/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/readers/hgvs/ |
H A D | protein_irep_to_seqfeat.cpp | 123 const CAaLocation& aa_loc, in x_CreateVarrefFromLoc() argument 126 if ( !aa_loc.IsSite() && !aa_loc.IsInt() ) { in x_CreateVarrefFromLoc() 134 if (aa_loc.IsInt() && s_IntervalLimitsReversed(aa_loc.GetInt())) { in x_CreateVarrefFromLoc() 148 length = aa_loc.size(); in x_CreateVarrefFromLoc() 162 const CAaLocation& aa_loc) const in x_CreateIdentitySubvarref() 164 if ( !aa_loc.IsSite() && !aa_loc.IsInt() ) { in x_CreateIdentitySubvarref() 169 if (aa_loc.IsInt() && s_IntervalLimitsReversed(aa_loc.GetInt())) { in x_CreateIdentitySubvarref() 547 const CAaLocation& aa_loc) in CreateSeqloc() argument 549 if ( aa_loc.IsSite() ) { in CreateSeqloc() 553 if ( !aa_loc.IsInt() ) { in CreateSeqloc() [all …]
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H A D | hgvs_protein_parser.cpp | 57 silent = (aa_loc >> tok.nochange) ACTION1(AssignSilent); in SHgvsProteinGrammar() 63 (aa_loc >> tok.delins >> seq_size) ACTION2(AssignAaDelinsSize); in SHgvsProteinGrammar() 69 aa_dup = (aa_loc >> tok.dup) ACTION1(AssignAaDup); in SHgvsProteinGrammar() 71 aa_del = (aa_loc >> tok.del) ACTION1(AssignAaDel); in SHgvsProteinGrammar() 78 aa_ssr = (aa_loc >> aa_repeat) ACTION2(AssignAaSSR); in SHgvsProteinGrammar() 119 aa_loc = aa3_loc | aa1_loc; in SHgvsProteinGrammar()
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H A D | semantic_actions.cpp | 82 void AssignAaDup(CRef<CAaLocation> aa_loc, CRef<CSimpleVariant>& result) in AssignAaDup() argument 85 result->SetType().SetDup().SetLoc().SetAaloc(*aa_loc); in AssignAaDup() 89 void AssignAaDel(CRef<CAaLocation> aa_loc, CRef<CSimpleVariant>& result) in AssignAaDel() argument 92 result->SetType().SetDel().SetLoc().SetAaloc(*aa_loc); in AssignAaDel() 200 void AssignAaSSR(CRef<CAaLocation> aa_loc, CRef<CCount> count, CRef<CSimpleVariant>& result) in AssignAaSSR() argument 206 ssr.SetLoc().SetAaloc(*aa_loc); in AssignAaSSR() 239 void AssignAaDelins(CRef<CAaLocation> aa_loc, in AssignAaDelins() argument 247 delins.SetLoc().SetAaloc(*aa_loc); in AssignAaDelins() 252 void AssignAaDelinsSize(CRef<CAaLocation> aa_loc, CRef<CCount> seq_size, CRef<CSimpleVariant>& resu… in AssignAaDelinsSize() argument 257 delins.SetLoc().SetAaloc(*aa_loc); in AssignAaDelinsSize()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objtools/readers/hgvs/ |
H A D | semantic_actions.hpp | 30 void AssignAaDup(CRef<CAaLocation> aa_loc, CRef<CSimpleVariant>& result); 32 void AssignAaDel(CRef<CAaLocation> aa_loc, CRef<CSimpleVariant>& result); 58 void AssignAaSSR(CRef<CAaLocation> aa_loc, CRef<CCount> count, CRef<CSimpleVariant>& result); 68 void AssignAaDelins(CRef<CAaLocation> aa_loc, const string& raw_seq, CRef<CSimpleVariant>& result); 70 void AssignAaDelinsSize(CRef<CAaLocation> aa_loc, CRef<CCount> seq_size, CRef<CSimpleVariant>& resu…
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H A D | protein_irep_to_seqfeat.hpp | 30 const CAaLocation& aa_loc); 98 const CAaLocation& aa_loc, 112 CRef<CVariation_ref> x_CreateIdentitySubvarref(const CAaLocation& aa_loc) const;
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H A D | hgvs_protein_parser.hpp | 49 TRule<CAaLocation> aa_loc; member
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/dports/www/chromium-legacy/chromium-88.0.4324.182/third_party/afl/src/ |
H A D | afl-showmap.c | 427 u8* aa_loc = strstr(argv[i], "@@"); in detect_file_args() local 429 if (aa_loc) { in detect_file_args() 442 *aa_loc = 0; in detect_file_args() 443 n_arg = alloc_printf("%s%s%s", argv[i], aa_subst, aa_loc + 2); in detect_file_args() 445 *aa_loc = '@'; in detect_file_args()
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H A D | afl-analyze.c | 764 u8* aa_loc = strstr(argv[i], "@@"); in detect_file_args() local 766 if (aa_loc) { in detect_file_args() 777 *aa_loc = 0; in detect_file_args() 778 n_arg = alloc_printf("%s%s%s", argv[i], aa_subst, aa_loc + 2); in detect_file_args() 780 *aa_loc = '@'; in detect_file_args()
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H A D | afl-tmin.c | 774 u8* aa_loc = strstr(argv[i], "@@"); in detect_file_args() local 776 if (aa_loc) { in detect_file_args() 787 *aa_loc = 0; in detect_file_args() 788 n_arg = alloc_printf("%s%s%s", argv[i], aa_subst, aa_loc + 2); in detect_file_args() 790 *aa_loc = '@'; in detect_file_args()
