binaries/src/ViennaRNA/doc/latex/plex_8h_source.tex

   1 \hypertarget{plex_8h}{\section{plex.\-h}
   2 \label{plex_8h}\index{/home/asherstnev/\-Projects/\-Java.\-projects/jabaws/secure-\/git/develop/binaries/src/\-Vienna\-R\-N\-A/\-H/plex.\-h@{/home/asherstnev/\-Projects/\-Java.\-projects/jabaws/secure-\/git/develop/binaries/src/\-Vienna\-R\-N\-A/\-H/plex.\-h}}
   3 }
   4
   5 \begin{DoxyCode}
   6 00001 \textcolor{preprocessor}{#ifndef \_\_VIENNA\_RNA\_PACKAGE\_PLEX\_H\_\_}
   7 00002 \textcolor{preprocessor}{}\textcolor{preprocessor}{#define \_\_VIENNA\_RNA\_PACKAGE\_PLEX\_H\_\_}
   8 00003 \textcolor{preprocessor}{}
   9 00004 \textcolor{preprocessor}{#include "\hyperlink{data__structures_8h}{data\_structures.h}"}
  10 00005
  11 00006
  12 00007 \textcolor{keyword}{extern} \textcolor{keywordtype}{int} \hyperlink{group__subopt__wuchty_ga873cf8ed69e0437f8efa8b1fec854a0e}{subopt\_sorted};
  13 00008
  14 00012 \hyperlink{structduplexT}{duplexT}** Lduplexfold(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *s1,
  15 00013                       \textcolor{keyword}{const} \textcolor{keywordtype}{char} *s2,
  16 00014                       \textcolor{keyword}{const} \textcolor{keywordtype}{int} threshold,
  17 00015                       \textcolor{keyword}{const} \textcolor{keywordtype}{int} extension\_cost,
  18 00016                       \textcolor{keyword}{const} \textcolor{keywordtype}{int} alignment\_length,
  19 00017                       \textcolor{keyword}{const} \textcolor{keywordtype}{int} delta,
  20 00018                       \textcolor{keyword}{const} \textcolor{keywordtype}{int} fast,
  21 00019                       \textcolor{keyword}{const} \textcolor{keywordtype}{int} il\_a,
  22 00020                       \textcolor{keyword}{const} \textcolor{keywordtype}{int} il\_b,
  23 00021                       \textcolor{keyword}{const} \textcolor{keywordtype}{int} b\_a,
  24 00022                       \textcolor{keyword}{const} \textcolor{keywordtype}{int} b\_b);
  25 00023
  26 00027 \hyperlink{structduplexT}{duplexT}** Lduplexfold\_XS( \textcolor{keyword}{const} \textcolor{keywordtype}{char}*s1,
  27 00028                           \textcolor{keyword}{const} \textcolor{keywordtype}{char}* s2,
  28 00029                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} **access\_s1,
  29 00030                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} **access\_s2,
  30 00031                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} threshold,
  31 00032                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} delta,
  32 00033                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} alignment\_length,
  33 00034                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} fast,
  34 00035                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} il\_a,
  35 00036                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} il\_b,
  36 00037                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} b\_a,
  37 00038                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} b\_b);\textcolor{comment}{/* , const int target\_dead, const int query\_dead); */}
  38 00039
  39 00043 \hyperlink{structduplexT}{duplexT}** Lduplexfold\_C(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *s1,
  40 00044                         \textcolor{keyword}{const} \textcolor{keywordtype}{char} *s2,
  41 00045                         \textcolor{keyword}{const} \textcolor{keywordtype}{int} threshold,
  42 00046                         \textcolor{keyword}{const} \textcolor{keywordtype}{int} extension\_cost,
  43 00047                         \textcolor{keyword}{const} \textcolor{keywordtype}{int} alignment\_length,
  44 00048                         \textcolor{keyword}{const} \textcolor{keywordtype}{int} delta,
  45 00049                         \textcolor{keyword}{const} \textcolor{keywordtype}{int} fast,
  46 00050                         \textcolor{keyword}{const} \textcolor{keywordtype}{char}* structure,
  47 00051                         \textcolor{keyword}{const} \textcolor{keywordtype}{int} il\_a,
  48 00052                         \textcolor{keyword}{const} \textcolor{keywordtype}{int} il\_b,
  49 00053                         \textcolor{keyword}{const} \textcolor{keywordtype}{int} b\_a,
  50 00054                         \textcolor{keyword}{const} \textcolor{keywordtype}{int} b\_b);
  51 00055
  52 00060 \hyperlink{structduplexT}{duplexT}** Lduplexfold\_CXS(\textcolor{keyword}{const} \textcolor{keywordtype}{char}*s1,
  53 00061                           \textcolor{keyword}{const} \textcolor{keywordtype}{char}* s2,
  54 00062                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} **access\_s1,
  55 00063                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} **access\_s2,
  56 00064                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} threshold,
  57 00065                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} delta,
  58 00066                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} alignment\_length,
  59 00067                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} fast,
  60 00068                           \textcolor{keyword}{const} \textcolor{keywordtype}{char}* structure,
  61 00069                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} il\_a,
  62 00070                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} il\_b,
  63 00071                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} b\_a,
  64 00072                           \textcolor{keyword}{const} \textcolor{keywordtype}{int} b\_b); \textcolor{comment}{/*, const int target\_dead, const int query\_dead); */}
  65 00073
  66 00074
  67 00075
  68 00076
  69 00077 \textcolor{keywordtype}{int}      arraySize(\hyperlink{structduplexT}{duplexT}** array);
  70 00078 \textcolor{keywordtype}{void}     freeDuplexT(\hyperlink{structduplexT}{duplexT}** array);
  71 00079
  72 00080 \textcolor{preprocessor}{#endif}
  73 \end{DoxyCode}