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H A Dpaths_8h.tex27 struct \mbox{\hyperlink{group__paths_structvrna__path__s}{vrna\+\_\+path\+\_\+s}}
32 \#define \mbox{\hyperlink{group__paths_ga3e964156b52440b65fae5e2a48750d8e}{VRNA\+\_\+\+PATH\+\_\+\+…
34 \#define \mbox{\hyperlink{group__paths_gaa73703da105dc6c98957fb8247c93f1f}{VRNA\+\_\+\+PATH\+\_\+\+…
39 typedef struct \mbox{\hyperlink{group__paths_structvrna__path__s}{vrna\+\_\+path\+\_\+s}} \mbox{\hy…
41 typedef struct vrna\+\_\+path\+\_\+options\+\_\+s $\ast$ \mbox{\hyperlink{group__paths_gaa99d8ec48f…
43 typedef struct \mbox{\hyperlink{group__paths_structvrna__path__s}{vrna\+\_\+path\+\_\+s}} \mbox{\hy…
48 void \mbox{\hyperlink{group__paths_ga3763dc16760d09277a1b1c3f3061d0c7}{vrna\+\_\+path\+\_\+free}} (…
50 void \mbox{\hyperlink{group__paths_gaa64a86b13cb165346a0d0c788781512a}{vrna\+\_\+path\+\_\+options\…
52 \mbox{\hyperlink{group__paths_gaa99d8ec48f64de53eda0d51b1ed0d3d1}{vrna\+\_\+path\+\_\+options\+\_\+…
54 …hyperlink{group__paths_ga818d4f3d1cf8723d6905990b08d909fe}{vrna\+\_\+path\+\_\+t}} $\ast$ \mbox{\h…
[all …]
H A Dpart__func__window_8h.tex27 \#define \mbox{\hyperlink{group__part__func__window_gaf0bb577130090f6c856d1358804250bf}{VRNA\+\_\+\…
29 \#define \mbox{\hyperlink{group__part__func__window_ga30170811c320f3a7b23ffff3b3343b91}{VRNA\+\_\+\…
31 \#define \mbox{\hyperlink{group__part__func__window_ga956a237e7d956b684b7d593cb3eca665}{VRNA\+\_\+\…
33 \#define \mbox{\hyperlink{group__part__func__window_gad905b71f02b3799eb84b490435aec837}{VRNA\+\_\+\…
35 …hyperlink{group__part__func__window_ga1fef1ad234755db78ab6b695edce5080}{VRNA\+\_\+\+ANY\+\_\+\+LOO…
39 \#define \mbox{\hyperlink{group__part__func__window_ga18325811c7dfc7b7d9d4ac37f4353615}{VRNA\+\_\+\…
50 …hyperlink{group__part__func__window_gabe710a1182e6db69cc75329dfc9bed67}{vrna\+\_\+probs\+\_\+windo…
56 …hyperlink{group__part__func__window_ga7115d012988541a65ec323c5f17a334b}{vrna\+\_\+probs\+\_\+windo…
62 …hyperlink{group__struct__utils__plist_gab9ac98ab55ded9fb90043b024b915aca}{vrna\+\_\+ep\+\_\+t}} $\…
64 …hyperlink{group__part__func__window_ga457a60751b2a5225477e3b7735636a5f}{vrna\+\_\+pfl\+\_\+fold\+\…
[all …]
H A Dgroup__part__func__global__deprecated.tex17 file \mbox{\hyperlink{part__func__co_8h}{part\+\_\+func\+\_\+co.\+h}}
96 {\ttfamily \#include $<$\mbox{\hyperlink{alifold_8h}{Vienna\+RNA/alifold.\+h}}$>$}
99 \item[\mbox{\hyperlink{deprecated__deprecated000018}{Deprecated}}]Use \mbox{\hyperlink{group__part_…
139 \item[\mbox{\hyperlink{deprecated__deprecated000097}{Deprecated}}]Use \mbox{\hyperlink{group__part_…
238 \item[\mbox{\hyperlink{deprecated__deprecated000098}{Deprecated}}]Use \mbox{\hyperlink{group__part_…
329 …hyperlink{group__data__structures_ga31125aeace516926bf7f251f759b6126}{FLT\_OR\_DBL}} *\mbox{\hyper…
330 …yCodeLine{pr\_ij = \mbox{\hyperlink{fold__vars_8h_ac98ec419070aee6831b44e5c700f090f}{pr}…
768 {\ttfamily \#include $<$\mbox{\hyperlink{alifold_8h}{Vienna\+RNA/alifold.\+h}}$>$}
775 \item[\mbox{\hyperlink{deprecated__deprecated000019}{Deprecated}}]Use \mbox{\hyperlink{group__part_…
