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          <type>char *</type>
          <declname>structure</declname>
        </param>
        <param>
          <type><ref refid="structvrna__bp__stack__t" kindref="compound">vrna_bp_stack_t</ref> *</type>
          <declname>bp</declname>
        </param>
        <param>
          <type>int</type>
          <declname>length</declname>
        </param>
        <briefdescription>
        </briefdescription>
        <detaileddescription>
        </detaileddescription>
        <inbodydescription>
        </inbodydescription>
        <location file="ViennaRNA/structures/dotbracket.h" line="478" column="7" declfile="ViennaRNA/structures/dotbracket.h" declline="478" declcolumn="7"/>
      </memberdef>
      <member refid="group__struct__utils__deprecated_1ga129d81c4a1ead793c5b2311333e03dfa" kind="function"><name>bppm_to_structure</name></member>
      <member refid="group__struct__utils__deprecated_1ga49962ad6242b8c628de6ca16bb831c1d" kind="function"><name>bppm_symbol</name></member>
      <member refid="group__gquad__deprecated_1gae41763215b9c64d2a7b67f0df8a28078" kind="function"><name>parse_gquad</name></member>
    </sectiondef>
    <briefdescription>
<para>Various functions for dot-bracket representation of secondary structures. </para>
    </briefdescription>
    <detaileddescription>
    </detaileddescription>
    <programlisting>
<codeline lineno="1"><highlight class="preprocessor">#ifndef<sp/>VIENNA_RNA_PACKAGE_STRUCTURES_DOTBRACKET_H</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="2"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/>VIENNA_RNA_PACKAGE_STRUCTURES_DOTBRACKET_H</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="3"><highlight class="normal"></highlight></codeline>
<codeline lineno="4"><highlight class="normal"></highlight><highlight class="preprocessor">#ifdef<sp/>VRNA_WARN_DEPRECATED</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="5"><highlight class="normal"></highlight><highlight class="preprocessor">#<sp/>if<sp/>defined(__clang__)</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="6"><highlight class="normal"></highlight><highlight class="preprocessor">#<sp/><sp/>define<sp/>DEPRECATED(func,<sp/>msg)<sp/>func<sp/>__attribute__<sp/>((deprecated(&quot;&quot;,<sp/>msg)))</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="7"><highlight class="normal"></highlight><highlight class="preprocessor">#<sp/>elif<sp/>defined(__GNUC__)</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="8"><highlight class="normal"></highlight><highlight class="preprocessor">#<sp/><sp/>define<sp/>DEPRECATED(func,<sp/>msg)<sp/>func<sp/>__attribute__<sp/>((deprecated(msg)))</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="9"><highlight class="normal"></highlight><highlight class="preprocessor">#<sp/>else</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="10"><highlight class="normal"></highlight><highlight class="preprocessor">#<sp/><sp/>define<sp/>DEPRECATED(func,<sp/>msg)<sp/>func</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="11"><highlight class="normal"></highlight><highlight class="preprocessor">#<sp/>endif</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="12"><highlight class="normal"></highlight><highlight class="preprocessor">#else</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="13"><highlight class="normal"></highlight><highlight class="preprocessor">#<sp/>define<sp/>DEPRECATED(func,<sp/>msg)<sp/>func</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="14"><highlight class="normal"></highlight><highlight class="preprocessor">#endif</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="15"><highlight class="normal"></highlight></codeline>
<codeline lineno="21"><highlight class="normal"></highlight></codeline>
<codeline lineno="22"><highlight class="normal"></highlight><highlight class="preprocessor">#include<sp/>&lt;<ref refid="problist_8h" kindref="compound">ViennaRNA/structures/problist.h</ref>&gt;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="23"><highlight class="normal"></highlight></codeline>
<codeline lineno="28"><highlight class="normal"></highlight></codeline>
<codeline lineno="34" refid="group__struct__utils__dot__bracket_1ga7e3f630af8d69bb0e917145aacf2f96d" refkind="member"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/>VRNA_BRACKETS_ALPHA<sp/><sp/><sp/><sp/>4U</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="35"><highlight class="normal"></highlight></codeline>
