| /dports/biology/ugene/ugene-40.1/src/plugins/external_tool_support/src/hmmer/ |
| H A D | HmmerBuildFromFileTask.cpp | 35 convertTask(nullptr), in HmmerBuildFromFileTask()
49 addSubTask(convertTask); in prepare()
60 if (subTask == convertTask) { in onSubTaskFinished()
61 prepareBuildTask(convertTask->getResultUrl()); in onSubTaskFinished()
71 if (nullptr != convertTask) { in report()
72 QFile(convertTask->getResultUrl()).remove(); in report()
88 convertTask = new ConvertAlignment2Stockholm(msaUrl, settings.workingDir); in prepareConvertTask()
89 convertTask->setSubtaskProgressWeight(10); in prepareConvertTask()
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| H A D | HmmerBuildFromFileTask.h | 50 ConvertAlignment2Stockholm *convertTask; variable
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| /dports/biology/ugene/ugene-40.1/src/plugins/dna_export/src/tasks/ |
| H A D | ExportMca2MsaTask.cpp | 44 convertTask(nullptr), in ExportMca2MsaTask()
51 convertTask = new ConvertMca2MsaTask(mcaObject, includeReference); in prepare()
52 addSubTask(convertTask); in prepare()
59 if (convertTask == subTask) { in onSubTaskFinished()
60 exportTask = new ExportAlignmentTask(convertTask->getMsa(), fileName, formatId); in onSubTaskFinished()
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| H A D | ExportMca2MsaTask.h | 47 ConvertMca2MsaTask *convertTask; variable
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| /dports/biology/ugene/ugene-40.1/src/plugins/external_tool_support/src/blast_plus/ |
| H A D | PrepareInputFastaFilesTask.cpp | 56 …DefaultConvertFileTask *convertTask = new DefaultConvertFileTask(filePath, formatId, targetFilePat… in prepare() local
57 addSubTask(convertTask); in prepare()
71 DefaultConvertFileTask *convertTask = qobject_cast<DefaultConvertFileTask *>(subTask); in onSubTaskFinished() local
72 if (nullptr != convertTask) { in onSubTaskFinished()
73 fastaFiles << convertTask->getResult(); in onSubTaskFinished()
74 tempFiles << convertTask->getResult(); in onSubTaskFinished()
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| /dports/biology/ugene/ugene-40.1/src/corelibs/U2Formats/src/ace/ |
| H A D | AceImporter.cpp | 54 convertTask(nullptr), in AceImporterTask()
87 convertTask = new ConvertAceToSqliteTask(srcUrl, localDbiRef); in prepare()
88 addSubTask(convertTask); in prepare()
95 if (isSqliteDbTransit && subTask == convertTask) { in onSubTaskFinished()
105 } else if (!isSqliteDbTransit && subTask == convertTask) { in onSubTaskFinished()
125 const QMap<U2Sequence, U2Assembly> importedObjects = convertTask->getImportedObjects(); in initCloneObjectTasks()
134 loadDocTask = LoadDocumentTask::getDefaultLoadDocTask(convertTask->getDestinationUrl()); in initLoadDocumentTask()
136 …setError(tr("Failed to get load task for : %1").arg(convertTask->getDestinationUrl().getURLString(… in initLoadDocumentTask()
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| H A D | AceImporter.h | 47 ConvertAceToSqliteTask *convertTask; variable
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| /dports/biology/ugene/ugene-40.1/src/plugins/dbi_bam/src/ |
| H A D | BAMDbiPlugin.cpp | 129 convertTask(nullptr), in BAMImporterTask()
174 CHECK(nullptr != convertTask, res); in onSubTaskFinished()
175 res << convertTask; in onSubTaskFinished()
178 else if (isSqliteDbTransit && convertTask == subTask) { in onSubTaskFinished()
184 else if (!isSqliteDbTransit && convertTask == subTask) { in onSubTaskFinished()
289 convertTask = new ConvertToSQLiteTask(sourceURL, localDbiRef, bamInfo, samFormat); in initConvertToSqliteTask()
293 QList<U2Assembly> assemblies = convertTask->getAssemblies(); in initCloneObjectTasks()
302 loadDocTask = LoadDocumentTask::getDefaultLoadDocTask(convertTask->getDestinationUrl()); in initLoadDocumentTask()
304 …setError(tr("Failed to get load task for : %1").arg(convertTask->getDestinationUrl().getURLString(… in initLoadDocumentTask()
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| H A D | BAMDbiPlugin.h | 80 ConvertToSQLiteTask *convertTask; variable
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| /dports/biology/ugene/ugene-40.1/src/plugins/pcr/src/export/ |
| H A D | ExportPrimersToLocalFileTask.cpp | 56 auto convertTask = qobject_cast<ExportPrimersToDatabaseTask *>(subTask); in onSubTaskFinished() local
57 CHECK(convertTask != nullptr, result); in onSubTaskFinished()