798 {\ttfamily \#include $<$\mbox{\hyperlink{alifold_8h}{Vienna\+RNA/alifold.\+h}}$>$}
[all …]
H A Dgroup__paths__walk.tex30 …hyperlink{group__paths__walk_gaf1bb1f8fec8d24e3b821f621b19f77b4}{VRNA\+\_\+\+PATH\+\_\+\+DEFAULT}}…
52 {\ttfamily \#include $<$\mbox{\hyperlink{landscape_2walk_8h}{Vienna\+RNA/landscape/walk.\+h}}$>$}
59 \mbox{\hyperlink{group__paths__walk_gaef7afadc36933b80706de49fe36e7b94}{vrna\+\_\+path()}}
69 {\ttfamily \#include $<$\mbox{\hyperlink{landscape_2walk_8h}{Vienna\+RNA/landscape/walk.\+h}}$>$}
76 \mbox{\hyperlink{group__paths__walk_gaef7afadc36933b80706de49fe36e7b94}{vrna\+\_\+path()}}
86 {\ttfamily \#include $<$\mbox{\hyperlink{landscape_2walk_8h}{Vienna\+RNA/landscape/walk.\+h}}$>$}
93 …hyperlink{group__paths__walk_gaef7afadc36933b80706de49fe36e7b94}{vrna\+\_\+path()}}, \mbox{\hyperl…
110 …hyperlink{group__paths__walk_gaef7afadc36933b80706de49fe36e7b94}{vrna\+\_\+path()}}, \mbox{\hyperl…
143 …hyperlink{group__paths__walk_ga9594d7424dbe301f0dd3f4900db0f05c}{vrna\+\_\+path\+\_\+gradient()}},…
179 …hyperlink{group__paths__walk_ga98fdc3f5cfa36a12738c2ec1ce024570}{vrna\+\_\+path\+\_\+random()}}, \…
[all …]
H A Dgroup__utils.tex25 \mbox{\hyperlink{group__file__utils}{Files and I/O}}
27 \mbox{\hyperlink{group__plotting__utils}{Plotting}}
35 \mbox{\hyperlink{group__message__utils}{Messages}}
37 \mbox{\hyperlink{group__units}{Unit Conversion}}
42 file \mbox{\hyperlink{alphabet_8h}{alphabet.\+h}}
46 file \mbox{\hyperlink{commands_8h}{commands.\+h}}
48 file \mbox{\hyperlink{sequence_8h}{sequence.\+h}}
52 file \mbox{\hyperlink{io_2utils_8h}{utils.\+h}}
58 file \mbox{\hyperlink{utils_2basic_8h}{basic.\+h}}
60 file \mbox{\hyperlink{strings_8h}{strings.\+h}}
[all …]
H A Dgroup__fold__compound.tex24 file \mbox{\hyperlink{fold__compound_8h}{fold\+\_\+compound.\+h}}
29 struct \mbox{\hyperlink{group__fold__compound_structvrna__fc__s}{vrna\+\_\+fc\+\_\+s}}
105 \item[\mbox{\hyperlink{wrappers__wrappers000081}{SWIG Wrapper Notes}}]
134 const \mbox{\hyperlink{group__fold__compound_ga01a4ff86fa71deaaa5d1abbd95a1447d}{vrna\+\_\+fc\+\_\+…
164 \mbox{\hyperlink{group__hard__constraints_gac7e4c4f8abe3163a68110c5bff24e01d}{vrna\+\_\+hc\+\_\+t}}…
167 \mbox{\hyperlink{group__dp__matrices_gae5aef35d016475e758f619b7bcb534f9}{vrna\+\_\+mx\+\_\+mfe\+\_\…
174 \mbox{\hyperlink{group__energy__parameters_ga8a69ca7d787e4fd6079914f5343a1f35}{vrna\+\_\+param\+\_\…
203 \mbox{\hyperlink{structvrna__structured__domains__s}{vrna\+\_\+sd\+\_\+t}} $\ast$ \mbox{\hyperlink{…
206 \mbox{\hyperlink{group__domains__up_ga0009117b14d29143e8b18ab891f48c2d}{vrna\+\_\+ud\+\_\+t}} $\ast…
573 …hyperlink{group__fold__compound_a87a83f6795b569000efcbe65acc3dd81}{vrna\+\_\+fold\+\_\+compound\+\…
[all …]
H A Dgroup__subopt__wuchty.tex22 …hyperlink{subopt_8h_a01ae9a0f27d245d89f705afd843fc457}{vrna\+\_\+subopt\+\_\+solution\+\_\+t}} $\a…
26 \mbox{\hyperlink{subopt_8h_aa0f46ff02e1017469cf902d02ecd7f9a}{SOLUTION}} $\ast$ \mbox{\hyperlink{gr…
53 {\ttfamily \#include $<$\mbox{\hyperlink{subopt_8h}{Vienna\+RNA/subopt.\+h}}$>$}
