| /dports/devel/llvm-devel/llvm-project-f05c95f10fc1d8171071735af8ad3a9e87633120/clang/test/Sema/ |
| H A D | builtins-mips-features.c | 29 void msa() { in msa() function
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| /dports/devel/wasi-compiler-rt13/llvm-project-13.0.1.src/clang/test/Sema/ |
| H A D | builtins-mips-features.c | 29 void msa() { in msa() function
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| /dports/lang/clang-mesa/clang-13.0.1.src/test/Sema/ |
| H A D | builtins-mips-features.c | 29 void msa() { in msa() function
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| /dports/biology/ugene/ugene-40.1/src/plugins_3rdparty/umuscle/src/muscle/ |
| H A D | refinetreee.cpp | 10 void RefineTreeE(MSA &msa, const SeqVect &v, Tree &tree, ProgNode *ProgNodes) in RefineTreeE()
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| H A D | anchors.cpp | 86 static void FindBestColsCombo(const MSA &msa, const SCORE Score[], in FindBestColsCombo()
187 void FindAnchorCols(const MSA &msa, unsigned AnchorCols[], in FindAnchorCols()
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| /dports/devel/wasi-compiler-rt12/llvm-project-12.0.1.src/clang/test/Sema/ |
| H A D | builtins-mips-features.c | 29 void msa() { in msa() function
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| /dports/devel/llvm13/llvm-project-13.0.1.src/clang/test/Sema/ |
| H A D | builtins-mips-features.c | 29 void msa() { in msa() function
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| /dports/biology/ugene/ugene-40.1/src/plugins/external_tool_support/src/mafft/ |
| H A D | MAFFTWorker.cpp | 176 const MultipleSequenceAlignment msa = msaObj->getMultipleAlignment(); in tick() local
214 void MAFFTWorker::send(const MultipleSequenceAlignment &msa) { in send()
|
| /dports/biology/infernal/infernal-1.1.3/hmmer/src/ |
| H A D | hmmalign.c | 96 ESL_MSA *msa = NULL; /* resulting multiple alignment */ in main() local
233 ESL_MSA *msa = NULL; in map_alignment() local
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| /dports/biology/hmmer/hmmer-3.3/src/ |
| H A D | hmmalign.c | 96 ESL_MSA *msa = NULL; /* resulting multiple alignment */ in main() local
233 ESL_MSA *msa = NULL; in map_alignment() local
|
| /dports/biology/muscle/muscle-3.8.1551/ |
| H A D | mhack.cpp | 37 void MHackEnd(MSA &msa) in MHackEnd()
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| H A D | scoregaps.cpp | 45 static void FindIntersectingGaps(const MSA &msa, unsigned SeqIndex) in FindIntersectingGaps()
113 SCORE ScoreGaps(const MSA &msa, const unsigned DiffCols[], unsigned DiffColCount) in ScoreGaps()
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| /dports/biology/infernal/infernal-1.1.3/easel/ |
| H A D | esl_msafile_phylip.c | 250 ESL_MSA *msa = NULL; in esl_msafile_phylip_Read() local
326 esl_msafile_phylip_Write(FILE *fp, const ESL_MSA *msa, int format, ESL_MSAFILE_FMTDATA *opt_fmtd) in esl_msafile_phylip_Write()
414 phylip_interleaved_Read(ESL_MSAFILE *afp, ESL_MSA *msa, int nseq, int32_t alen_stated) in phylip_interleaved_Read()
493 phylip_interleaved_Write(FILE *fp, const ESL_MSA *msa, ESL_MSAFILE_FMTDATA *opt_fmtd) in phylip_interleaved_Write()
547 phylip_sequential_Read(ESL_MSAFILE *afp, ESL_MSA *msa, int nseq, int32_t alen_stated) in phylip_sequential_Read()
609 phylip_sequential_Write(FILE *fp, const ESL_MSA *msa, ESL_MSAFILE_FMTDATA *opt_fmtd) in phylip_sequential_Write()
1568 ESL_MSA *msa = NULL; in utest_badfile() local
1613 ESL_MSA *msa = NULL; in utest_seqboot() local
1806 ESL_MSA *msa = NULL; in main() local
1877 ESL_MSA *msa = NULL; in main() local
|
| H A D | esl_msafile_psiblast.c | 186 ESL_MSA *msa = NULL; in esl_msafile_psiblast_Read() local
325 esl_msafile_psiblast_Write(FILE *fp, const ESL_MSA *msa) in esl_msafile_psiblast_Write()
736 ESL_MSA *msa = NULL; in main() local
