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Searched refs:getAttributeAsString (Results 1 – 25 of 114) sorted by relevance

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/dports/biology/gatk/gatk-4.2.0.0/src/test/java/org/broadinstitute/hellbender/utils/
H A DSATagBuilderUnitTests.java33 Assert.assertEquals(primarySup.getAttributeAsString("SA"), "3,10001,+,4S,200,*;"); in testSetReadsAsSupplementalNo()
35 Assert.assertEquals(secondarySup.getAttributeAsString("SA"), "2,10000,-,4M,100,20;"); in testSetReadsAsSupplementalNo()
46 …Assert.assertEquals(sups.get(0).getAttributeAsString("SA"), "2,10000,-,4M,100,20;4,10003,+,4D,200,… in testSetReadsAsSupplementalNo()
47 … Assert.assertTrue(sups.get(1).getAttributeAsString("SA").startsWith("2,10000,-,4M,100,20;")); in testSetReadsAsSupplementalNo()
48 Assert.assertTrue(primarySup.getAttributeAsString("SA").contains("4,10003,+,4D,200,*;")); in testSetReadsAsSupplementalNo()
49 Assert.assertTrue(primarySup.getAttributeAsString("SA").contains("3,10001,+,4S,200,*;")); in testSetReadsAsSupplementalNo()
57 Assert.assertEquals(primarySup.getAttributeAsString("SA"), "*,0,+,*,0,*;"); in testSetReadsAsSupplementalNo()
58 Assert.assertEquals(sups.get(0).getAttributeAsString("SA"), "2,10000,-,4M,100,20;"); in testSetReadsAsSupplementalNo()
72 Assert.assertEquals(testRead.getAttributeAsString("SA"), attributeVal); in testRemoveTagFunctionality()
77 Assert.assertEquals(testRead.getAttributeAsString("SA"),"4,10003,+,4D,200,0;"); in testRemoveTagFunctionality()
[all …]
/dports/cad/librepcb/librepcb-0.1.6/libs/parseagle/parseagle/deviceset/
H A Dconnection.cpp9 mGate = root.getAttributeAsString("gate"); in Connection()
10 mPin = root.getAttributeAsString("pin"); in Connection()
11 mPad = root.getAttributeAsString("pad"); in Connection()
H A Dgate.cpp9 mName = root.getAttributeAsString("name"); in Gate()
10 mSymbol = root.getAttributeAsString("symbol"); in Gate()
15 QString addLevelStr = root.getAttributeAsString("addlevel"); in Gate()
H A Ddevice.cpp10 mName = root.getAttributeAsString("name"); in Device()
14 mPackage = root.getAttributeAsString("package"); in Device()
H A Ddeviceset.cpp9 mName = root.getAttributeAsString("name"); in DeviceSet()
12 mPrefix = root.getAttributeAsString("prefix"); in DeviceSet()
/dports/biology/gatk/gatk-4.2.0.0/src/test/java/org/broadinstitute/hellbender/engine/
H A DReadWalkerUnitTest.java56 Assert.assertEquals(read.getAttributeAsString("tr"), "PRE"); in makeReadFilter()
73 Assert.assertEquals(gatkRead.getAttributeAsString("ft"), "yes"); in makePostReadFilterTransformer()
75 Assert.assertEquals(gatkRead.getAttributeAsString("tr"), "PRE"); in makePostReadFilterTransformer()
90 Assert.assertEquals(read.getAttributeAsString("tr"), "POST");
H A DLocusWalkerUnitTest.java55 Assert.assertEquals(read.getAttributeAsString("tr"), "PRE"); in makeReadFilter()
71 Assert.assertEquals(gatkRead.getAttributeAsString("tr"), "PRE"); in makePostReadFilterTransformer()
83 …tBasePileup().getReads().forEach(read -> Assert.assertEquals(read.getAttributeAsString("tr"), "POS…
/dports/cad/librepcb/librepcb-0.1.6/libs/parseagle/parseagle/package/
H A Dthtpad.cpp9 mName = root.getAttributeAsString("name"); in ThtPad()
21 QString shapeStr = root.getAttributeAsString("shape"); in ThtPad()
38 mRotation = Rotation(root.getAttributeAsString("rot")); in ThtPad()
H A Dsmtpad.cpp9 mName = root.getAttributeAsString("name"); in SmtPad()
14 mRotation = Rotation(root.getAttributeAsString("rot")); in SmtPad()
/dports/cad/librepcb/librepcb-0.1.6/libs/parseagle/parseagle/symbol/
H A Dpin.cpp9 mName = root.getAttributeAsString("name"); in Pin()
14 QString lengthStr = root.getAttributeAsString("length"); in Pin()
31 mRotation = Rotation(root.getAttributeAsString("rot")); in Pin()
/dports/cad/librepcb/librepcb-0.1.6/libs/parseagle/parseagle/common/
