Searched refs:excludeGaps (Results 1 – 11 of 11) sorted by relevance
| /dports/biology/ugene/ugene-40.1/src/corelibs/U2Algorithm/src/util_msa_distance/ |
| H A D | MSADistanceAlgorithm.cpp | 59 …ry->getName()), TaskFlag_None), factory(_factory), ma(_ma->getCopy()), excludeGaps(true), isSimila… in MSADistanceAlgorithm()
103 excludeGaps = _excludeGaps; in setExcludeGaps()
104 distanceMatrix.excludeGaps = _excludeGaps; in setExcludeGaps()
108 : usePercents(true), excludeGaps(false), alignmentLength(0) { in MSADistanceMatrix()
112 : usePercents(_usePercents), excludeGaps(_excludeGaps), alignmentLength(ma->getLength()) { in MSADistanceMatrix()
131 int refSeqLength = excludeGaps ? seqsUngappedLenghts.at(refRow) : alignmentLength; in getSimilarity()
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| H A D | MSADistanceAlgorithm.h | 105 bool excludeGaps; variable
143 return excludeGaps; in getExcludeGapsFlag()
160 bool excludeGaps; variable
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| H A D | MSADistanceAlgorithmHamming.cpp | 64 if (!excludeGaps) { in run()
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| H A D | MSADistanceAlgorithmSimilarity.cpp | 64 if (!excludeGaps) { in run()
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| /dports/biology/ugene/ugene-40.1/src/plugins/GUITestBase/src/runnables/ugene/corelibs/U2View/ov_msa/ |
| H A D | DistanceMatrixDialogFiller.cpp | 46 excludeGaps(_excludeGaps), in DistanceMatrixDialogFiller()
55 excludeGaps(true), in DistanceMatrixDialogFiller()
65 excludeGaps(false), in DistanceMatrixDialogFiller()
107 GTCheckBox::setChecked(os, checkBox, excludeGaps); in commonScenario()
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| H A D | DistanceMatrixDialogFiller.h | 36 …gFiller(HI::GUITestOpStatus &os, bool hamming = true, bool counts = true, bool excludeGaps = true);
45 bool excludeGaps; variable
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| /dports/biology/ugene/ugene-40.1/src/corelibs/U2View/src/ov_msa/statistics/ |
| H A D | SeqStatisticsWidget.cpp | 83 settings->excludeGaps = false; in copySettings()
127 ui.excludeGapsCheckBox->setCheckState(settings->excludeGaps ? Qt::Checked : Qt::Unchecked); in restoreSettings()
151 settings->excludeGaps = (Qt::Checked == state); in sl_onGapsChanged()
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| /dports/biology/ugene/ugene-40.1/src/corelibs/U2View/src/ov_msa/ |
| H A D | MsaEditorSimilarityColumn.h | 45 : usePercents(false), excludeGaps(false) { in SimilarityStatisticsSettings()
49 bool excludeGaps; variable
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| H A D | MsaEditorSimilarityColumn.cpp | 94 if (curSettings.excludeGaps != set->excludeGaps) { in setSettings()
175 if (s.excludeGaps) { in prepare()
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| /dports/biology/ugene/ugene-40.1/src/plugins/dna_stat/src/ |
| H A D | DistanceMatrixMSAProfileDialog.cpp | 121 s.excludeGaps = checkBox->isChecked(); in accept()
159 if (s.excludeGaps) { in prepare()
399 excludeGaps(false), in DistanceMatrixMSAProfileTaskSettings()
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| H A D | DistanceMatrixMSAProfileDialog.h | 79 bool excludeGaps; // exclude gaps when calculate distance variable
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