/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/unit_tests/api/ |
H A D | msa2pssm_unit_test.cpp | 55 auto_ptr<CPsiBlastInputClustalW> pssm_input; in BOOST_AUTO_TEST_CASE() local 70 CPsiBlastInputClustalW pssm_input(in, *opts); in BOOST_AUTO_TEST_CASE() local 71 pssm_input.Process(); in BOOST_AUTO_TEST_CASE() 73 PSIMsa* msa = pssm_input.GetData(); in BOOST_AUTO_TEST_CASE() 102 pssm_input.Process(); in BOOST_AUTO_TEST_CASE() 104 PSIMsa* msa = pssm_input.GetData(); in BOOST_AUTO_TEST_CASE() 109 for (TSeqPos i = 0; i < pssm_input.GetQueryLength(); i++) { in BOOST_AUTO_TEST_CASE() 124 CPsiBlastInputClustalW pssm_input(in, *opts); in BOOST_AUTO_TEST_CASE() local 126 string(pssm_input.GetMatrixName())); in BOOST_AUTO_TEST_CASE() 127 pssm_input.Process(); in BOOST_AUTO_TEST_CASE() [all …]
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H A D | pssmcreate_cdd_unit_test.cpp | 282 CPssmInputWithSingleCD pssm_input; in BOOST_AUTO_TEST_CASE() local 328 CPssmInputWithTwoCDs pssm_input; in BOOST_AUTO_TEST_CASE() local 376 CPssmInputWithNoCDs pssm_input; in BOOST_AUTO_TEST_CASE() local 406 CPssmInputWithGapsInQuery pssm_input; in BOOST_AUTO_TEST_CASE() local 408 CPssmEngine pssm_engine(&pssm_input); in BOOST_AUTO_TEST_CASE() 417 CPssmEngine pssm_engine(&pssm_input); in BOOST_AUTO_TEST_CASE() 425 CPssmEngine pssm_engine(&pssm_input); in BOOST_AUTO_TEST_CASE() 433 CPssmEngine pssm_engine(&pssm_input); in BOOST_AUTO_TEST_CASE() 440 CPssmInputWithSingleCD pssm_input; in BOOST_AUTO_TEST_CASE() local 536 pssm_input->Process(); in BOOST_AUTO_TEST_CASE() [all …]
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H A D | pssmcreate_unit_test.cpp | 668 auto_ptr<CPsiBlastInputData> pssm_input( in BOOST_AUTO_TEST_CASE() local 673 CPssmEngine pssm_engine(pssm_input.get()); in BOOST_AUTO_TEST_CASE() 674 pssm_input->Process(); in BOOST_AUTO_TEST_CASE() 763 auto_ptr<IPssmInputData> pssm_input in BOOST_AUTO_TEST_CASE() local 775 auto_ptr<IPssmInputData> pssm_input in BOOST_AUTO_TEST_CASE() local 788 auto_ptr<IPssmInputData> pssm_input in BOOST_AUTO_TEST_CASE() local 802 auto_ptr<IPssmInputData> pssm_input in BOOST_AUTO_TEST_CASE() local 807 CPssmEngine pssm_engine(pssm_input.get()); in BOOST_AUTO_TEST_CASE() 868 auto_ptr<IPssmInputData> pssm_input in BOOST_AUTO_TEST_CASE() local 878 (_PSIPackedMsaNew(pssm_input->GetData())); in BOOST_AUTO_TEST_CASE() [all …]
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H A D | pssmenginefreqratios_unit_test.cpp | 87 auto_ptr<IPssmInputFreqRatios> pssm_input; in BOOST_AUTO_TEST_CASE() local 88 pssm_input.reset(new CPsiBlastInputFreqRatios in BOOST_AUTO_TEST_CASE() 90 CPssmEngine pssm_engine(pssm_input.get()); in BOOST_AUTO_TEST_CASE() 110 pssm_input->GetQuery()[i], j); in BOOST_AUTO_TEST_CASE() 133 CPsiBlastInputClustalW pssm_input(in, *opts, "BLOSUM62", diags); in BOOST_AUTO_TEST_CASE() local 134 CPssmEngine pssm_engine(&pssm_input); in BOOST_AUTO_TEST_CASE()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/unit_tests/api/ |
H A D | msa2pssm_unit_test.cpp | 55 auto_ptr<CPsiBlastInputClustalW> pssm_input; in BOOST_AUTO_TEST_CASE() local 70 CPsiBlastInputClustalW pssm_input(in, *opts); in BOOST_AUTO_TEST_CASE() local 71 pssm_input.Process(); in BOOST_AUTO_TEST_CASE() 73 PSIMsa* msa = pssm_input.GetData(); in BOOST_AUTO_TEST_CASE() 102 pssm_input.Process(); in BOOST_AUTO_TEST_CASE() 104 PSIMsa* msa = pssm_input.GetData(); in BOOST_AUTO_TEST_CASE() 109 for (TSeqPos i = 0; i < pssm_input.GetQueryLength(); i++) { in BOOST_AUTO_TEST_CASE() 124 CPsiBlastInputClustalW pssm_input(in, *opts); in BOOST_AUTO_TEST_CASE() local 126 string(pssm_input.GetMatrixName())); in BOOST_AUTO_TEST_CASE() 127 pssm_input.Process(); in BOOST_AUTO_TEST_CASE() [all …]