86 {\ttfamily \#include $<$\mbox{\hyperlink{subopt_8h}{Vienna\+RNA/subopt.\+h}}$>$}
97 \DoxyCodeLine{\mbox{\hyperlink{group__model__details_structvrna__md__s}{vrna\_md\_t}} md;}
107 \mbox{\hyperlink{group__subopt__wuchty_ga1053837e6b6f158093508f8a70998352}{vrna\+\_\+subopt\+\_\+cb…
133 {\ttfamily \#include $<$\mbox{\hyperlink{subopt_8h}{Vienna\+RNA/subopt.\+h}}$>$}
144 \DoxyCodeLine{\mbox{\hyperlink{group__model__details_structvrna__md__s}{vrna\_md\_t}} md;}
154 …hyperlink{group__subopt__wuchty_gaa0270c66d04f59e750401695b8282e04}{vrna\+\_\+subopt\+\_\+callback…
177 {\ttfamily \#include $<$\mbox{\hyperlink{subopt_8h}{Vienna\+RNA/subopt.\+h}}$>$}
[all …]
H A Dutils_2alignments_8h.tex27 struct \mbox{\hyperlink{group__aln__utils_structvrna__pinfo__s}{vrna\+\_\+pinfo\+\_\+s}}
32 \#define \mbox{\hyperlink{group__aln__utils_ga7437bcbc3142b266f1f3b086eb669092}{VRNA\+\_\+\+ALN\+\_…
34 \#define \mbox{\hyperlink{group__aln__utils_ga1a2aa60bcc51dc8e48c07bf146bd28c1}{VRNA\+\_\+\+ALN\+\_…
36 \#define \mbox{\hyperlink{group__aln__utils_ga36affc310a5adedf1bdbf9669dd4bf85}{VRNA\+\_\+\+ALN\+\_…
38 \#define \mbox{\hyperlink{group__aln__utils_ga0de72fc917d72acafe862750a3a5e0bc}{VRNA\+\_\+\+ALN\+\_…
40 \#define \mbox{\hyperlink{group__aln__utils_ga27eb303be3c8368c9e8be76a4d6ca35e}{VRNA\+\_\+\+ALN\+\_…
47 typedef struct \mbox{\hyperlink{group__aln__utils_structvrna__pinfo__s}{vrna\+\_\+pinfo\+\_\+s}} \m…
49 typedef struct \mbox{\hyperlink{group__aln__utils_structvrna__pinfo__s}{vrna\+\_\+pinfo\+\_\+s}} \m…
56 …hyperlink{group__aln__utils_ga6660dfca23debee7306e0cd53341263f}{vrna\+\_\+pinfo\+\_\+t}} $\ast$ \m…
72 …hyperlink{group__aln__utils_ga1f74eba3006fddd91195456ed1e58483}{vrna\+\_\+aln\+\_\+consensus\+\_\+…
[all …]
H A Dboltzmann__sampling_8h.tex27 \#define \mbox{\hyperlink{group__subopt__stochbt_ga760aa2fb2d5e3d7521a11454a21e9b9f}{VRNA\+\_\+\+PB…
29 \#define \mbox{\hyperlink{group__subopt__stochbt_ga9d580ce645aa0c38b69afdf56c332200}{VRNA\+\_\+\+PB…
41 char $\ast$ \mbox{\hyperlink{group__subopt__stochbt_ga72ebbe45bcbce147a12f27f62b38db78}{vrna\+\_\+p…
45 …hyperlink{group__subopt__stochbt_ga626beb5b5b962d7e7c8433cd2cfd4e93}{vrna\+\_\+pbacktrack5\+\_\+cb…
47 …hyperlink{group__subopt__stochbt_gac5d7065196975b803daeb4e094ba1cb9}{vrna\+\_\+pbacktrack5\+\_\+re…
49 …hyperlink{group__subopt__stochbt_ga4a91dc092580faf7799476e8dd76e0ac}{vrna\+\_\+pbacktrack5\+\_\+re…
51 char $\ast$ \mbox{\hyperlink{group__subopt__stochbt_ga594844ac73c4e66e00d6791b31540634}{vrna\+\_\+p…
55 …hyperlink{group__subopt__stochbt_ga843fa953a15337b15cc68401adad84d7}{vrna\+\_\+pbacktrack\+\_\+cb}…
57 …hyperlink{group__subopt__stochbt_gae175129ece546fe7c092f27072e039d1}{vrna\+\_\+pbacktrack\+\_\+res…
59 …hyperlink{group__subopt__stochbt_ga6fc5ce952995e53baef52cad5581c063}{vrna\+\_\+pbacktrack\+\_\+res…
[all …]
H A Dgroup__heap__utils.tex24 file \mbox{\hyperlink{heap_8h}{heap.\+h}}
42 void \mbox{\hyperlink{group__heap__utils_ga2a4915c6e66b8831644857df0715c3ce}{vrna\+\_\+heap\+\_\+fr…
48 void $\ast$ \mbox{\hyperlink{group__heap__utils_ga3b6242f3a1194eb1df2d1fb40d630610}{vrna\+\_\+heap\…
