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Searched refs:stateInfo (Results 1 – 25 of 496) sorted by relevance

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/dports/biology/ugene/ugene-40.1/src/plugins/external_tool_support/src/blast_plus/align_worker_subtasks/
H A DComposeResultSubTask.cpp82 CHECK_OP(stateInfo, ); in prepare()
98 CHECK_OP(stateInfo, ); in run()
101 CHECK_OP(stateInfo, ); in run()
104 CHECK_OP(stateInfo, ); in run()
107 CHECK_OP(stateInfo, ); in run()
110 CHECK_OP(stateInfo, ); in run()
113 CHECK_OP(stateInfo, ); in run()
148 CHECK_OP(stateInfo, ); in createAlignmentAndAnnotations()
203 CHECK_OP(stateInfo, ); in createAlignmentAndAnnotations()
206 CHECK_OP(stateInfo, ); in createAlignmentAndAnnotations()
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/dports/biology/ugene/ugene-40.1/src/plugins/api_tests/src/core/external_script/base_scheme_interface/
H A DCInterfaceSasTests.cpp85 U2OpStatusImpl stateInfo; in IMPLEMENT_TEST() local
89 CHECK_NO_ERROR(stateInfo); in IMPLEMENT_TEST()
104 U2OpStatusImpl stateInfo; in IMPLEMENT_TEST() local
108 CHECK_NO_ERROR(stateInfo); in IMPLEMENT_TEST()
123 U2OpStatusImpl stateInfo; in IMPLEMENT_TEST() local
127 CHECK_NO_ERROR(stateInfo); in IMPLEMENT_TEST()
142 U2OpStatusImpl stateInfo; in IMPLEMENT_TEST() local
161 U2OpStatusImpl stateInfo; in IMPLEMENT_TEST() local
180 U2OpStatusImpl stateInfo; in IMPLEMENT_TEST() local
199 U2OpStatusImpl stateInfo; in IMPLEMENT_TEST() local
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/dports/devel/splint/splint-3.1.2/src/Headers/
H A DstateInfo.h12 typedef /*@null@*/ struct s_stateInfo *stateInfo ; typedef
70 /*@null@*/ stateInfo previous;
79 extern void stateInfo_free (/*@only@*/ stateInfo p_a);
81 extern /*@only@*/ stateInfo stateInfo_update (/*@only@*/ stateInfo p_old, stateInfo p_newinfo);
83 extern /*@only@*/ stateInfo stateInfo_updateLoc (/*@only@*/ stateInfo p_old,
87 extern /*@only@*/ stateInfo
92 extern /*@only@*/ stateInfo stateInfo_copy (stateInfo p_a);
96 extern /*@only@*/ /*@notnull@*/ stateInfo
99 extern /*@only@*/ /*@notnull@*/ stateInfo
102 extern /*@observer@*/ fileloc stateInfo_getLoc (stateInfo p_info) ;
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/dports/biology/ugene/ugene-40.1/src/plugins/workflow_designer/src/tasks/
H A DSequenceQualityTrimTask.cpp61 CHECK_OP(stateInfo, ); in run()
64 CHECK_OP(stateInfo, ); in run()
76 CHECK_OP(stateInfo, ); in cloneObjects()
78 CHECK_OP(stateInfo, ); in cloneObjects()
80 CHECK_OP(stateInfo, ); in cloneObjects()
91 CHECK_OP(stateInfo, ); in cloneChromatogram()
95 CHECK_OP(stateInfo, ); in cloneChromatogram()
99 CHECK_OP(stateInfo, ); in cloneChromatogram()
114 CHECK_OP(stateInfo, ); in restoreRelation()
117 CHECK_OP(stateInfo, ); in restoreRelation()
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/dports/biology/ugene/ugene-40.1/src/corelibs/U2Formats/src/ace/
H A DConvertAceToSqliteTask.cpp79 CHECK_OP(stateInfo, ); in run()
91 CHECK_OP(stateInfo, ); in run()
95 CHECK_OP(stateInfo, ); in run()
99 CHECK_OP(stateInfo, ); in run()
111 if (stateInfo.isCoR() && in report()
230 stateInfo.setProgress(stateInfo.getProgress() + progressStep); in packReads()
257 CHECK_OP(stateInfo, ); in updateAttributeDbi()
271 CHECK_OP(stateInfo, ); in updateAttributeDbi()
284 CHECK_OP(stateInfo, ); in updateAttributeDbi()
293 CHECK_OP(stateInfo, ); in updateAttributeDbi()
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/dports/biology/ugene/ugene-40.1/src/plugins/CoreTests/src/
H A DEditAlignmentTests.cpp44 stateInfo.setError(GTest::tr("value not set %1").arg(DOC_ATTR)); in init()
63 stateInfo.setError(GTest::tr("no subsequences selected")); in init()
69 stateInfo.setError(GTest::tr("value not set %1").arg(WINDOW_ATTR)); in init()
