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Searched refs:aa_loc (Results 1 – 20 of 20) sorted by relevance

/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/objtools/readers/hgvs/
H A Dprotein_irep_to_seqfeat.cpp123 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()
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H A Dhgvs_protein_parser.cpp57 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()
H A Dsemantic_actions.cpp82 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()
/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/include/objtools/readers/hgvs/
H A Dsemantic_actions.hpp30 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…
H A Dprotein_irep_to_seqfeat.hpp30 const CAaLocation& aa_loc);
98 const CAaLocation& aa_loc,
112 CRef<CVariation_ref> x_CreateIdentitySubvarref(const CAaLocation& aa_loc) const;
H A Dhgvs_protein_parser.hpp49 TRule<CAaLocation> aa_loc; member
/dports/www/chromium-legacy/chromium-88.0.4324.182/third_party/afl/src/
H A Dafl-showmap.c427 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()
H A Dafl-analyze.c764 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()
H A Dafl-tmin.c774 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()
H A Dafl-fuzz.c7526 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()
/dports/security/afl/afl-2.52b/
H A Dafl-showmap.c427 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()
H A Dafl-analyze.c764 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()
H A Dafl-tmin.c774 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()
H A Dafl-fuzz.c7520 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()
/dports/security/afl++/AFLplusplus-3.14c/src/
H A Dafl-common.c65 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);
H A Dafl-fuzz.c1605 u8 *aa_loc = strstr(argv[j], "@@"); in main() local
1607 if (aa_loc && !afl->fsrv.out_file) { in main()
/dports/biology/ncbi-toolkit/ncbi/api/
H A Dseqport.h442 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);
H A Dseqport.c4358 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()
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H A Dsqnutil4.c14644 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()
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/dports/biology/ncbi-cxx-toolkit/ncbi_cxx--25_2_0/src/algo/sequence/
H A Dgene_model.cpp3662 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()