67 {\ttfamily \#include $<$\mbox{\hyperlink{heap_8h}{Vienna\+RNA/datastructures/heap.\+h}}$>$}
74 …hyperlink{group__heap__utils_gafd02db4841338bad6f551e3e2bd2161f}{vrna\+\_\+heap\+\_\+init()}}, \mb…
181 …hyperlink{group__heap__utils_ga2a4915c6e66b8831644857df0715c3ce}{vrna\+\_\+heap\+\_\+free()}}, \mb…
258 …hyperlink{group__heap__utils_gafd02db4841338bad6f551e3e2bd2161f}{vrna\+\_\+heap\+\_\+init()}}, \mb…
284 …hyperlink{group__heap__utils_gafd02db4841338bad6f551e3e2bd2161f}{vrna\+\_\+heap\+\_\+init()}}, \mb…
309 …hyperlink{group__heap__utils_gafd02db4841338bad6f551e3e2bd2161f}{vrna\+\_\+heap\+\_\+init()}}, \mb…
334 …hyperlink{group__heap__utils_gafd02db4841338bad6f551e3e2bd2161f}{vrna\+\_\+heap\+\_\+init()}}, \mb…
[all …]
H A DRNAstruct_8h_source.tex22 \DoxyCodeLine{00052 DEPRECATED(\textcolor{keywordtype}{char} *\mbox{\hyperlink{group__struct__utils…
26 \DoxyCodeLine{00066 DEPRECATED(\textcolor{keywordtype}{char} *\mbox{\hyperlink{group__struct__utils…
30 \DoxyCodeLine{00081 DEPRECATED(\textcolor{keywordtype}{char} *\mbox{\hyperlink{group__struct__utils…
55 \DoxyCodeLine{00148 DEPRECATED(\textcolor{keywordtype}{void} \mbox{\hyperlink{group__struct__util…
56 \DoxyCodeLine{\Hypertarget{RNAstruct_8h_source_l00149}\mbox{\hyperlink{group__struct__utils__deprec…
63 …RECATED(\textcolor{keyword}{extern} \textcolor{keywordtype}{int} \mbox{\hyperlink{group__struct__u…
66 …RECATED(\textcolor{keyword}{extern} \textcolor{keywordtype}{int} \mbox{\hyperlink{group__struct__u…
69 …RECATED(\textcolor{keyword}{extern} \textcolor{keywordtype}{int} \mbox{\hyperlink{group__struct__u…
72 …RECATED(\textcolor{keyword}{extern} \textcolor{keywordtype}{int} \mbox{\hyperlink{group__struct__u…
75 …RECATED(\textcolor{keyword}{extern} \textcolor{keywordtype}{int} \mbox{\hyperlink{group__struct__u…
[all …]
H A Dequilibrium__probs_8h.tex28 int {\bfseries vrna\+\_\+pairing\+\_\+probs} (\mbox{\hyperlink{group__fold__compound_ga1b0cef17fd40…
30 …hyperlink{group__thermodynamics_gad3f0c240512e6d43e2e4d4c2076021f5}{vrna\+\_\+mean\+\_\+bp\+\_\+di…
32 double \mbox{\hyperlink{group__thermodynamics_gaa6b8983b559b9ef4b2e1b31113ea317b}{vrna\+\_\+mean\+\…
34 …ouble \mbox{\hyperlink{group__thermodynamics_ga20b7a56fa9e451461805fd968c6cd909}{vrna\+\_\+ensembl…
36 double \mbox{\hyperlink{group__thermodynamics_gaaf197722d1faa86af5e7b4240acafdee}{vrna\+\_\+ensembl…
38 …e $\ast$ \mbox{\hyperlink{group__thermodynamics_ga4ec346141028c7bcd15bc235c408b6e9}{vrna\+\_\+posi…
40 …hyperlink{group__struct__utils__plist_gab9ac98ab55ded9fb90043b024b915aca}{vrna\+\_\+ep\+\_\+t}} $\…
46 …hyperlink{group__thermodynamics_gaa1e39e73afb51fbaf4ae38f0c066c46b}{vrna\+\_\+pf\+\_\+dimer\+\_\+p…
52 double \mbox{\hyperlink{group__thermodynamics_ga882c35d9dd775c1275593b3b6a966bec}{vrna\+\_\+pr\+\_\…
54 double \mbox{\hyperlink{group__thermodynamics_gaa88e17336daede0e6db4da1f3252c031}{vrna\+\_\+pr\+\_\…
H A Ddp__matrices_8h.tex27 struct \mbox{\hyperlink{group__dp__matrices_structvrna__mx__mfe__s}{vrna\+\_\+mx\+\_\+mfe\+\_\+s}}
28 …in the \mbox{\hyperlink{group__fold__compound_ga1b0cef17fd40466cef5968eaeeff6166}{vrna\+\_\+fold\+…