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H A D | afl-fuzz.c | 7526 u8* aa_loc = strstr(argv[i], "@@"); in detect_file_args() local 7528 if (aa_loc) { in detect_file_args() 7544 *aa_loc = 0; in detect_file_args() 7545 n_arg = alloc_printf("%s%s%s", argv[i], aa_subst, aa_loc + 2); in detect_file_args() 7547 *aa_loc = '@'; in detect_file_args()
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/dports/security/afl/afl-2.52b/ |
H A D | afl-showmap.c | 427 u8* aa_loc = strstr(argv[i], "@@"); in detect_file_args() local 429 if (aa_loc) { in detect_file_args() 442 *aa_loc = 0; in detect_file_args() 443 n_arg = alloc_printf("%s%s%s", argv[i], aa_subst, aa_loc + 2); in detect_file_args() 445 *aa_loc = '@'; in detect_file_args()
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H A D | afl-analyze.c | 764 u8* aa_loc = strstr(argv[i], "@@"); in detect_file_args() local 766 if (aa_loc) { in detect_file_args() 777 *aa_loc = 0; in detect_file_args() 778 n_arg = alloc_printf("%s%s%s", argv[i], aa_subst, aa_loc + 2); in detect_file_args() 780 *aa_loc = '@'; in detect_file_args()
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H A D | afl-tmin.c | 774 u8* aa_loc = strstr(argv[i], "@@"); in detect_file_args() local 776 if (aa_loc) { in detect_file_args() 787 *aa_loc = 0; in detect_file_args() 788 n_arg = alloc_printf("%s%s%s", argv[i], aa_subst, aa_loc + 2); in detect_file_args() 790 *aa_loc = '@'; in detect_file_args()
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H A D | afl-fuzz.c | 7520 u8* aa_loc = strstr(argv[i], "@@"); in detect_file_args() local 7522 if (aa_loc) { in detect_file_args() 7538 *aa_loc = 0; in detect_file_args() 7539 n_arg = alloc_printf("%s%s%s", argv[i], aa_subst, aa_loc + 2); in detect_file_args() 7541 *aa_loc = '@'; in detect_file_args()
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/dports/security/afl++/AFLplusplus-3.14c/src/ |
H A D | afl-common.c | 65 u8 *aa_loc = strstr(argv[i], "@@"); 67 if (aa_loc) { 75 *aa_loc = 0; 82 n_arg = alloc_printf("%s%s%s", argv[i], prog_in, aa_loc + 2); 86 n_arg = alloc_printf("%s%s/%s%s", argv[i], cwd, prog_in, aa_loc + 2);
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H A D | afl-fuzz.c | 1605 u8 *aa_loc = strstr(argv[j], "@@"); in main() local 1607 if (aa_loc && !afl->fsrv.out_file) { in main()
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/dports/biology/ncbi-toolkit/ncbi/api/ |
H A D | seqport.h | 442 NLM_EXTERN SeqLocPtr LIBCALL aaLoc_to_dnaLoc(SeqFeatPtr sfp, SeqLocPtr aa_loc); 457 NLM_EXTERN SeqLocPtr LIBCALL aaFeatLoc_to_dnaFeatLoc(SeqFeatPtr sfp, SeqLocPtr aa_loc);
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H A D | seqport.c | 4358 aaPos = SeqLocStart(aa_loc); in aaFeatLoc_to_dnaFeatLoc() 4383 sip = SeqLocId(aa_loc); in aaFeatLoc_to_dnaFeatLoc() 4387 aaPos = SeqLocStop(aa_loc); in aaFeatLoc_to_dnaFeatLoc() 4701 SeqLocPtr aa_loc = NULL, loc; in dnaLoc_to_aaLoc() local 4719 if(crp == NULL) return aa_loc; in dnaLoc_to_aaLoc() 4724 return aa_loc; in dnaLoc_to_aaLoc() 4727 if (aa_sip == NULL) return aa_loc; in dnaLoc_to_aaLoc() 4729 if (bsp == NULL) return aa_loc; in dnaLoc_to_aaLoc() 4799 if(aa_loc == NULL) in dnaLoc_to_aaLoc() 4813 if(aa_loc == NULL) in dnaLoc_to_aaLoc() [all …]
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H A D | sqnutil4.c | 14644 SeqLocPtr aa_loc = NULL, loc; in MYdnaLoc_to_aaLoc() local 14734 if(aa_loc == NULL) in MYdnaLoc_to_aaLoc() 14742 return SeqLocPackage(aa_loc); in MYdnaLoc_to_aaLoc() 14772 prot_loc = aa_loc; in BuildProtLoc() 14774 last_loc->next = aa_loc; in BuildProtLoc() 14776 last_loc = aa_loc; in BuildProtLoc() 14781 for (aa_loc = prot_loc; aa_loc != NULL; aa_loc = next_loc) { in BuildProtLoc() 14782 next_loc = aa_loc->next; in BuildProtLoc() 14783 aa_loc->next = NULL; in BuildProtLoc() 14787 aa_loc = SeqLocFree (aa_loc); in BuildProtLoc() [all …]
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/sequence/ |
H A D | gene_model.cpp | 3662 CSeq_loc aa_loc(*cds_id, pos, pos); in x_SetComment() local 3663 CRef<CSeq_loc> rna_codon = to_mrna.Map(aa_loc); in x_SetComment()
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