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H A D | pssmcreate_cdd_unit_test.cpp | 282 CPssmInputWithSingleCD pssm_input; in BOOST_AUTO_TEST_CASE() local 328 CPssmInputWithTwoCDs pssm_input; in BOOST_AUTO_TEST_CASE() local 376 CPssmInputWithNoCDs pssm_input; in BOOST_AUTO_TEST_CASE() local 406 CPssmInputWithGapsInQuery pssm_input; in BOOST_AUTO_TEST_CASE() local 408 CPssmEngine pssm_engine(&pssm_input); in BOOST_AUTO_TEST_CASE() 417 CPssmEngine pssm_engine(&pssm_input); in BOOST_AUTO_TEST_CASE() 425 CPssmEngine pssm_engine(&pssm_input); in BOOST_AUTO_TEST_CASE() 433 CPssmEngine pssm_engine(&pssm_input); in BOOST_AUTO_TEST_CASE() 440 CPssmInputWithSingleCD pssm_input; in BOOST_AUTO_TEST_CASE() local 536 pssm_input->Process(); in BOOST_AUTO_TEST_CASE() [all …]
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H A D | pssmcreate_unit_test.cpp | 668 auto_ptr<CPsiBlastInputData> pssm_input( in BOOST_AUTO_TEST_CASE() local 673 CPssmEngine pssm_engine(pssm_input.get()); in BOOST_AUTO_TEST_CASE() 674 pssm_input->Process(); in BOOST_AUTO_TEST_CASE() 763 auto_ptr<IPssmInputData> pssm_input in BOOST_AUTO_TEST_CASE() local 775 auto_ptr<IPssmInputData> pssm_input in BOOST_AUTO_TEST_CASE() local 788 auto_ptr<IPssmInputData> pssm_input in BOOST_AUTO_TEST_CASE() local 802 auto_ptr<IPssmInputData> pssm_input in BOOST_AUTO_TEST_CASE() local 807 CPssmEngine pssm_engine(pssm_input.get()); in BOOST_AUTO_TEST_CASE() 868 auto_ptr<IPssmInputData> pssm_input in BOOST_AUTO_TEST_CASE() local 878 (_PSIPackedMsaNew(pssm_input->GetData())); in BOOST_AUTO_TEST_CASE() [all …]
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H A D | pssmenginefreqratios_unit_test.cpp | 87 auto_ptr<IPssmInputFreqRatios> pssm_input; in BOOST_AUTO_TEST_CASE() local 88 pssm_input.reset(new CPsiBlastInputFreqRatios in BOOST_AUTO_TEST_CASE() 90 CPssmEngine pssm_engine(pssm_input.get()); in BOOST_AUTO_TEST_CASE() 110 pssm_input->GetQuery()[i], j); in BOOST_AUTO_TEST_CASE() 133 CPsiBlastInputClustalW pssm_input(in, *opts, "BLOSUM62", diags); in BOOST_AUTO_TEST_CASE() local 134 CPssmEngine pssm_engine(&pssm_input); in BOOST_AUTO_TEST_CASE()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/api/ |
H A D | deltablast.cpp | 116 CRef<CCddInputData> pssm_input( in Run() local 129 pssm_engine.Reset(new CPssmEngine(pssm_input.GetNonNullPointer())); in Run()
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H A D | pssm_engine.cpp | 153 s_Validate(IPssmInputCdd* pssm_input) in s_Validate() argument 155 _ASSERT(pssm_input); in s_Validate() 157 if ( !pssm_input->GetData() ) { in s_Validate() 163 if (PSIBlastOptionsValidate(pssm_input->GetOptions(), &errors) != 0) { in s_Validate()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/api/ |
H A D | deltablast.cpp | 116 CRef<CCddInputData> pssm_input( in Run() local 129 pssm_engine.Reset(new CPssmEngine(pssm_input.GetNonNullPointer())); in Run()
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H A D | pssm_engine.cpp | 153 s_Validate(IPssmInputCdd* pssm_input) in s_Validate() argument 155 _ASSERT(pssm_input); in s_Validate() 157 if ( !pssm_input->GetData() ) { in s_Validate() 163 if (PSIBlastOptionsValidate(pssm_input->GetOptions(), &errors) != 0) { in s_Validate()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/blast/blastinput/ |
H A D | blast_args.cpp | 1228 CPsiBlastInputClustalW pssm_input(input_stream, *psiblast_opts, in x_CreatePssmFromMsa() local 1233 CPssmEngine pssm_engine(&pssm_input); in x_CreatePssmFromMsa()
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/dports/biology/ncbi-blast+/ncbi-blast-2.12.0+-src/c++/src/algo/blast/blastinput/ |
H A D | blast_args.cpp | 1228 CPsiBlastInputClustalW pssm_input(input_stream, *psiblast_opts, in x_CreatePssmFromMsa() local 1233 CPssmEngine pssm_engine(&pssm_input); in x_CreatePssmFromMsa()
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