32(C7_INT_2)); }; break; case QUERY_PARENT_MAIN_DICOM_TAGS: { Orthanc::DatabasePluginMessages::Find_Response_ResourceContent* content = GetResourceContent(responses[internalId], static_cast<Orthanc::DatabasePluginMessages::ResourceType>(request.level() - 1)); Orthanc::DatabasePluginMessages::Find_Response_Tag* tag = content->add_main_dicom_tags(); tag->set_value(statement->ReadString(C3_STRING_1)); tag->set_group(statement->ReadInteger32(C6_INT_1)); tag->set_element(statement->ReadInteger32(C7_INT_2)); }; break; case QUERY_GRAND_PARENT_MAIN_DICOM_TAGS: { Orthanc::DatabasePluginMessages::Find_Response_ResourceContent* content = GetResourceContent(responses[internalId], static_cast<Orthanc::DatabasePluginMessages::ResourceType>(request.level() - 2)); Orthanc::DatabasePluginMessages::Find_Response_Tag* tag = content->add_main_dicom_tags(); tag->set_value(statement->ReadString(C3_STRING_1)); tag->set_group(statement->ReadInteger32(C6_INT_1)); tag->set_element(statement->ReadInteger32(C7_INT_2)); }; break; case QUERY_CHILDREN_IDENTIFIERS: { Orthanc::DatabasePluginMessages::Find_Response_ChildrenContent* content = GetChildrenContent(responses[internalId], static_cast<Orthanc::DatabasePluginMessages::ResourceType>(request.level() + 1)); content->add_identifiers(statement->ReadString(C3_STRING_1)); }; break; case QUERY_CHILDREN_MAIN_DICOM_TAGS: { Orthanc::DatabasePluginMessages::Find_Response_ChildrenContent* content = GetChildrenContent(responses[internalId], static_cast<Orthanc::DatabasePluginMessages::ResourceType>(request.level() + 1)); Orthanc::DatabasePluginMessages::Find_Response_MultipleTags* tag = content->add_main_dicom_tags(); tag->add_values(statement->ReadString(C3_STRING_1)); // TODO: handle sequences ?? tag->set_group(statement->ReadInteger32(C6_INT_1)); tag->set_element(statement->ReadInteger32(C7_INT_2)); }; break; case QUERY_CHILDREN_METADATA: { Orthanc::DatabasePluginMessages::Find_Response_ChildrenContent* content = GetChildrenContent(responses[internalId], static_cast<Orthanc::DatabasePluginMessages::ResourceType>(request.level() + 1)); Orthanc::DatabasePluginMessages::Find_Response_MultipleMetadata* metadata = content->add_metadata(); metadata->add_values(statement->ReadString(C3_STRING_1)); metadata->set_key(statement->ReadInteger32(C6_INT_1)); }; break; case QUERY_GRAND_CHILDREN_IDENTIFIERS: { Orthanc::DatabasePluginMessages::Find_Response_ChildrenContent* content = GetChildrenContent(responses[internalId], static_cast<Orthanc::DatabasePluginMessages::ResourceType>(request.level() + 2)); content->add_identifiers(statement->ReadString(C3_STRING_1)); }; break; case QUERY_GRAND_CHILDREN_MAIN_DICOM_TAGS: { Orthanc::DatabasePluginMessages::Find_Response_ChildrenContent* content = GetChildrenContent(responses[internalId], static_cast<Orthanc::DatabasePluginMessages::ResourceType>(request.level() + 2)); Orthanc::DatabasePluginMessages::Find_Response_MultipleTags* tag = content->add_main_dicom_tags(); tag->add_values(statement->ReadString(C3_STRING_1)); // TODO: handle sequences ?? tag->set_group(statement->ReadInteger32(C6_INT_1)); tag->set_element(statement->ReadInteger32(C7_INT_2)); }; break; case QUERY_GRAND_CHILDREN_METADATA: { Orthanc::DatabasePluginMessages::Find_Response_ChildrenContent* content = GetChildrenContent(responses[internalId], static_cast<Orthanc::DatabasePluginMessages::ResourceType>(request.level() + 2)); Orthanc::DatabasePluginMessages::Find_Response_MultipleMetadata* metadata = content->add_metadata(); metadata->add_values(statement->ReadString(C3_STRING_1)); metadata->set_key(statement->ReadInteger32(C6_INT_1)); }; break; case