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Searched refs:assemblyLength (Results 1 – 9 of 9) sorted by relevance

/dports/biology/sra-tools/sra-tools-2.11.0/tools/sra-stat/
H A Dassembly-statistics.c66 uint64_t assemblyLength; member
91 nl -> length, nl -> assemblyLength ) ); in ContigNext()
93 if ( nl -> l50 == 0 && nl -> length * 2 >= nl -> assemblyLength ) { in ContigNext()
97 nl -> l50, nl -> n50, nl -> length, nl -> assemblyLength ) ); in ContigNext()
101 .9 * nl -> assemblyLength <= nl -> length ) in ContigNext()
106 nl -> l90, nl -> n90, nl -> length, nl -> assemblyLength ) ); in ContigNext()
124 self -> assemblyLength += length; in ContigsAdd()
273 assert ( contigs . assemblyLength == contigs . length ); in CalculateNL()
281 ctx -> n = contigs . assemblyLength; in CalculateNL()
/dports/biology/ugene/ugene-40.1/src/corelibs/U2View/src/ov_assembly/
H A DExtractAssemblyRegionTask.h36 ExtractAssemblyRegionTaskSettings(QString fileUrl, int assemblyLength, AssemblyObject *o) in ExtractAssemblyRegionTaskSettings()
38 …fileFormat(BaseDocumentFormats::UGENEDB), assemblyLength(assemblyLength), obj(o), addToProject(fal… in ExtractAssemblyRegionTaskSettings()
43 int assemblyLength; member
H A DExportCoverageTask.cpp170 const qint64 assemblyLength = lengthAttribute.value; in run() local
171 SAFE_POINT_EXT(0 < assemblyLength, setError(tr("Assembly has zero length")), ); in run()
175 write(toByteArray(coverage, assemblyLength)); in run()
188 QByteArray ExportCoverageHistogramTask::toByteArray(int coverage, qint64 assemblyLength) const { in toByteArray()
192 SEPARATOR + QByteArray::number(assemblyLength) + in toByteArray()
193 … SEPARATOR + QByteArray::number((double)histogramData.value(coverage, 0) / assemblyLength) + "\n"; in toByteArray()
H A DExtractAssemblyRegionDialog.cpp52 …regionSelector = new RegionSelector(this, settings->assemblyLength, false, nullptr, false, presets… in ExtractAssemblyRegionDialog()
H A DExportCoverageTask.h132 QByteArray toByteArray(int coverage, qint64 assemblyLength) const;
/dports/biology/sra-tools/sra-tools-2.11.0/test/sra-stat/
H A DtestAssemblyStatistics.cpp88 REQUIRE_EQ ( contigs . assemblyLength, ZERO ); in TEST_CASE()
95 REQUIRE_EQ ( contigs . assemblyLength, static_cast <uint64_t> ( 290 ) ); in TEST_CASE()
100 REQUIRE_EQ ( contigs . assemblyLength, static_cast <uint64_t> ( 290 ) ); in TEST_CASE()
120 REQUIRE_EQ ( contigs . assemblyLength, ZERO ); in TEST_CASE()
129 REQUIRE_EQ ( contigs . assemblyLength, static_cast <uint64_t> ( 305 ) ); in TEST_CASE()
134 REQUIRE_EQ ( contigs . assemblyLength, static_cast <uint64_t> ( 305 ) ); in TEST_CASE()
/dports/biology/ugene/ugene-40.1/src/plugins/workflow_designer/src/debug_messages_translation/
H A DAssemblyMessageTranslator.cpp59 const qint64 assemblyLength = dbi->getMaxEndPos(assemblyId, os) + 1; in getTranslation() local
62 const U2Region wholeAssembly(0, assemblyLength); in getTranslation()
66 …QString result = QObject::tr(ASSEMBLY_LENGTH_LABEL) + QString::number(assemblyLength) + INFO_FEATU… in getTranslation()
/dports/biology/ugene/ugene-40.1/src/plugins/dbi_bam/src/
H A DSamtoolsBasedDbi.cpp643 qint64 assemblyLength = getMaxEndPos(assemblyId, os) + 1; in getCorrectRegion() local
648 U2Region outOfRangeRegion(assemblyLength + 1, 0); in getCorrectRegion()
652 } else if (startPos >= assemblyLength) { in getCorrectRegion()
657 } else if (endPos >= assemblyLength) { in getCorrectRegion()
658 endPos = assemblyLength - 1; in getCorrectRegion()
/dports/biology/ugene/ugene-40.1/src/plugins/GUITestBase/src/tests/regression_scenarios/
H A DGTTestsRegressionScenarios_1001_2000.cpp4099 const int assemblyLength = GTUtilsAssemblyBrowser::getLength(os); in GUI_TEST_CLASS_DEFINITION() local
4101 …(expectedLength == assemblyLength, QString("An unexpected assembly length: expect %1, got %2").ar… in GUI_TEST_CLASS_DEFINITION()