29 struct \mbox{\hyperlink{group__dp__matrices_structvrna__mx__pf__s}{vrna\+\_\+mx\+\_\+pf\+\_\+s}}
34 typedef struct \mbox{\hyperlink{group__dp__matrices_structvrna__mx__mfe__s}{vrna\+\_\+mx\+\_\+mfe\+…
36 typedef struct \mbox{\hyperlink{group__dp__matrices_structvrna__mx__pf__s}{vrna\+\_\+mx\+\_\+pf\+\_…
41 enum \mbox{\hyperlink{group__dp__matrices_ga6042ea1d58d01931e959791be6d89343}{vrna\+\_\+mx\+\_\+typ…
42 , \mbox{\hyperlink{group__dp__matrices_gga6042ea1d58d01931e959791be6d89343a2ea5d5947f6ec02544934b0f…
43 , \mbox{\hyperlink{group__dp__matrices_gga6042ea1d58d01931e959791be6d89343ae656f8391445ff71bed8a597…
49 …hyperlink{group__dp__matrices_ga08661f098008961dab0023bf300f0c33}{vrna\+\_\+mx\+\_\+add}} (\mbox{\…
51 void \mbox{\hyperlink{group__dp__matrices_ga6a9422feb5dfe5c64050cebf447672d0}{vrna\+\_\+mx\+\_\+mfe…
[all …]
H A Dtreedist_8h.tex5 Functions for \mbox{\hyperlink{structTree}{Tree}} Edit Distances.
19 \mbox{\hyperlink{structTree}{Tree}} $\ast$ \mbox{\hyperlink{treedist_8h_a08fe4d5afd385dce593b86eaf0…
20 …\hyperlink{structTree}{Tree}} ( essentially the postorder list ) of the structure \textquotesingle…
21 …\hyperlink{treedist_8h_a3b21f1925f7071f46d93431a835217bb}{tree\+\_\+edit\+\_\+distance}} (\mbox{\h…
24 void \mbox{\hyperlink{treedist_8h_a21ad4de3ba4055aeef08b28c9ad48894}{print\+\_\+tree}} (\mbox{\hype…
26 void \mbox{\hyperlink{treedist_8h_acbc1cb9bce582ea945e4a467c76a57aa}{free\+\_\+tree}} (\mbox{\hyper…
31 Functions for \mbox{\hyperlink{structTree}{Tree}} Edit Distances.
44 …\hyperlink{structTree}{Tree}} ( essentially the postorder list ) of the structure \textquotesingle…
58 …nce (\begin{DoxyParamCaption}\item[{\mbox{\hyperlink{structTree}{Tree}} $\ast$}]{T1, }\item[{\mbo…
78 {\footnotesize\ttfamily void free\+\_\+tree (\begin{DoxyParamCaption}\item[{\mbox{\hyperlink{struct…
[all …]
H A Dgroup__kl__neighborhood__mfe.tex36 typedef struct \mbox{\hyperlink{group__kl__neighborhood__mfe_structTwoDfold__vars}{Two\+Dfold\+\_\+…
72 int \mbox{\hyperlink{group__kl__neighborhood__mfe_ac111e850bb3b3a11b6b5707912cfa1b8}{k}}
104 \mbox{\hyperlink{group__energy__parameters_ga8a69ca7d787e4fd6079914f5343a1f35}{vrna\+\_\+param\+\_\…
154 {\ttfamily \#include $<$\mbox{\hyperlink{2Dfold_8h}{Vienna\+RNA/2\+Dfold.\+h}}$>$}
175 {\ttfamily \#include $<$\mbox{\hyperlink{2Dfold_8h}{Vienna\+RNA/2\+Dfold.\+h}}$>$}
194 {\ttfamily \#include $<$\mbox{\hyperlink{2Dfold_8h}{Vienna\+RNA/2\+Dfold.\+h}}$>$}
227 {\ttfamily \#include $<$\mbox{\hyperlink{2Dfold_8h}{Vienna\+RNA/2\+Dfold.\+h}}$>$}
258 {\ttfamily \#include $<$\mbox{\hyperlink{2Dfold_8h}{Vienna\+RNA/2\+Dfold.\+h}}$>$}
295 {\ttfamily \#include $<$\mbox{\hyperlink{2Dfold_8h}{Vienna\+RNA/2\+Dfold.\+h}}$>$}
320 {\ttfamily \#include $<$\mbox{\hyperlink{2Dfold_8h}{Vienna\+RNA/2\+Dfold.\+h}}$>$}
[all …]
H A Dgroup__part__func__global.tex31 \mbox{\hyperlink{group__thermodynamics}{Predicting various thermodynamic properties}}
38 file \mbox{\hyperlink{part__func_8h}{part\+\_\+func.\+h}}
83 double \mbox{\hyperlink{group__part__func__global_a01a87f59db2b7fbf883b056e6f6c673a}{FAB}}
