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JWS-117 Compiled all tools with ./compilebin.sh and some were missing related files.
[jabaws.git] / binaries / src / ViennaRNA / doc / latex / RNAstruct_8h_source.tex
diff --git a/binaries/src/ViennaRNA/doc/latex/RNAstruct_8h_source.tex b/binaries/src/ViennaRNA/doc/latex/RNAstruct_8h_source.tex
index 9eae0fc..accf669 100644 (file)
--- a/binaries/src/ViennaRNA/doc/latex/RNAstruct_8h_source.tex
+++ b/binaries/src/ViennaRNA/doc/latex/RNAstruct_8h_source.tex
@@ -1,39 +1,45 @@
-\hypertarget{RNAstruct_8h}{\section{R\-N\-Astruct.\-h}
-\label{RNAstruct_8h}\index{/home/asherstnev/\-Projects/\-Java.\-projects/jabaws/secure-\/git/develop/binaries/src/\-Vienna\-R\-N\-A/\-H/\-R\-N\-Astruct.\-h@{/home/asherstnev/\-Projects/\-Java.\-projects/jabaws/secure-\/git/develop/binaries/src/\-Vienna\-R\-N\-A/\-H/\-R\-N\-Astruct.\-h}}
+\hypertarget{RNAstruct_8h_source}{
+\section{/homes/fmmarquesmadeira/Projects/jabaws/binaries/src/ViennaRNA/H/RNAstruct.h}
 }
 
-\begin{DoxyCode}
+
+\begin{footnotesize}\begin{alltt}
 00001 \textcolor{preprocessor}{#ifndef \_\_VIENNA\_RNA\_PACKAGE\_RNASTRUCT\_H\_\_}
 00002 \textcolor{preprocessor}{}\textcolor{preprocessor}{#define \_\_VIENNA\_RNA\_PACKAGE\_RNASTRUCT\_H\_\_}
 00003 \textcolor{preprocessor}{}
 00024 \textcolor{preprocessor}{#define STRUC     2000}
 00025 \textcolor{preprocessor}{}
-00033 \textcolor{keywordtype}{char} *\hyperlink{RNAstruct_8h_a07b7e90e712559a1992fba3ac6d21bbd}{b2HIT}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *structure);             \textcolor{comment}{/* Full   -> HIT    [incl. root] */}
+00033 \textcolor{keywordtype}{char} *\hyperlink{RNAstruct_8h_a07b7e90e712559a1992fba3ac6d21bbd}{b2HIT}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *structure);             \textcolor{comment}{/* Full   -> HIT    [incl. root] 
+      */}
 00034 
-00042 \textcolor{keywordtype}{char} *\hyperlink{RNAstruct_8h_a9c80d92391f2833549a8b6dac92233f0}{b2C}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *structure);               \textcolor{comment}{/* Full   -> Coarse [incl. root] */}
+00042 \textcolor{keywordtype}{char} *\hyperlink{RNAstruct_8h_a9c80d92391f2833549a8b6dac92233f0}{b2C}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *structure);               \textcolor{comment}{/* Full   -> Coarse [incl. root] 
+      */}
 00043 
-00052 \textcolor{keywordtype}{char} *\hyperlink{RNAstruct_8h_a5cd2feb367feeacad0c03cb7ddba5f10}{b2Shapiro}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *structure);         \textcolor{comment}{/* Full -> weighted Shapiro [i.r.] */}
+00052 \textcolor{keywordtype}{char} *\hyperlink{RNAstruct_8h_a5cd2feb367feeacad0c03cb7ddba5f10}{b2Shapiro}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *structure);         \textcolor{comment}{/* Full -> weighted Shapiro [i.r.
