| /dports/science/opsin/dan2097-opsin-9b25f7546b67/opsin-core/src/test/java/uk/ac/cam/ch/wwmm/opsin/ |
| H A D | ComponentGeneration_StereochemistryTest.java | 14 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testUnlocantedS() local
31 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testMultipleUnLocanted() local
54 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testLocantedR() local
71 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testMultipleRorSLocanted() local
101 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testUnLocantedE() local
118 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testLocantedZ() local
135 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testMultipleRorSorEorZ() local
164 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testDashInsteadOfComma() local
193 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testBracketedLocantedCisTrans() local
216 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testBracketedUnlocantedCisTrans() local
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| H A D | ComponentGeneration_AmbiguitiesAndIrregularitiesTest.java | 12 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testCorrectlyTokenisedAlkane() local
29 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testCorrectlyTokenisedAlkane2() local
48 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testCorrectlyTokenisedAlkane3() local
66 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testMisTokenisedAlkane() local
79 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testLocantsIndicatingTokenizationIsCorrect() local
99 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testLocantsIndicatingTokenizationIsIncorrect() local
115 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testTetraphenShouldBeTetra_Phen1() local
129 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testTetraphenShouldBeTetra_Phen2() local
143 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testTetraphenShouldBeTetraphen1() local
163 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testTetraphenShouldBeTetraphen2() local
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| H A D | StructureBuildingMethodsTest.java | 16 Element substituent = new GroupingEl(SUBSTITUENT_EL); in bracketedPrimeNotSpecialCase() local
28 Element substituent = new GroupingEl(SUBSTITUENT_EL); in bracketedPrimeSpecialCase1() local
46 Element substituent = new GroupingEl(SUBSTITUENT_EL); in bracketedPrimeSpecialCase2() local
66 Element substituent = new GroupingEl(SUBSTITUENT_EL); in notPhosphoSubstitution() local
92 Element substituent = new GroupingEl(SUBSTITUENT_EL); in phosphoUnlocantedSubstitution() local
118 Element substituent = new GroupingEl(SUBSTITUENT_EL); in phosphoLocantedSubstitution() local
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| H A D | ComponentProcessorTest.java | 15 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testSubtractiveWithNoGroupToAttachTo() local
26 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testSubtractiveWithBiochemicalToAttachTo() local
46 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testSubtractiveRightMostPreferred() local
73 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testSubtractiveBiochemicalPreferredToRightMost() local
99 Element substituent = new GroupingEl(SUBSTITUENT_EL); in testSubtractiveWithMultiplierAndLocants() local
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| H A D | ComponentGeneration_ProcesslocantsTest.java | 12 private Element substituent; field in ComponentGeneration_ProcesslocantsTest
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| /dports/science/opsin/dan2097-opsin-9b25f7546b67/opsin-core/src/main/java/uk/ac/cam/ch/wwmm/opsin/ |
| H A D | WordType.java | 12 substituent, enumConstant
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| H A D | WordRule.java | 30 substituent enumConstant
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| H A D | ComponentProcessor.java | 153 Element substituent = substituents.get(j); in processParse() local
713 …private boolean removeAndMoveToAppropriateGroupIfHydroSubstituent(Element substituent) throws Comp… in removeAndMoveToAppropriateGroupIfHydroSubstituent()
820 …static boolean removeAndMoveToAppropriateGroupIfSubtractivePrefix(Element substituent) throws Comp… in removeAndMoveToAppropriateGroupIfSubtractivePrefix()
898 …private boolean removeAndMoveToAppropriateGroupIfRingBridge(Element substituent) throws ComponentG… in removeAndMoveToAppropriateGroupIfRingBridge()
4423 …private boolean locantedEsterImplicitBracketSpecialCase(Element substituent, Element elementBefore… in locantedEsterImplicitBracketSpecialCase()
4755 Element substituent = OpsinTools.getPreviousSibling(bioLinkLocant); in processBiochemicalLinkageDescriptors() local
4780 …private void checkAndApplyFirstLocantOfBiochemicalLinkage(Element substituent, String biochemicalL… in checkAndApplyFirstLocantOfBiochemicalLinkage()
4815 …private void moveSubstituentDetachableHetAtomRepl(Element substituent) throws ComponentGenerationE… in moveSubstituentDetachableHetAtomRepl()
4904 …private void addImplicitBracketsWhenFirstSubstituentHasTwoMultipliers(Element substituent, List<El… in addImplicitBracketsWhenFirstSubstituentHasTwoMultipliers()
4987 …private void addImplicitBracketsWhenSubstituentHasTwoLocants(Element substituent, List<Element> br… in addImplicitBracketsWhenSubstituentHasTwoLocants()
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| H A D | FunctionalReplacement.java | 135 Element substituent = group.getParent(); in processPrefixFunctionalReplacementNomenclature() local
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| H A D | ComponentGenerator.java | 2610 Element substituent = OpsinTools.getPreviousSibling(group.getParent()); in handleGroupIrregularities() local
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| /dports/science/cdk/cdk-cdk-2.3/tool/sdg/src/main/java/org/openscience/cdk/layout/ |
| H A D | CorrectGeometricConfiguration.java | 226 private IAtom[] getAtoms(IAtom focus, IAtom substituent, IAtom otherFocus) { in getAtoms()
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| /dports/devel/py-pyxb/PyXB-1.2.6/pyxb/binding/ |
| H A D | generate.py | 1963 def addLocationPrefixRewrite (self, prefix, substituent): argument
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