<codeline lineno="36"><highlight class="normal"></highlight></codeline>
<codeline lineno="42" refid="group__struct__utils__dot__bracket_1gac92d5fa7c6625bce2670ece510a24fbd" refkind="member"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/>VRNA_BRACKETS_RND<sp/><sp/><sp/><sp/><sp/><sp/>8U</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="43"><highlight class="normal"></highlight></codeline>
<codeline lineno="44"><highlight class="normal"></highlight></codeline>
<codeline lineno="50" refid="group__struct__utils__dot__bracket_1gaf41be40e79cb756c4e0bb8edb4d803d2" refkind="member"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/>VRNA_BRACKETS_CLY<sp/><sp/><sp/><sp/><sp/><sp/>16U</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="51"><highlight class="normal"></highlight></codeline>
<codeline lineno="52"><highlight class="normal"></highlight></codeline>
<codeline lineno="58" refid="group__struct__utils__dot__bracket_1ga863e03f7f73f10fc9bbcbefbdda4bec8" refkind="member"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/>VRNA_BRACKETS_ANG<sp/><sp/><sp/><sp/><sp/><sp/>32U</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="59"><highlight class="normal"></highlight></codeline>
<codeline lineno="60"><highlight class="normal"></highlight></codeline>
<codeline lineno="66" refid="group__struct__utils__dot__bracket_1ga60525d61d7496eeea490a37f3d6bf757" refkind="member"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/>VRNA_BRACKETS_SQR<sp/><sp/><sp/><sp/><sp/><sp/>64U</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="67"><highlight class="normal"></highlight></codeline>
<codeline lineno="68"><highlight class="normal"></highlight></codeline>
<codeline lineno="80" refid="group__struct__utils__dot__bracket_1ga559ebf76b1b289f85309f4206e99aa1a" refkind="member"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/>VRNA_BRACKETS_DEFAULT<sp/><sp/>\</highlight></codeline>
<codeline lineno="81"><highlight class="preprocessor"><sp/><sp/>(VRNA_BRACKETS_RND<sp/>|<sp/>\</highlight></codeline>
<codeline lineno="82"><highlight class="preprocessor"><sp/><sp/><sp/>VRNA_BRACKETS_CLY<sp/>|<sp/>\</highlight></codeline>
<codeline lineno="83"><highlight class="preprocessor"><sp/><sp/><sp/>VRNA_BRACKETS_ANG<sp/>|<sp/>\</highlight></codeline>
<codeline lineno="84"><highlight class="preprocessor"><sp/><sp/><sp/>VRNA_BRACKETS_SQR)</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="85"><highlight class="normal"></highlight></codeline>
<codeline lineno="86"><highlight class="normal"></highlight></codeline>
<codeline lineno="93" refid="group__struct__utils__dot__bracket_1ga013a9da903462d2f2b037f0c6ffb46e4" refkind="member"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/>VRNA_BRACKETS_ANY<sp/>\</highlight></codeline>
<codeline lineno="94"><highlight class="preprocessor"><sp/><sp/>(VRNA_BRACKETS_RND<sp/>|<sp/>\</highlight></codeline>
<codeline lineno="95"><highlight class="preprocessor"><sp/><sp/><sp/>VRNA_BRACKETS_CLY<sp/>|<sp/>\</highlight></codeline>
<codeline lineno="96"><highlight class="preprocessor"><sp/><sp/><sp/>VRNA_BRACKETS_ANG<sp/>|<sp/>\</highlight></codeline>
<codeline lineno="97"><highlight class="preprocessor"><sp/><sp/><sp/>VRNA_BRACKETS_SQR<sp/>|<sp/>\</highlight></codeline>
<codeline lineno="98"><highlight class="preprocessor"><sp/><sp/><sp/>VRNA_BRACKETS_ALPHA)</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="99"><highlight class="normal"></highlight></codeline>
<codeline lineno="100"><highlight class="normal"></highlight></codeline>
<codeline lineno="101"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/><sp/><sp/>VRNA_GQUAD_DB_SYMBOL<sp/><sp/><sp/><sp/><sp/><sp/>&apos;+&apos;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="102"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/><sp/><sp/>VRNA_GQUAD_DB_SYMBOL_END<sp/><sp/>&apos;~&apos;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="103"><highlight class="normal"></highlight></codeline>
<codeline lineno="117"><highlight class="normal"></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*</highlight></codeline>
<codeline lineno="118" refid="group__struct__utils__dot__bracket_1ga9db9613100e9f750017d3e13a874bb7d" refkind="member"><highlight class="normal"><ref refid="group__struct__utils__dot__bracket_1ga9db9613100e9f750017d3e13a874bb7d" kindref="member">vrna_db_pack</ref>(</highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*struc);</highlight></codeline>
<codeline lineno="119"><highlight class="normal"></highlight></codeline>