+      ] */}
 00053 
-00060 \textcolor{keywordtype}{char} *\hyperlink{RNAstruct_8h_a880d33066dd95441e5fbb73c57ed1c3e}{add\_root}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *structure);                   \textcolor{comment}{/* \{Tree\} -> (\{Tree\}R)          */}
+00060 \textcolor{keywordtype}{char} *\hyperlink{RNAstruct_8h_a880d33066dd95441e5fbb73c57ed1c3e}{add_root}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *structure);                   \textcolor{comment}{/* \{Tree\} -> (\{Tree\}R)  
+              */}
 00061 
-00069 \textcolor{keywordtype}{char}  *\hyperlink{RNAstruct_8h_abe3d815b420dc4553bfb23511198b4c6}{expand\_Shapiro}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *coarse);
+00069 \textcolor{keywordtype}{char}  *\hyperlink{RNAstruct_8h_abe3d815b420dc4553bfb23511198b4c6}{expand_Shapiro}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *coarse);
 00070 
 00071 \textcolor{comment}{/* add S for stacks to coarse struct */}
-00079 \textcolor{keywordtype}{char}  *\hyperlink{RNAstruct_8h_a78d73cd54a068ef2812812771cdddc6f}{expand\_Full}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *structure);      \textcolor{comment}{/* Full   -> FFull         */}
+00079 \textcolor{keywordtype}{char}  *\hyperlink{RNAstruct_8h_a78d73cd54a068ef2812812771cdddc6f}{expand_Full}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *structure);      \textcolor{comment}{/* Full   -> FFull         */}
 00080 
-00088 \textcolor{keywordtype}{char}  *\hyperlink{RNAstruct_8h_a260c4b622093b76a883bf96628280de1}{unexpand\_Full}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *ffull);        \textcolor{comment}{/* FFull  -> Full          */}
+00088 \textcolor{keywordtype}{char}  *\hyperlink{RNAstruct_8h_a260c4b622093b76a883bf96628280de1}{unexpand_Full}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *ffull);        \textcolor{comment}{/* FFull  -> Full          */}
 00089 
-00096 \textcolor{keywordtype}{char}  *\hyperlink{RNAstruct_8h_a09a80253ac7b6bae606871ba7c6e5136}{unweight}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *wcoarse);           \textcolor{comment}{/* remove weights from coarse struct */}
+00096 \textcolor{keywordtype}{char}  *\hyperlink{RNAstruct_8h_a09a80253ac7b6bae606871ba7c6e5136}{unweight}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *wcoarse);           \textcolor{comment}{/* remove weights from coarse str
+      uct */}
 00097 
-00107 \textcolor{keywordtype}{void}   \hyperlink{RNAstruct_8h_a1054c4477d53b31d79d4cb132100e87a}{unexpand\_aligned\_F}(\textcolor{keywordtype}{char} *align[2]);
+00107 \textcolor{keywordtype}{void}   \hyperlink{RNAstruct_8h_a1054c4477d53b31d79d4cb132100e87a}{unexpand_aligned_F}(\textcolor{keywordtype}{char} *align[2]);
 00108 
-00119 \textcolor{keywordtype}{void}   \hyperlink{RNAstruct_8h_a3c79042e6bf6f01706bf30ec9e69e8ac}{parse\_structure}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *structure);  \textcolor{comment}{/* make structure statistics */}
+00119 \textcolor{keywordtype}{void}   \hyperlink{RNAstruct_8h_a3c79042e6bf6f01706bf30ec9e69e8ac}{parse_structure}(\textcolor{keyword}{const} \textcolor{keywordtype}{char} *structure);  \textcolor{comment}{/* make structure statistics */}
 00120 
-00125 \textcolor{keyword}{extern} \textcolor{keywordtype}{int}    \hyperlink{RNAstruct_8h_a3f31e0e48125601bfa57b52f8b038e8e}{loop\_size}[STRUC];       \textcolor{comment}{/* loop sizes of a structure */}
+00125 \textcolor{keyword}{extern} \textcolor{keywordtype}{int}    \hyperlink{RNAstruct_8h_a3f31e0e48125601bfa57b52f8b038e8e}{loop_size}[STRUC];       \textcolor{comment}{/* loop sizes of a structure */}
 00126 
-00130 \textcolor{keyword}{extern} \textcolor{keywordtype}{int}    \hyperlink{RNAstruct_8h_a8218c0d581a3fba2a1a56a196abe19a5}{helix\_size}[STRUC];      \textcolor{comment}{/* helix sizes of a structure */}
+00130 \textcolor{keyword}{extern} \textcolor{keywordtype}{int}    \hyperlink{RNAstruct_8h_a8218c0d581a3fba2a1a56a196abe19a5}{helix_size}[STRUC];      \textcolor{comment}{/* helix sizes of a structure */}
 00131 
-00135 \textcolor{keyword}{extern} \textcolor{keywordtype}{int}    \hyperlink{RNAstruct_8h_aef14e2f8ab3f61e8e659ba6b9003b08a}{loop\_degree}[STRUC];     \textcolor{comment}{/* loop degrees of a structure */}
+00135 \textcolor{keyword}{extern} \textcolor{keywordtype}{int}    \hyperlink{RNAstruct_8h_aef14e2f8ab3f61e8e659ba6b9003b08a}{loop_degree}[STRUC];     \textcolor{comment}{/* loop degrees of a structure */}
 00136 
 00140 \textcolor{keyword}{extern} \textcolor{keywordtype}{int}    \hyperlink{RNAstruct_8h_a439fcb9f8d4f9f4d2227fde5fbfecb30}{loops};                  \textcolor{comment}{/* n of loops and stacks */}
 00141 
@@ -42,4 +48,4 @@
 00150 \textcolor{keyword}{extern} \textcolor{keywordtype}{int}    \hyperlink{RNAstruct_8h_a6341cbb704924824e0236c1dce791032}{pairs};        \textcolor{comment}{/* n of unpaired digits and pairs */}
 00151 
 00152 \textcolor{preprocessor}{#endif}
-\end{DoxyCode}
+\end{alltt}\end{footnotesize}