89 double \mbox{\hyperlink{group__part__func__global_a1aca57247f2c023d08028b1919005b0a}{FA}}
92 double \mbox{\hyperlink{group__part__func__global_ab4d307be5400604d3c1d84d58a9981df}{FB}}
105 {\ttfamily \#include $<$\mbox{\hyperlink{part__func_8h}{Vienna\+RNA/part\+\_\+func.\+h}}$>$}
119 …hyperlink{group__fold__compound_ga1b0cef17fd40466cef5968eaeeff6166}{vrna\+\_\+fold\+\_\+compound\+…
187 …hyperlink{group__part__func__global_ga87e5a77b6e50dd54e9d032a9b92973be}{vrna\+\_\+pf\+\_\+circfold…
223 …hyperlink{group__part__func__global_gac4a2a74a79e49818bc35412a2b392c7e}{vrna\+\_\+pf\+\_\+fold()}}…
257 …hyperlink{group__part__func__global_gab70fe6c9a78b79cc5669881720926e1d}{vrna\+\_\+pf\+\_\+circalif…
[all …]
H A Dcombinatorics_8h_source.tex8 \DoxyCodeLine{00010 \textcolor{preprocessor}{\#include <\mbox{\hyperlink{fold__compound_8h}{ViennaR…
11 …cs_8h_source_l00034}\mbox{\hyperlink{group__combinatorics__utils_gae081ac655a76bd5c4b3d86c60b096b7…
15 …cs_8h_source_l00057}\mbox{\hyperlink{group__combinatorics__utils_gac51464b5281833a58c25f9447252c49…
20 …cs_8h_source_l00088}\mbox{\hyperlink{group__combinatorics__utils_ga95b5a6ac35da982e2a766f8d2f98a2e…
26 …cs_8h_source_l00111}\mbox{\hyperlink{group__combinatorics__utils_gae1dec02c4b63f303ce06a9293d31676…
30 …cs_8h_source_l00139}\mbox{\hyperlink{group__combinatorics__utils_ga294d48935fcac87ab335d771fe289ec…
35 …hyperlink{group__combinatorics__utils_gad42ffd53025bed9d636d811748db7c5a}{00166}} \mbox{\hyperlink…
40 …hyperlink{group__combinatorics__utils_ga2a4227ebe28dbc7ad55444a3a1bf7119}{00201}} \mbox{\hyperlink…
H A Dligand_8h_source.tex5 \DoxyCodeLine{\Hypertarget{ligand_8h_source_l00001}\mbox{\hyperlink{ligand_8h_a56615bc45d2aa4d6d332…
8 …def} \textcolor{keyword}{struct }\mbox{\hyperlink{structvrna__sc__motif__s}{vrna\_sc\_motif\_s}} \…
10 \DoxyCodeLine{00032 \textcolor{preprocessor}{\#include <\mbox{\hyperlink{datastructures_2basic_8h}{…
11 \DoxyCodeLine{00033 \textcolor{preprocessor}{\#include <\mbox{\hyperlink{fold__compound_8h}{ViennaR…
13 …{ligand_8h_source_l00035}\mbox{\hyperlink{structvrna__sc__motif__s}{00035}} \textcolor{keyword}{st…
23 …hyperlink{group__constraints__ligand_gaa6ff0113a3a76dc0b8d62961f4e1dfa0}{00058}} \mbox{\hyperlink{…
26 \DoxyCodeLine{00061 \mbox{\hyperlink{group__data__structures_ga31125aeace51692…
30 \DoxyCodeLine{00065 \mbox{\hyperlink{structvrna__sc__motif__s}{vrna\_sc\_motif\_t}} *}
31 \DoxyCodeLine{00066 vrna\_sc\_ligand\_detect\_motifs(\mbox{\hyperlink{group__fold__compound_structv…
35 \DoxyCodeLine{00070 \mbox{\hyperlink{structvrna__sc__motif__s}{vrna\_sc\_motif\_t}} *}
[all …]
H A Dio_2utils_8h_source.tex10 …ce_l00021}\mbox{\hyperlink{group__file__utils_ga4382a56d2fee9ed738364b99329edc7c}{00021}} \textcol…
14 …e_l00035}\mbox{\hyperlink{group__file__utils_gad16c270b70a77c753088b29de8a802dc}{00035}} \textcolo…
17 …ce_l00041}\mbox{\hyperlink{group__file__utils_gacfa44a974272a4d42c5d391cc780a0ec}{00041}} \textcol…
20 …e_l00047}\mbox{\hyperlink{group__file__utils_ga8d0f8f84f1e2628172cf3c8648b2e507}{00047}} \textcolo…