62 addObjects(document, convertTask); in onSubTaskFinished()
75 …tPrimersToLocalFileTask::addObjects(Document *document, ExportPrimersToDatabaseTask *convertTask) { in addObjects() argument
83 const QMap<U2DataId, U2DataId> &objectIds = convertTask->getImportedObjectIds(); in addObjects()
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| H A D | ExportPrimersToLocalFileTask.h | 47 void addObjects(Document *document, ExportPrimersToDatabaseTask *convertTask);
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| /dports/biology/ugene/ugene-40.1/src/plugins/workflow_designer/src/tasks/ |
| H A D | ReadAssemblyTask.cpp | 146 ctx(_ctx), format(nullptr), doc(nullptr), convertTask(nullptr), importTask(nullptr) { in ReadAssemblyTask()
168 convertTask = new ConvertToIndexedBamTask(f.format->getFormatId(), url, ctx); in prepare()
169 addSubTask(convertTask); in prepare()
201 if (convertTask == subTask) { in onSubTaskFinished()
210 } else if (convertTask == subTask) { in onSubTaskFinished()
211 url = convertTask->getResultUrl().getURLString(); in onSubTaskFinished()
213 producedFiles << convertTask->getConvertedFiles(); in onSubTaskFinished()
236 SAFE_POINT(nullptr != convertTask, "Internal error! Converting stage is missed", ); in run()
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| H A D | ReadAssemblyTask.h | 51 ConvertToIndexedBamTask *convertTask; variable
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| /dports/biology/ugene/ugene-40.1/src/plugins/workflow_designer/src/library/ |
| H A D | ConvertSnpeffVariationsToAnnotationsWorker.cpp | 154 …LoadConvertAndSaveSnpeffVariationsToAnnotationsTask *convertTask = qobject_cast<LoadConvertAndSave… in sl_taskFinished() local
155 …SAFE_POINT(nullptr != convertTask, L10N::nullPointerError("LoadConvertAndSaveSnpeffVariationsToAnn… in sl_taskFinished()
156 CHECK(!convertTask->hasError() && !convertTask->isCanceled(), ); in sl_taskFinished()
157 monitor()->addOutputFile(convertTask->getResultUrl(), getActorId()); in sl_taskFinished()
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| /dports/biology/ugene/ugene-40.1/src/corelibs/U2Formats/src/tasks/ |
| H A D | ConvertSnpeffVariationsToAnnotationsTask.cpp | 124 convertTask(nullptr), in LoadConvertAndSaveSnpeffVariationsToAnnotationsTask()
170 convertTask = new ConvertSnpeffVariationsToAnnotationsTask(variantTrackObjects); in onSubTaskFinished()
171 newSubtasks << convertTask; in onSubTaskFinished()
174 if (convertTask == subTask) { in onSubTaskFinished()
175 … QMap<QString, QList<SharedAnnotationData>> annotationsData = convertTask->getAnnotationsData(); in onSubTaskFinished()
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| H A D | ConvertSnpeffVariationsToAnnotationsTask.h | 81 ConvertSnpeffVariationsToAnnotationsTask *convertTask; variable
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| /dports/biology/ugene/ugene-40.1/src/corelibs/U2View/src/util_dna_assembly/ |
| H A D | DnaAssemblyUtils.cpp | 167 Task *convertTask = new ConvertAssemblyToSamTask(dlg->getDbFileUrl(), dlg->getSamFileUrl()); in sl_showConvertToSamDialog() local
168 AppContext::getTaskScheduler()->registerTopLevelTask(convertTask); in sl_showConvertToSamDialog()
364 ConvertFileTask *convertTask = qobject_cast<ConvertFileTask *>(subTask); in onSubTaskFinished() local
365 if (nullptr != convertTask) { in onSubTaskFinished()
367 if (convertTask->getSourceURL() == settings.refSeqUrl) { in onSubTaskFinished()
368 settings.refSeqUrl = convertTask->getResult(); in onSubTaskFinished()
372 if (convertTask->getSourceURL() == i->url) { in onSubTaskFinished()
373 i->url = convertTask->getResult(); in onSubTaskFinished()
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| /dports/biology/ugene/ugene-40.1/src/corelibs/U2Formats/src/apr/ |
| H A D | AprImporter.cpp | 79 …DefaultConvertFileTask *convertTask = new DefaultConvertFileTask(srcUrl, currentFormat, dstUrl, fo… in prepare() local
81 addSubTask(convertTask); in prepare()
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| /dports/biology/ugene/ugene-40.1/src/corelibs/U2View/src/ov_assembly/ |
| H A D | AssemblyBrowser.cpp | 699 …ConvertAssemblyToSamTask *convertTask = new ConvertAssemblyToSamTask(&(model->getDbiConnection()),… in sl_exportToSam() local
700 AppContext::getTaskScheduler()->registerTopLevelTask(convertTask); in sl_exportToSam()
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