H A Ddomelement.cpp29 QString DomElement::getAttributeAsString(const QString& name) const in getAttributeAsString() function in parseagle::DomElement
41 int value = getAttributeAsString(name).toInt(&ok); in getAttributeAsInt()
52 double value = getAttributeAsString(name).toDouble(&ok); in getAttributeAsDouble()
H A Dtext.cpp14 mRotation = Rotation(root.getAttributeAsString("rot")); in Text()
/dports/biology/gatk/gatk-4.2.0.0/src/test/java/org/broadinstitute/hellbender/tools/spark/sv/discovery/inference/
H A DSegmentedCpxVariantSimpleVariantExtractorUnitTest.java55 … .attribute(MAPPING_QUALITIES, complex.getAttributeAsString(MAPPING_QUALITIES, "")).make()) in caseForZeroAndOneSegmentCalls()
68 … .attribute(MAPPING_QUALITIES, complex.getAttributeAsString(MAPPING_QUALITIES, "")).make()) in caseForZeroAndOneSegmentCalls()
91 … .attribute(MAPPING_QUALITIES, complex.getAttributeAsString(MAPPING_QUALITIES, "")).make()) in caseForZeroAndOneSegmentCalls()
183 … .attribute(MAPPING_QUALITIES, complex.getAttributeAsString(MAPPING_QUALITIES, "")).make()); in caseForMultiSegmentsCalls()
198 … .attribute(MAPPING_QUALITIES, complex.getAttributeAsString(MAPPING_QUALITIES, "")).make()); in caseForMultiSegmentsCalls()
235 … .attribute(MAPPING_QUALITIES, complex.getAttributeAsString(MAPPING_QUALITIES, "")).make()); in caseForMultiSegmentsCalls()
250 … .attribute(MAPPING_QUALITIES, complex.getAttributeAsString(MAPPING_QUALITIES, "")).make()); in caseForMultiSegmentsCalls()
265 … .attribute(MAPPING_QUALITIES, complex.getAttributeAsString(MAPPING_QUALITIES, "")).make()); in caseForMultiSegmentsCalls()
283 … .attribute(MAPPING_QUALITIES, complex.getAttributeAsString(MAPPING_QUALITIES, "")).make()); in caseForMultiSegmentsCalls()
302 … .attribute(MAPPING_QUALITIES, complex.getAttributeAsString(MAPPING_QUALITIES, "")).make()); in caseForMultiSegmentsCalls()
[all …]
/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/tools/walkers/varianteval/stratifications/
H A DDegeneracy.java93 aa = eval.getAttributeAsString("refseq.variantAA", null); in getRelevantStates()
102 String newtype = eval.getAttributeAsString(key, null); in getRelevantStates()
112 aa = eval.getAttributeAsString(aakey, null); in getRelevantStates()
H A DFunctionalClass.java44 … type = FunctionalType.valueOf(eval.getAttributeAsString("refseq.functionalClass", null)); in getRelevantStates()
53 String newtypeStr = eval.getAttributeAsString(key, null); in getRelevantStates()
/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/tools/walkers/vqsr/
H A DApplyVQSR.java391 …final String prevFilterStatus = vc.getAttributeAsString(GATKVCFConstants.AS_FILTER_STATUS_KEY, nul… in generateFilterStringFromAlleles()
395 …final String prevAllelesFilterStatusString = vc.getAttributeAsString(GATKVCFConstants.AS_FILTER_ST… in generateFilterStringFromAlleles()
523 final String prevCulprits = vc.getAttributeAsString(GATKVCFConstants.AS_CULPRIT_KEY,""); in doAlleleSpecificFiltering()
525 … final String prevLodString = vc.getAttributeAsString(GATKVCFConstants.AS_VQS_LOD_KEY,""); in doAlleleSpecificFiltering()
527 … final String prevASfilters = vc.getAttributeAsString(GATKVCFConstants.AS_FILTER_STATUS_KEY,""); in doAlleleSpecificFiltering()
562 … alleleCulpritString = recalDatum.getAttributeAsString(GATKVCFConstants.CULPRIT_KEY, "."); in doAlleleSpecificFiltering()
602 … final String lodString = recalDatum.getAttributeAsString(GATKVCFConstants.VQS_LOD_KEY, null); in doSiteSpecificFiltering()
/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/tools/walkers/consensus/
H A DMoleculeID.java48 final String MITag = read.getAttributeAsString(SAMTag.MI.name()); in getMoleculeNumberOfRead()
54 final String MITag = read.getAttributeAsString(SAMTag.MI.name()); in getStrandOfRead()
/dports/math/scilab/scilab-6.1.1/scilab/modules/graphic_objects/src/java/org/scilab/modules/graphic_objects/xmlloader/
H A DXMLDomLoader.java534 … controller.setProperty(uib, pair.getFirst(), getAttributeAsString(prop.getNodeValue())); in createBorder()