23 …e_l00053}\mbox{\hyperlink{group__file__utils_gae006d31b088d52d8aace86948def5fe8}{00053}} \textcolo…
26 …e_l00097}\mbox{\hyperlink{group__file__utils_ga72eae0a472bad905b6facccf5b453a76}{00097}} \textcolo…
31 …_2utils_8h_source_l00108}\mbox{\hyperlink{group__file__utils_ga80cf1f4bb5704622f72f2911f48aee55}{0…
H A Dmultibranch_8h_source.tex8 \DoxyCodeLine{00004 \textcolor{preprocessor}{\#include <\mbox{\hyperlink{utils_2basic_8h}{ViennaRNA…
9 \DoxyCodeLine{00005 \textcolor{preprocessor}{\#include <\mbox{\hyperlink{datastructures_2basic_8h}{…
10 \DoxyCodeLine{00006 \textcolor{preprocessor}{\#include <\mbox{\hyperlink{fold__compound_8h}{ViennaR…
11 \DoxyCodeLine{00007 \textcolor{preprocessor}{\#include <\mbox{\hyperlink{params_2basic_8h}{ViennaRN…
35 …hyperlink{group__eval__loops__mb_ga91af6d5fcb0aef243a4071cf9e718020}{00055}} \mbox{\hyperlink{grou…
66 \DoxyCodeLine{00101 \mbox{\hyperlink{group__data__structures_ga31125aeace516926bf7f251f759b6126}{FL…
73 \DoxyCodeLine{00108 \mbox{\hyperlink{group__eval__loops__mb_ga39a8cc1385dcb542a60a9393cde6a1e3}{vrn…
93 \DoxyCodeLine{00128 \mbox{\hyperlink{group__data__structures_ga31125aeace516926bf7f251f759b6126}{FL…
102 …hyperlink{group__mfe__backtracking_ga5b62d56c9d47c1e8792b02cd6b95e78b}{00164}} \mbox{\hyperlink{gr…
138 \DoxyCodeLine{00229 \mbox{\hyperlink{group__energy__parameters_structvrna__param__s}{vrna\…
[all …]
H A Dhard_8h.tex27 struct \mbox{\hyperlink{group__hard__constraints_structvrna__hc__s}{vrna\+\_\+hc\+\_\+s}}
29 struct \mbox{\hyperlink{group__hard__constraints_structvrna__hc__up__s}{vrna\+\_\+hc\+\_\+up\+\_\+s…
92 typedef struct \mbox{\hyperlink{group__hard__constraints_structvrna__hc__s}{vrna\+\_\+hc\+\_\+s}} \…
94 typedef struct \mbox{\hyperlink{group__hard__constraints_structvrna__hc__up__s}{vrna\+\_\+hc\+\_\+u…
101 enum \mbox{\hyperlink{hard_8h_a0fcb8bda9b3712e14f8f513def112435}{vrna\+\_\+hc\+\_\+type\+\_\+e}} \{…
122 void \mbox{\hyperlink{group__hard__constraints_ga696dcf77887d856c6f21ea266d8b9ca2}{vrna\+\_\+hc\+\_…
125 …hyperlink{hard_8h_af220427ba7ecc8e786a07b7799658f18}{vrna\+\_\+hc\+\_\+add\+\_\+f}} (\mbox{\hyperl…
168 …hyperlink{group__hard__constraints_ga5b4de3247b67358080c176b94591a8e6}{vrna\+\_\+hc\+\_\+add\+\_\+…
190 …hyperlink{group__mfe__window_ga689df235a1915a1ad56e377383c044ce}{vrna\+\_\+mfe\+\_\+window()}}, \m…
210 \mbox{\hyperlink{hard_8h_af220427ba7ecc8e786a07b7799658f18}{vrna\+\_\+hc\+\_\+add\+\_\+f()}}
[all …]
H A Dgroup__struct__utils__plist.tex17 struct \mbox{\hyperlink{group__struct__utils__plist_structvrna__elem__prob__s}{vrna\+\_\+elem\+\_\+…
23 \#define \mbox{\hyperlink{group__struct__utils__plist_ga7c7484a8a1e6704b1aefaf589f3b27c1}{VRNA\+\_\…
26 \#define \mbox{\hyperlink{group__struct__utils__plist_gac91ab79e9feede5347103949ecf04f8a}{VRNA\+\_\…
44 …edef struct \mbox{\hyperlink{group__struct__utils__plist_structvrna__elem__prob__s}{vrna\+\_\+elem…
49 …hyperlink{group__struct__utils__plist_gab9ac98ab55ded9fb90043b024b915aca}{vrna\+\_\+ep\+\_\+t}} $\…
60 …hyperlink{group__struct__utils__plist_gaf002d69024d709744664a8b9ca3dd77d}{vrna\+\_\+plist()}}, \mb…