133 stateInfo.setError("Row not found: " + seqName); in prepare()
168 stateInfo.setError(GTest::tr("value not set %1").arg(DOC_ATTR)); in init()
193 stateInfo.setError(GTest::tr("incorrect value %1").arg(buf)); in init()
208 stateInfo.setError(GTest::tr("incorrect value %1").arg(buf)); in init()
223 stateInfo.setError(GTest::tr("incorrect value %1").arg(buf)); in init()
238 stateInfo.setError(GTest::tr("incorrect value %1").arg(buf)); in init()
293 stateInfo.setError(GTest::tr("value not set %1").arg(DOC_ATTR)); in init()
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H A DDNASequenceObjectTests.cpp68 stateInfo.setError(QString("wrong value: %1").arg(OBJ_ATTR)); in report()
101 stateInfo.setError(QString("wrong value: %1").arg(OBJ_ATTR)); in report()
149 stateInfo.setError(QString("wrong value: %1").arg(OBJ_ATTR)); in report()
202 stateInfo.setError(QString("wrong value: %1").arg(OBJ_ATTR)); in report()
311 stateInfo.setError(error); in report()
365 … if (mySequence->getWholeSequenceData(stateInfo) != mySequence2->getWholeSequenceData(stateInfo)) { in report()
366 CHECK_OP(stateInfo, ReportResult_Finished); in report()
370 CHECK_OP(stateInfo, ReportResult_Finished); in report()
380 stateInfo.setError(error); in report()
447 stateInfo.setError(error); in report()
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H A DBioStruct3DObjectTests.cpp67 stateInfo.setError(QString("wrong value: %1").arg(OBJ_ATTR)); in report()
111 stateInfo.setError(QString("wrong value: %1").arg(OBJ_ATTR)); in report()
202 stateInfo.setError(QString("wrong value: %1").arg(OBJ_ATTR)); in report()
219 stateInfo.setError(QString("atom with index = %1 not found").arg(atomId)); in report()
281 stateInfo.setError(QString("wrong value: %1").arg(OBJ_ATTR)); in report()
354 stateInfo.setError(QString("wrong value: %1").arg(OBJ_ATTR)); in report()
415 stateInfo.setError(QString("wrong value: %1").arg(OBJ_ATTR)); in report()
457 stateInfo.setError(QString("Folder %1 is_empty").arg(dirName)); in init()
476 …stateInfo.setError(stateInfo.getError() + fileNames.value(task) + "(" + task->getError() + "); "… in report()
511 stateInfo.setError(QString("Folder %1 is_empty").arg(dirName)); in init()
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H A DEditSequenceTests.cpp91 stateInfo.setError(GTest::tr("context not found %1").arg(docName)); in prepare()
96 stateInfo.setError(GTest::tr("Sequence %1 not found").arg(seqName)); in prepare()
115 CHECK_OP(stateInfo, ReportResult_Finished); in report()
121 CHECK_OP(stateInfo, ReportResult_Finished); in report()
225 stateInfo.setError(GTest::tr("context not found %1").arg(docName)); in prepare()
230 stateInfo.setError(GTest::tr("Sequence %1 not found").arg(seqName)); in prepare()
247 CHECK_OP(stateInfo, ReportResult_Finished); in report()
253 CHECK_OP(stateInfo, ReportResult_Finished); in report()
352 stateInfo.setError(GTest::tr("Context not found %1").arg(docName)); in prepare()
375 CHECK_OP(stateInfo, ReportResult_Finished); in report()
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/dports/biology/ugene/ugene-40.1/src/plugins_3rdparty/sitecon/src/
H A DSiteconAlgorithmTests.cpp82 stateInfo.setError(QString("Wrong %1 values").arg(EXPECTED_RESULTS_ATTR)); in init()
90 stateInfo.setError(QString("context not found %1").arg(docName)); in prepare()
118 stateInfo.setError(QString("Actual results not equal with expected")); in report()
183 stateInfo.setError(QString("context not found %1").arg(docName)); in prepare()
268 stateInfo.setError(QString("context not found %1").arg(docName)); in prepare()
347 stateInfo.setError(QString("context not found %1").arg(docName)); in prepare()
411 model = SiteconIO::readModel(iof, url, stateInfo); in init()