793 ESL_MSA *msa = NULL; in main() local
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| /dports/biology/hmmer/hmmer-3.3/easel/ |
| H A D | esl_msafile_phylip.c | 250 ESL_MSA *msa = NULL; in esl_msafile_phylip_Read() local
326 esl_msafile_phylip_Write(FILE *fp, const ESL_MSA *msa, int format, ESL_MSAFILE_FMTDATA *opt_fmtd) in esl_msafile_phylip_Write()
414 phylip_interleaved_Read(ESL_MSAFILE *afp, ESL_MSA *msa, int nseq, int32_t alen_stated) in phylip_interleaved_Read()
493 phylip_interleaved_Write(FILE *fp, const ESL_MSA *msa, ESL_MSAFILE_FMTDATA *opt_fmtd) in phylip_interleaved_Write()
547 phylip_sequential_Read(ESL_MSAFILE *afp, ESL_MSA *msa, int nseq, int32_t alen_stated) in phylip_sequential_Read()
609 phylip_sequential_Write(FILE *fp, const ESL_MSA *msa, ESL_MSAFILE_FMTDATA *opt_fmtd) in phylip_sequential_Write()
1568 ESL_MSA *msa = NULL; in utest_badfile() local
1613 ESL_MSA *msa = NULL; in utest_seqboot() local
1806 ESL_MSA *msa = NULL; in main() local
1877 ESL_MSA *msa = NULL; in main() local
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| H A D | esl_msafile_psiblast.c | 186 ESL_MSA *msa = NULL; in esl_msafile_psiblast_Read() local
325 esl_msafile_psiblast_Write(FILE *fp, const ESL_MSA *msa) in esl_msafile_psiblast_Write()
736 ESL_MSA *msa = NULL; in main() local
793 ESL_MSA *msa = NULL; in main() local
|
| /dports/biology/ugene/ugene-40.1/src/plugins/workflow_designer/src/library/ |
| H A D | ExtractMSAConsensusWorker.cpp | 70 MultipleSequenceAlignment msa = takeMsa(os); in tick() local
141 …nsusTaskHelper *ExtractMSAConsensusStringWorker::createTask(const MultipleSequenceAlignment &msa) { in createTask()
175 …usTaskHelper *ExtractMSAConsensusSequenceWorker::createTask(const MultipleSequenceAlignment &msa) { in createTask()
186 …lper(const QString &algoId, int threshold, bool keepGaps, const MultipleSequenceAlignment &msa, co… in ExtractMSAConsensusTaskHelper()
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| /dports/biology/ugene/ugene-40.1/src/plugins_3rdparty/hmm2/src/u_build/ |
| H A D | HMMBuildDialogController.cpp | 255 …MultipleSequenceAlignmentObject *msa = qobject_cast<MultipleSequenceAlignmentObject *>(list.first(… in onSubTaskFinished() local
360 msa_struct *msa = MSAAlloc(ma->getNumRows(), ma->getLength()); in _run() local
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| /dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/cobalt/unit_test/ |
| H A D | seq_unit_test.cpp | 86 vector<CSequence> msa; in BOOST_AUTO_TEST_CASE() local
|
| /dports/biology/infernal/infernal-1.1.3/easel/miniapps/ |
| H A D | esl-alirev.c | 33 ESL_MSA *msa = NULL; in main() local
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| /dports/biology/hmmer/hmmer-3.3/easel/miniapps/ |
| H A D | esl-alirev.c | 33 ESL_MSA *msa = NULL; in main() local
|
| /dports/devel/py-azure-functions-devops-build/azure-functions-devops-build-0.0.22/azure_functions_devops_build/user/ |
| H A D | user_manager.py | 36 def get_user(self, msa=False): argument
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| /dports/biology/clustal-omega/clustal-omega-1.2.4/src/squid/ |
| H A D | eps.c | 40 EPSWriteSmallMSA(FILE *fp, MSA *msa) in EPSWriteSmallMSA()
|
| /dports/science/nwchem/nwchem-7b21660b82ebd85ef659f6fba7e1e73433b0bd0a/src/prepar/ |
| H A D | pre_rotate.F | 2 + xs,msa,nsa) argument
8 integer mwm,mwa,nwm,nwa,mwmc,nwmc,msa,nsa local
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| /dports/biology/ugene/ugene-40.1/src/plugins_3rdparty/umuscle/src/ |
| H A D | MuscleUtils.cpp | 153 void convertMSA2MAlignment(MSA &msa, const DNAAlphabet *al, MultipleSequenceAlignment &res) { in convertMSA2MAlignment()
172 void prepareAlignResults(MSA &msa, const DNAAlphabet *al, MultipleSequenceAlignment &ma, bool mhack… in prepareAlignResults()
|