QUERY_GRAND_GRAND_CHILDREN_IDENTIFIERS: { Orthanc::DatabasePluginMessages::Find_Response_ChildrenContent* content = GetChildrenContent(responses[internalId], static_cast<Orthanc::DatabasePluginMessages::ResourceType>(request.level() + 3)); content->add_identifiers(statement->ReadString(C3_STRING_1)); }; break; case QUERY_ATTACHMENTS: { Orthanc::DatabasePluginMessages::FileInfo* attachment = responses[internalId]->add_attachments(); attachment->set_uuid(statement->ReadString(C3_STRING_1)); attachment->set_uncompressed_hash(statement->ReadString(C4_STRING_2)); attachment->set_compressed_hash(statement->ReadString(C5_STRING_3)); attachment->set_content_type(statement->ReadInteger32(C6_INT_1)); attachment->set_compression_type(statement->ReadInteger32(C7_INT_2)); attachment->set_compressed_size(statement->ReadInteger64(C8_BIG_INT_1)); attachment->set_uncompressed_size(statement->ReadInteger64(C9_BIG_INT_2)); }; break; case QUERY_METADATA: { Orthanc::DatabasePluginMessages::Find_Response_ResourceContent* content = GetResourceContent(responses[internalId], request.level()); Orthanc::DatabasePluginMessages::Find_Response_Metadata* metadata = content->add_metadata(); metadata->set_value(statement->ReadString(C3_STRING_1)); metadata->set_key(statement->ReadInteger32(C6_INT_1)); }; break; case QUERY_PARENT_METADATA: { Orthanc::DatabasePluginMessages::Find_Response_ResourceContent* content = GetResourceContent(responses[internalId], static_cast<Orthanc::DatabasePluginMessages::ResourceType>(request.level() - 1)); Orthanc::DatabasePluginMessages::Find_Response_Metadata* metadata = content->add_metadata(); metadata->set_value(statement->ReadString(C3_STRING_1)); metadata->set_key(statement->ReadInteger32(C6_INT_1)); }; break; case QUERY_GRAND_PARENT_METADATA: { Orthanc::DatabasePluginMessages::Find_Response_ResourceContent* content = GetResourceContent(responses[internalId], static_cast<Orthanc::DatabasePluginMessages::ResourceType>(request.level() - 2)); Orthanc::DatabasePluginMessages::Find_Response_Metadata* metadata = content->add_metadata(); metadata->set_value(statement->ReadString(C3_STRING_1)); metadata->set_key(statement->ReadInteger32(C6_INT_1)); }; break; case QUERY_PARENT_IDENTIFIER: { responses[internalId]->set_parent_public_id(statement->ReadString(C3_STRING_1)); }; break; case QUERY_ONE_INSTANCE_IDENTIFIER: { responses[internalId]->set_one_instance_public_id(statement->ReadString(C3_STRING_1)); }; break; case QUERY_ONE_INSTANCE_METADATA: { Orthanc::DatabasePluginMessages::Find_Response_Metadata* metadata = responses[internalId]->add_one_instance_metadata(); metadata->set_value(statement->ReadString(C3_STRING_1)); metadata->set_key(statement->ReadInteger32(C6_INT_1)); }; break; case QUERY_ONE_INSTANCE_ATTACHMENTS: { Orthanc::DatabasePluginMessages::FileInfo* attachment = responses[internalId]->add_one_instance_attachments(); attachment->set_uuid(statement->ReadString(C3_STRING_1)); attachment->set_uncompressed_hash(statement->ReadString(C4_STRING_2)); attachment->set_compressed_hash(statement->ReadString(C5_STRING_3)); attachment->set_content_type(statement->ReadInteger32(C6_INT_1)); attachment->set_compression_type(statement->ReadInteger32(C7_INT_2)); attachment->set_compressed_size(statement->ReadInteger64(C8_BIG_INT_1)); attachment->set_uncompressed_size(statement->ReadInteger64(C9_BIG_INT_2)); }; break; default: throw Orthanc::OrthancException(Orthanc::ErrorCode_NotImplemented); } statement->Next(); } } #endif }