591 … menubar = Figure.BarType.stringToEnum(getAttributeAsString(tempnode.getNodeValue())).ordinal(); in createFigure()
597 … toolbar = Figure.BarType.stringToEnum(getAttributeAsString(tempnode.getNodeValue())).ordinal(); in createFigure()
676 … controller.setProperty(fig, pair.getFirst(), getAttributeAsString(prop.getNodeValue())); in createFigure()
685 …ler.setProperty(fig, pair.getFirst(), Figure.BarType.stringToEnum(getAttributeAsString(prop.getNod… in createFigure()
688 …troller.setProperty(fig, pair.getFirst(), LayoutType.stringToEnum(getAttributeAsString(prop.getNod… in createFigure()
759 … controller.setProperty(uic, pair.getFirst(), getAttributeAsString(prop.getNodeValue())); in createUiControl()
765 …troller.setProperty(uic, pair.getFirst(), LayoutType.stringToEnum(getAttributeAsString(prop.getNod… in createUiControl()
768 …setProperty(uic, pair.getFirst(), Uicontrol.FillType.stringToEnum(getAttributeAsString(prop.getNod… in createUiControl()
816 … controller.setProperty(uim, pair.getFirst(), getAttributeAsString(prop.getNodeValue())); in createUiMenu()
[all …]
/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/tools/
H A DAddOriginalAlignmentTags.java68 read.getAttributeAsString(SAMTag.NM.name())); in addOATag()
77 return(read.getAttributeAsString(OA_TAG_NAME).split(OA_SEPARATOR)[0]); in getOAContig()
/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/tools/spark/pathseq/
H A DPSBwaAligner.java52 …final String currentTag = read.getAttributeAsString("SA") != null ? read.getAttributeAsString("SA"… in applyAlignments()
/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/tools/walkers/annotator/
H A DRMSMappingQuality.java149 rawMQdata = vc.getAttributeAsString(getPrimaryRawKey(), null); in finalizeRawData()
160 rawMQdata = vc.getAttributeAsString(getDeprecatedRawKeyName(), null); in finalizeRawData()
165 …final String rawMQdepth = vc.getAttributeAsString(GATKVCFConstants.MAPPING_QUALITY_DEPTH_DEPRECATE… in finalizeRawData()
263 final String rawMQdata = vc.getAttributeAsString(getPrimaryRawKey(), null); in finalizeRawMQ()
270 … final String deprecatedRawMQdata = vc.getAttributeAsString(getDeprecatedRawKeyName(), null); in finalizeRawMQ()
/dports/biology/gatk/gatk-4.2.0.0/src/test/java/org/broadinstitute/hellbender/tools/walkers/rnaseq/
H A DSplitNCigarReadsUnitTest.java104 Assert.assertEquals("11M11S", writer.writtenReads.get(0).getAttributeAsString("MC")); in testSplitNComplexCase()
105 Assert.assertEquals("11M11S", writer.writtenReads.get(1).getAttributeAsString("MC")); in testSplitNComplexCase()
106 Assert.assertEquals("11M11S", writer.writtenReads.get(2).getAttributeAsString("MC")); in testSplitNComplexCase()
/dports/games/supertuxkart/SuperTuxKart-1.2-src/lib/irrlicht/source/Irrlicht/
H A DCMeshSceneNode.cpp327 io::path newMeshStr = in->getAttributeAsString("Mesh"); in deserializeAttributes()
349 core::stringc smapping = in->getAttributeAsString("HardwareMappingHint"); in deserializeAttributes()
357 core::stringc sbufferType = in->getAttributeAsString("HardwareMappingBufferType"); in deserializeAttributes()
/dports/biology/gatk/gatk-4.2.0.0/src/main/java/org/broadinstitute/hellbender/tools/spark/sv/utils/
H A DSVVCFWriter.java74 final String s1 = v1.getAttributeAsString(GATKSVVCFConstants.INSERTED_SEQUENCE, ""); in sortVariantsByCoordinate()
75 final String s2 = v2.getAttributeAsString(GATKSVVCFConstants.INSERTED_SEQUENCE, ""); in sortVariantsByCoordinate()
/dports/x11-toolkits/irrlicht/irrlicht-1.8.5/source/Irrlicht/
H A DCMeshSceneNode.cpp358 io::path newMeshStr = in->getAttributeAsString("Mesh"); in deserializeAttributes()
380 core::stringc smapping = in->getAttributeAsString("HardwareMappingHint"); in deserializeAttributes()
388 core::stringc sbufferType = in->getAttributeAsString("HardwareMappingBufferType"); in deserializeAttributes()

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