binaries/src/ViennaRNA/doc/latex/move__set_8h_source.tex

   1 \hypertarget{move__set_8h_source}{
   2 \section{/homes/fmmarquesmadeira/Projects/jabaws/binaries/src/ViennaRNA/H/move\_\-set.h}
   3 }
   4
   5
   6 \begin{footnotesize}\begin{alltt}
   7 00001 \textcolor{preprocessor}{#ifndef \_\_MOVE\_SET\_H}
   8 00002 \textcolor{preprocessor}{}\textcolor{preprocessor}{#define \_\_MOVE\_SET\_H}
   9 00003 \textcolor{preprocessor}{}
  10 00004 \textcolor{comment}{/* used data structure*/}
  11 \hypertarget{move__set_8h_source_l00005}{}\hyperlink{structstruct__en}{00005} \textcolor{keyword}{typedef} \textcolor{keyword}{struct }\_struct\_en\{
  12 00006   \textcolor{keywordtype}{int} energy;        \textcolor{comment}{/* energy in 10kcal/mol*/}
  13 00007   \textcolor{keywordtype}{short} *structure;  \textcolor{comment}{/* structure in energy\_of\_move format*/}
  14 00008 \} \hyperlink{structstruct__en}{struct_en};
  15 00009
  16 00010 \textcolor{comment}{/* prints structure*/}
  17 00011 \textcolor{keywordtype}{void} print\_stren(FILE *out, \hyperlink{structstruct__en}{struct_en} *str);
  18 00012 \textcolor{keywordtype}{void} print\_str(FILE *out, \textcolor{keywordtype}{short} *str);
  19 00013
  20 00014 \textcolor{comment}{/* copying functions*/}
  21 00015 \textcolor{keywordtype}{void} copy\_arr(\textcolor{keywordtype}{short} *dest, \textcolor{keywordtype}{short} *src); \textcolor{comment}{/*just copy*/}
  22 00016 \textcolor{keywordtype}{short} *allocopy(\textcolor{keywordtype}{short} *src);            \textcolor{comment}{/*copy and make space*/}
  23 00017
  24 00018 \textcolor{comment}{/* walking methods (verbose\_lvl 0-2, shifts = use shift moves? noLP = no lone pai
  25       rs? (not compatible with shifts))}
  26 00019 \textcolor{comment}{    input:    seq - sequence}
  27 00020 \textcolor{comment}{              ptable - structure encoded with make\_pair\_table() from pair\_mat.h}
  28 00021 \textcolor{comment}{              s, s1 - sequence encoded with encode\_sequence from pair\_mat.h}
  29 00022 \textcolor{comment}{    methods:  deepest - lowest energy structure is used}
  30 00023 \textcolor{comment}{              first - first found lower energy structure is used}
  31 00024 \textcolor{comment}{              rand - random lower energy structure is used}
  32 00025 \textcolor{comment}{    returns local minima structure in ptable and its energy in 10kcal/mol as outp
  33       ut */}
  34 00026
  35 00027 \textcolor{keywordtype}{int} move\_deepest( \textcolor{keywordtype}{char} *seq,
  36 00028                   \textcolor{keywordtype}{short} *ptable,
  37 00029                   \textcolor{keywordtype}{short} *s,
  38 00030                   \textcolor{keywordtype}{short} *s1,
  39 00031                   \textcolor{keywordtype}{int} verbosity\_level,
  40 00032                   \textcolor{keywordtype}{int} shifts,
  41 00033                   \textcolor{keywordtype}{int} noLP);
  42 00034 \textcolor{keywordtype}{int} move\_first( \textcolor{keywordtype}{char} *seq,
  43 00035                 \textcolor{keywordtype}{short} *ptable,
  44 00036                 \textcolor{keywordtype}{short} *s,
  45 00037                 \textcolor{keywordtype}{short} *s1,
  46 00038                 \textcolor{keywordtype}{int} verbosity\_level,
  47 00039                 \textcolor{keywordtype}{int} shifts,
  48 00040                 \textcolor{keywordtype}{int} noLP);
  49 00041 \textcolor{keywordtype}{int} move\_rand(  \textcolor{keywordtype}{char} *seq,
  50 00042                 \textcolor{keywordtype}{short} *ptable,
  51 00043                 \textcolor{keywordtype}{short} *s,
  52 00044                 \textcolor{keywordtype}{short} *s1,
  53 00045                 \textcolor{keywordtype}{int} verbosity\_level);
  54 00046
  55 00047
  56 00048 \textcolor{comment}{/* browse\_neighbours and do funct function on each of them (used mainly for user
  57       specified flooding)}
  58 00049 \textcolor{comment}{    input:    seq - sequence}
  59 00050 \textcolor{comment}{              ptable - structure encoded with make\_pair\_table() from pair\_mat.h}
  60 00051 \textcolor{comment}{              s, s1 - sequence encoded with encode\_sequence from pair\_mat.h}
  61 00052 \textcolor{comment}{              funct - function (moved structure, current structure (or altered by
  62        funct)) to do with every structure in neigbourhood}
  63 00053 \textcolor{comment}{    returns energy of the structure funct sets as second argument*/}
  64 00054 \textcolor{keywordtype}{int} browse\_neighs( \textcolor{keywordtype}{char} *seq,
  65 00055                    \textcolor{keywordtype}{short} *ptable,
  66 00056                    \textcolor{keywordtype}{short} *s,
  67 00057                    \textcolor{keywordtype}{short} *s1,
  68 00058                    \textcolor{keywordtype}{int} verbosity\_level,
  69 00059                    \textcolor{keywordtype}{int} shifts,
  70 00060                    \textcolor{keywordtype}{int} noLP,
  71 00061                    \textcolor{keywordtype}{int} (*funct) (\hyperlink{structstruct__en}{struct_en}*, \hyperlink{structstruct__en}{struct_en}*));
  72 00062
  73 00063 \textcolor{preprocessor}{#endif}
  74 \end{alltt}\end{footnotesize}