428 stateInfo.setError(QString("%1 has incorrect value").arg(STRAND_ATTR)); in init()
497 QByteArray seqData = mySequence->getWholeSequenceData(stateInfo); in prepare()
498 CHECK_OP(stateInfo, ); in prepare()
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H A DSiteconBuildDialogController.cpp196 stateInfo.setError(tr("Alignment is empty")); in run()
224 if (stateInfo.hasError() || isCanceled()) { in run()
227 stateInfo.setDescription(tr("Calculating weights")); in run()
229 if (stateInfo.hasError() || isCanceled()) { in run()
232 stateInfo.progress += 5; in run()
235 if (stateInfo.hasError() || isCanceled()) { in run()
238 stateInfo.progress += 10; in run()
241 if (stateInfo.hasError() || isCanceled()) { in run()
264 stateInfo.progress = 0; in SiteconBuildToFileTask()
265 stateInfo.setDescription(tr("Loading alignment")); in SiteconBuildToFileTask()
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/dports/biology/ugene/ugene-40.1/src/corelibs/U2Algorithm/src/msa_alignment/
H A DSimpleAddingToAlignment.cpp75 CHECK_OP(stateInfo, ReportResult_Finished); in report()
81 CHECK_OP(stateInfo, ReportResult_Finished); in report()
86 CHECK_OP(stateInfo, ReportResult_Finished); in report()
94 CHECK_OP(stateInfo, ReportResult_Finished); in report()
101 CHECK_OP(stateInfo, ReportResult_Finished); in report()
109 CHECK_OP(stateInfo, ReportResult_Finished); in report()
114 CHECK_OP(stateInfo, ReportResult_Finished); in report()
121 CHECK_OP(stateInfo, ReportResult_Finished); in report()
141 MsaDbiUtils::trim(settings.msaRef, stateInfo); in report()
143 CHECK_OP(stateInfo, ReportResult_Finished); in report()
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/dports/biology/ugene/ugene-40.1/src/plugins_3rdparty/umuscle/src/umuscle_tests/
H A DumuscleTests.cpp195 stateInfo.setError( mTask->getError() ); in report()
361 CHECK_OP(stateInfo, ); in prepare()
428 stateInfo.progress = 0; in init()
513 SAFE_POINT_OP(stateInfo, MultipleSequenceAlignment()); in dna_to_ma()
546 CHECK_OP(stateInfo, res); in onSubTaskFinished()
591 CHECK_OP(stateInfo, res); in onSubTaskFinished()
603 if(stateInfo.hasError()) { in run()
627 stateInfo.progress = 0; in Muscle_Load_Align_Compare_Task()
690 CHECK_OP(stateInfo, res); in onSubTaskFinished()
735 CHECK_OP(stateInfo, res); in onSubTaskFinished()
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/dports/devel/splint/splint-3.1.2/src/
H A DstateInfo.c48 /*@only@*/ stateInfo stateInfo_update (/*@only@*/ stateInfo old, stateInfo newinfo) in stateInfo_update()
90 static /*@observer@*/ stateInfo stateInfo_sort (/*@temp@*/ stateInfo stinfo) in stateInfo_sort()
102 stateInfo sfirst = snext; in stateInfo_sort()
150 /*@only@*/ stateInfo
176 /*@only@*/ stateInfo
205 /*@only@*/ stateInfo stateInfo_copy (stateInfo a) in stateInfo_copy()
213 stateInfo ret = (stateInfo) dmalloc (sizeof (*ret)); in stateInfo_copy()
224 /*@only@*/ /*@notnull@*/ stateInfo
233 stateInfo ret = (stateInfo) dmalloc (sizeof (*ret)); in stateInfo_makeLoc()
253 stateInfo ret = (stateInfo) dmalloc (sizeof (*ret)); in stateInfo_makeRefLoc()
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/dports/biology/ugene/ugene-40.1/src/corelibs/U2Formats/src/tasks/
H A DExportTasks.cpp67 CHECK_OP(stateInfo, ); in run()
70 CHECK_OP(stateInfo, ); in run()
74 CHECK_OP(stateInfo, ); in run()
102 CHECK_OP(stateInfo, ); in run()
104 CHECK_OP(stateInfo, ); in run()
118 CHECK_OP(stateInfo, ); in run()
152 CHECK_OP(stateInfo, ) in ExportMSA2MSATask()
161 CHECK_OP(stateInfo, ); in run()
188 CHECK_OP(stateInfo, ); in run()
191 CHECK_OP(stateInfo, ); in run()
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/dports/biology/ugene/ugene-40.1/src/plugins_3rdparty/kalign/src/kalign_tests/