66 int \mbox{\hyperlink{group__struct__utils__plist_a0f8bb11ded4e605f816d7ad92eb568f6}{i}}
69 int \mbox{\hyperlink{group__struct__utils__plist_acada5be62ed6843334a918ca543f0c0d}{j}}
72 float \mbox{\hyperlink{group__struct__utils__plist_a9c09385582d8a7ab00485181f4e868b7}{p}}
75 int \mbox{\hyperlink{group__struct__utils__plist_a11715ffa51cb6277db7ebd3d9170d691}{type}}
[all …]
H A Dhash__tables_8h.tex11 struct \mbox{\hyperlink{group__hash__table__utils_structvrna__ht__entry__db__t}{vrna\+\_\+ht\+\_\+e…
17 int \mbox{\hyperlink{group__hash__table__utils_gac4ec0b8372d50d7347a63f140f340962}{vrna\+\_\+ht\+\_…
21 int \mbox{\hyperlink{group__hash__table__utils_gabcdcd0d070b3dfd2634a09e7838acf66}{vrna\+\_\+ht\+\_…
33 typedef int() \mbox{\hyperlink{group__hash__table__utils_ga3ff18cc70db8bb6f8cfee2c2b1542afc}{vrna\+…
35 …hyperlink{group__hash__table__utils_gabc7c6f41b718c8e23929e528891a89c4}{vrna\+\_\+hash\+\_\+table\…
37 …signed long \mbox{\hyperlink{group__hash__table__utils_ga1d7a50bb20b32275e742ec575966412b}{vrna\+\…
41 void $\ast$ \mbox{\hyperlink{group__hash__table__utils_ga38f124472c8e7e75f067d3b27b43da09}{vrna\+\_…
43 int \mbox{\hyperlink{group__hash__table__utils_ga4d2189ce8048f031a15ca5e4b290d494}{vrna\+\_\+ht\+\_…
45 void \mbox{\hyperlink{group__hash__table__utils_ga1162aa0d1bd82af7420bb727a87d3e2f}{vrna\+\_\+ht\+\…
47 void \mbox{\hyperlink{group__hash__table__utils_gab90583f8f7395e735c865ad2ebdb3c29}{vrna\+\_\+ht\+\…
[all …]
H A Dexternal_8h.tex27 …x{\hyperlink{group__eval__deprecated_ga51f9851f3500c2aae66674142a6a2dd5}{E\+\_\+\+Stem}} (int type…
29 …hyperlink{group__data__structures_ga31125aeace516926bf7f251f759b6126}{FLT\+\_\+\+OR\+\_\+\+DBL}} \…
31 …hyperlink{group__data__structures_ga31125aeace516926bf7f251f759b6126}{FLT\+\_\+\+OR\+\_\+\+DBL}} \…
36 …hyperlink{group__eval__loops__ext_gaa0c313c90da11aa741dcd62746d85337}{vrna\+\_\+\+E\+\_\+ext\+\_\+…
38 int \mbox{\hyperlink{group__eval__loops__ext_gace51f32d5b34b7003b51c948afc6c207}{vrna\+\_\+\+E\+\_\…
40 int {\bfseries vrna\+\_\+\+E\+\_\+ext\+\_\+loop\+\_\+5} (\mbox{\hyperlink{group__fold__compound_ga1…
42 int {\bfseries vrna\+\_\+\+E\+\_\+ext\+\_\+loop\+\_\+3} (\mbox{\hyperlink{group__fold__compound_ga1…
50 …hyperlink{group__data__structures_ga31125aeace516926bf7f251f759b6126}{FLT\+\_\+\+OR\+\_\+\+DBL}} \…
52 …hyperlink{group__eval__loops__ext_gaf9d5160c11ffad3ec258124a77fee13c}{vrna\+\_\+mx\+\_\+pf\+\_\+au…
58 …hyperlink{group__data__structures_ga31125aeace516926bf7f251f759b6126}{FLT\+\_\+\+OR\+\_\+\+DBL}} {…
[all …]
/dports/www/dtse/dtse-1.3/
H A DURL.cpp165 string hyperlink; in getLink() local
181 hyperlink = link; in getLink()
199 hyperlink = "http:" + link; in getLink()
206 hyperlink = url.getURL(); in getLink()
209 size_t path(hyperlink.find('/', 7)); in getLink()
214 hyperlink.erase(path); in getLink()
216 hyperlink += link; in getLink()
224 hyperlink = url.getURL(); in getLink()
229 hyperlink.erase(cutoff); in getLink()
247 hyperlink += path + link; in getLink()
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