| /dports/science/cdk/cdk-cdk-2.3/base/test-standard/src/test/java/org/openscience/cdk/ringsearch/ |
| H A D | RingSearchTest_Fused.java | 49 RingSearch ringSearch = new RingSearch(fusedRings); in testCyclic_Int() local
56 RingSearch ringSearch = new RingSearch(fusedRings); in testCyclic() local
62 RingSearch ringSearch = new RingSearch(fusedRings); in testFused() local
68 RingSearch ringSearch = new RingSearch(fusedRings); in testIsolated() local
74 RingSearch ringSearch = new RingSearch(fusedRings); in testRingFragments() local
86 RingSearch ringSearch = new RingSearch(fusedRings); in testFusedRingFragments() local
100 RingSearch ringSearch = new RingSearch(fusedRings); in testIsolatedRingFragments() local
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| H A D | RingSearchTest_Empty.java | 52 RingSearch ringSearch = new RingSearch(empty); in testCyclic_Int() local
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| H A D | RingSearchTest_NonCyclic.java | 52 RingSearch ringSearch = new RingSearch(nonCyclic); in testCyclic_Int() local
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| H A D | RingSearchTest_Biphenyl.java | 53 RingSearch ringSearch = new RingSearch(biphenyl); in testCyclic_Int() local
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| H A D | RingSearchTest_Benzene.java | 53 RingSearch ringSearch = new RingSearch(benzene); in testCyclic_Int() local
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| H A D | RingSearchTest_Bicyclo.java | 57 RingSearch ringSearch = new RingSearch(bicyclo); in testCyclic_Int() local
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| H A D | RingSearchTest_SpiroRings.java | 54 RingSearch ringSearch = new RingSearch(spiro); in testCyclic_Int() local
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| H A D | RingSearchTest_BenzylBenzene.java | 56 RingSearch ringSearch = new RingSearch(benzylbenzene); in testCyclic_Int() local
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| H A D | RingSearchTest_Hexaphenylene.java | 57 RingSearch ringSearch = new RingSearch(hexaphenylene); in testCyclic_Int() local
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| /dports/science/cdk/cdk-cdk-2.3/base/test-core/src/test/java/org/openscience/cdk/ringsearch/ |
| H A D | RingSearchTest.java | 99 RingSearch ringSearch = new RingSearch(container, cyclicSearch); in testCyclic() local
111 RingSearch ringSearch = new RingSearch(container, cyclicSearch); in testCyclic_Int() local
123 RingSearch ringSearch = new RingSearch(container, cyclicSearch); in testCyclic_IntInt() local
138 RingSearch ringSearch = new RingSearch(container, cyclicSearch); in testCyclic_Atom() local
160 RingSearch ringSearch = new RingSearch(container, cyclicSearch); in testCyclic_Bond() local
178 RingSearch ringSearch = new RingSearch(container, cyclicSearch); in testCyclic_Atom_NotFound() local
189 RingSearch ringSearch = new RingSearch(container, cyclicSearch); in testIsolated() local
202 RingSearch ringSearch = new RingSearch(container, cyclicSearch); in testFused() local
216 RingSearch ringSearch = new RingSearch(container, cyclicSearch); in testRingFragments() local
268 RingSearch ringSearch = new RingSearch(container, cyclicSearch); in testIsolatedRingFragments() local
[all …]
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| /dports/science/cdk/cdk-cdk-2.3/base/standard/src/main/java/org/openscience/cdk/aromaticity/ |
| H A D | ElectronDonation.java | 74 abstract int[] contribution(IAtomContainer container, RingSearch ringSearch); in contribution()
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| H A D | PiBondModel.java | 46 int[] contribution(IAtomContainer container, RingSearch ringSearch) { in contribution()
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| H A D | AtomTypeModel.java | 82 int[] contribution(IAtomContainer container, RingSearch ringSearch) { in contribution()
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| H A D | Aromaticity.java | 186 final RingSearch ringSearch = new RingSearch(molecule, graph); in findBonds() local
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| H A D | DaylightModel.java | 80 int[] contribution(IAtomContainer container, RingSearch ringSearch) { in contribution()
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| /dports/science/cdk/cdk-cdk-2.3/tool/hash/src/main/java/org/openscience/cdk/hash/ |
| H A D | AllEquivalentCyclicSet.java | 72 RingSearch ringSearch = new RingSearch(container, graph); in find() local
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| H A D | MinimumEquivalentCyclicSetUnion.java | 93 RingSearch ringSearch = new RingSearch(container, graph); in find() local
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| H A D | MinimumEquivalentCyclicSet.java | 87 RingSearch ringSearch = new RingSearch(container, graph); in find() local
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| /dports/science/cdk/cdk-cdk-2.3/base/core/src/main/java/org/openscience/cdk/graph/ |
| H A D | Cycles.java | 440 RingSearch ringSearch = new RingSearch(mol, adjList); in markRingAtomsAndBonds() local
839 RingSearch ringSearch = new RingSearch(molecule, graph); in find() local
867 RingSearch ringSearch = new RingSearch(molecule, graph); in find() local
1003 RingSearch ringSearch = new RingSearch(molecule, graph); in find() local
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| /dports/science/cdk/cdk-cdk-2.3/base/standard/src/main/java/org/openscience/cdk/stereo/ |
| H A D | FischerRecognition.java | 137 RingSearch ringSearch = new RingSearch(container, graph); in recognise() local
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| H A D | CyclicCarbohydrateRecognition.java | 110 RingSearch ringSearch = new RingSearch(container, graph); in recognise() local
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| H A D | Stereocenters.java | 133 private final RingSearch ringSearch; field in Stereocenters
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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 | 66 private final RingSearch ringSearch; field in CorrectGeometricConfiguration
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| H A D | NonplanarBonds.java | 90 private final RingSearch ringSearch; field in NonplanarBonds
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