H A DKalignTests.cpp85 stateInfo.progress = 0; in Kalign_Load_Align_Compare_Task()
115 QByteArray seqData = seq->getWholeSequenceData(stateInfo); in dna_to_ma()
116 SAFE_POINT_OP(stateInfo, MultipleSequenceAlignment()); in dna_to_ma()
149 CHECK_OP(stateInfo, res); in onSubTaskFinished()
192 CHECK_OP(stateInfo, res); in onSubTaskFinished()
238 …stateInfo.setError( QString("input file \"%1\", pattern file \"%2\":\n").arg(str_inFileURL).arg(s… in report()
321 stateInfo.progress = 0; in init()
365 SAFE_POINT_OP(stateInfo, MultipleSequenceAlignment()); in dna_to_ma()
398 CHECK_OP(stateInfo, res); in onSubTaskFinished()
441 CHECK_OP(stateInfo, res); in onSubTaskFinished()
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/dports/biology/ugene/ugene-40.1/src/plugins/external_tool_support/src/mafft/
H A DMafftAddToAlignmentTask.cpp121 CHECK_OP(stateInfo, ); in prepare()
199 CHECK_OP(stateInfo, ); in run()
215 CHECK_OP(stateInfo, ); in run()
220 CHECK_OP(stateInfo, ); in run()
233 stateInfo.setProgress(70 + 30 * posInMsa / objectsCount); in run()
256 CHECK_OP(stateInfo, ); in run()
266 CHECK_OP(stateInfo, ); in run()
270 CHECK_OP(stateInfo, ); in run()
277 CHECK_OP(stateInfo, ); in run()
296 MsaDbiUtils::trim(settings.msaRef, stateInfo); in run()
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/dports/biology/ugene/ugene-40.1/src/plugins/annotator/src/
H A DAnnotatorTests.cpp75 stateInfo.setError(QString("wrong value for %1").arg(EXPECTED_RESULTS_ATTR)); in init()
120 stateInfo.setError(QString("context not found %1").arg(docName)); in prepare()
137 stateInfo.setError(QString("error can't cast to sequence from GObject")); in prepare()
142 stateInfo.setError(QString("context not found %1").arg(seqName)); in prepare()
209 stateInfo.setError(QString("context not found %1").arg(docName)); in prepare()
227 stateInfo.setError(QString("error can't cast to sequence from GObject")); in prepare()
317 stateInfo.setError(QString("context not found %1").arg(docName)); in prepare()
334 stateInfo.setError(QString("object with name \"%1\" not found").arg(seqName)); in prepare()
340 stateInfo.setError(QString("error can't cast to sequence from GObject")); in prepare()
345 stateInfo.setError(QString("context not found %1").arg(seqName)); in prepare()
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/dports/biology/ugene/ugene-40.1/src/plugins/dbi_bam/src/
H A DPrepareToImportTask.cpp95 CHECK_OP(stateInfo, ); in run()
99 CHECK_OP(stateInfo, ); in run()
101 stateInfo.setProgress(33); in run()
103 bool sorted = BAMUtils::isSortedBam(bamUrl, stateInfo); in run()
104 CHECK_OP(stateInfo, ); in run()
112 stateInfo.setDescription(LoadInfoTask::tr("Sorting BAM")); in run()
115 CHECK_OP(stateInfo, ); in run()
117 stateInfo.setProgress(66); in run()
136 BAMUtils::createBamIndex(indexedBamUrl, stateInfo); in run()
137 CHECK_OP(stateInfo, ); in run()
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/dports/biology/ugene/ugene-40.1/src/plugins/dna_export/src/
H A DExportSelectedSeqRegionsTask.cpp78 CHECK(isSeqObjectValid(seqObject, stateInfo), ); in CreateExportItemsFromSeqRegionsTask()
109 SAFE_POINT_OP(stateInfo, ); in run()
111 CHECK(isSeqObjectValid(seqObject, stateInfo), ); in run()
113 DbiOperationsBlock dbiBlock(dbiRef, stateInfo); in run()
136 SAFE_POINT_OP(stateInfo, ); in run()
141 CHECK(isSeqObjectValid(seqObject, stateInfo), ); in run()
145 SAFE_POINT_OP(stateInfo, ); in run()
148 SAFE_POINT_OP(stateInfo, ); in run()
157 CHECK_OP(stateInfo, ); in run()
172 CHECK_OP(stateInfo, ); in run()
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H A DDNASequenceGenerator.cpp202 CHECK_OP(stateInfo, ); in DNASequenceGeneratorTask()
246 stateInfo.setError(err); in onLoadRefTaskFinished()
327 CHECK_OP(stateInfo, ); in addSequencesToMsaDoc()
418 CHECK_OP(stateInfo, ); in run()
420 CHECK_OP(stateInfo, ); in run()
434 CHECK_OP_BREAK(stateInfo); in run()
438 CHECK_OP_BREAK(stateInfo); in run()
440 CHECK_OP_BREAK(stateInfo); in run()
444 CHECK_OP_BREAK(stateInfo); in run()
449 CHECK_OP_BREAK(stateInfo); in run()
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/dports/biology/ugene/ugene-40.1/src/corelibs/U2Core/src/tasks/
H A DDeleteObjectsTask.cpp68 CHECK_EXT(nullptr != obj, stateInfo.setError("Invalid object detected!"), ); in DeleteObjectsTask()
79 DbiConnection con(dbiRef, stateInfo); in run()
80 CHECK_OP(stateInfo, ); in run()
83 con.dbi->getObjectDbi()->removeObjects(dbiRef2Objs[dbiRef], stateInfo); in run()
84 CHECK_OP(stateInfo, ); in run()
87 stateInfo.setProgress(100 * dbiRef2Objs[dbiRef].count() / dbiRef2Objs.count()); in run()
100 CHECK_EXT(nullptr != doc, stateInfo.setError("Invalid document detected!"), ); in DeleteFoldersTask()
108 ProgressUpdater progressUpdater(stateInfo, dbi2Path.size()); in run()
110 DbiConnection con(dbiRef, stateInfo); in run()
111 CHECK_OP(stateInfo, ); in run()
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/dports/biology/ugene/ugene-40.1/src/plugins/external_tool_support/src/utils/
H A DExportTasks.cpp74 doc.reset(f->createNewLoadedDocument(iof, fileName, stateInfo)); in run()
77 CHECK_OP(stateInfo, ); in run()
85 f->storeDocument(doc.data(), stateInfo); in run()
107 stateInfo.setProgress(0); in SaveMSA2SequencesTask()
114 doc.reset(documentFormat->createNewLoadedDocument(iof, url, stateInfo)); in run()
115 CHECK_OP(stateInfo, ); in run()
124 CHECK_OP(stateInfo, ); in run()
128 documentFormat->storeDocument(doc.data(), stateInfo); in run()
145 CHECK_OP(stateInfo, ); in prepare()
158 CHECK_OP(stateInfo, result); in onSubTaskFinished()
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/dports/biology/ugene/ugene-40.1/src/corelibs/U2Gui/src/util/project/filter_tasks/
H A DFeatureKeyFilterTask.cpp46 if (stateInfo.isCoR()) { in run()
53 SAFE_POINT_EXT(nullptr != doc, stateInfo.setError(L10N::nullPointerError("document")), ); in filterDocument()
59 DbiConnection connection(dbiRef, stateInfo); in filterDocument()
60 CHECK_OP(stateInfo, ); in filterDocument()
61 …SAFE_POINT_EXT(nullptr != connection.dbi, stateInfo.setError(L10N::nullPointerError("Database conn… in filterDocument()
63 …SAFE_POINT_EXT(nullptr != featureDbi, stateInfo.setError(L10N::nullPointerError("Feature DBI")), ); in filterDocument()
65 …tionTables[dbiRef] = featureDbi->getAnnotationTablesByFeatureKey(settings.tokensToShow, stateInfo); in filterDocument()
66 SAFE_POINT_OP(stateInfo, ); in filterDocument()
83 …stateInfo.setProgress(stateInfo.getProgress() + (totalDocObjectsNumber / foundObjectsNumber / tota… in filterDocument()
84 if (stateInfo.isCoR()) { in filterDocument()
/dports/biology/ugene/ugene-40.1/src/plugins/external_tool_support/src/hmmer/
H A DHmmerBuildTaskTest.cpp87 stateInfo.setError("cannot_parse_option_seed"); in setSeedOption()
115 stateInfo.setError("unrecognized_mc_option"); in setModelConstructionOption()
152 stateInfo.setError("unrecognized_rw_option"); in setRelativeWeightingOption()
215 stateInfo.setError("unrecognized_ew_option"); in setEffectiveWeightingOption()
226 stateInfo.setError("error_parsing_eval_option"); in setEvalueCalibrationOption()
243 setBuildSettings(bldSettings, el, stateInfo); in init()
260 stateInfo.setError(tr("No input file given")); in setAndCheckArgs()
266 stateInfo.setError(tr("No output file given")); in setAndCheckArgs()
291 stateInfo.setError(buildTask->getError()); in report()
333 stateInfo.setError(tr("File #1 not set")); in setAndCheckArgs()
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