<codeline lineno="120"><highlight class="normal"></highlight></codeline>
<codeline lineno="132"><highlight class="normal"></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*</highlight></codeline>
<codeline lineno="133" refid="group__struct__utils__dot__bracket_1ga9c8c7296b5bb75f7d32c20dc004eb723" refkind="member"><highlight class="normal"><ref refid="group__struct__utils__dot__bracket_1ga9c8c7296b5bb75f7d32c20dc004eb723" kindref="member">vrna_db_unpack</ref>(</highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*packed);</highlight></codeline>
<codeline lineno="134"><highlight class="normal"></highlight></codeline>
<codeline lineno="135"><highlight class="normal"></highlight></codeline>
<codeline lineno="151"><highlight class="normal"></highlight><highlight class="keywordtype">void</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="152" refid="group__struct__utils__dot__bracket_1gafd1304f5a86e2e3f1425e725cde44fa2" refkind="member"><highlight class="normal"><ref refid="group__struct__utils__dot__bracket_1gafd1304f5a86e2e3f1425e725cde44fa2" kindref="member">vrna_db_flatten</ref>(</highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>*structure,</highlight></codeline>
<codeline lineno="153"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/>options);</highlight></codeline>
<codeline lineno="154"><highlight class="normal"></highlight></codeline>
<codeline lineno="155"><highlight class="normal"></highlight></codeline>
<codeline lineno="175"><highlight class="normal"></highlight><highlight class="keywordtype">void</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="176" refid="group__struct__utils__dot__bracket_1ga690425199c8b71545e7196e3af1436f8" refkind="member"><highlight class="normal"><ref refid="group__struct__utils__dot__bracket_1ga690425199c8b71545e7196e3af1436f8" kindref="member">vrna_db_flatten_to</ref>(</highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>*</highlight><highlight class="keywordtype">string</highlight><highlight class="normal">,</highlight></codeline>
<codeline lineno="177"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/><sp/><sp/>target[3],</highlight></codeline>
<codeline lineno="178"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/>options);</highlight></codeline>
<codeline lineno="179"><highlight class="normal"></highlight></codeline>
<codeline lineno="180"><highlight class="normal"></highlight></codeline>
<codeline lineno="198"><highlight class="normal"></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*</highlight></codeline>
<codeline lineno="199" refid="group__struct__utils__dot__bracket_1ga3f43bc74c6d785236cece6451996fcc3" refkind="member"><highlight class="normal"><ref refid="group__struct__utils__dot__bracket_1ga3f43bc74c6d785236cece6451996fcc3" kindref="member">vrna_db_from_ptable</ref>(</highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">short</highlight><highlight class="normal"><sp/>*pt);</highlight></codeline>
<codeline lineno="200"><highlight class="normal"></highlight></codeline>
<codeline lineno="201"><highlight class="normal"></highlight></codeline>
<codeline lineno="212"><highlight class="normal"></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*</highlight></codeline>
<codeline lineno="213" refid="group__struct__utils__dot__bracket_1ga38f267a2a22f7d564dcdc449c1fd96ca" refkind="member"><highlight class="normal"><ref refid="group__struct__utils__dot__bracket_1ga38f267a2a22f7d564dcdc449c1fd96ca" kindref="member">vrna_db_from_plist</ref>(<ref refid="group__struct__utils__plist_1gab9ac98ab55ded9fb90043b024b915aca" kindref="member">vrna_ep_t</ref><sp/><sp/><sp/><sp/>*<ref refid="group__struct__utils__deprecated_1ga6341cbb704924824e0236c1dce791032" kindref="member">pairs</ref>,</highlight></codeline>
<codeline lineno="214"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/>n);</highlight></codeline>
<codeline lineno="215"><highlight class="normal"></highlight></codeline>
<codeline lineno="216"><highlight class="normal"></highlight></codeline>
<codeline lineno="223"><highlight class="normal"></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*</highlight></codeline>
<codeline lineno="224" refid="group__struct__utils__dot__bracket_1ga0689c339dc8c7ce35a31b031067370de" refkind="member"><highlight class="normal"><ref refid="group__struct__utils__dot__bracket_1ga0689c339dc8c7ce35a31b031067370de" kindref="member">vrna_db_to_element_string</ref>(</highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*structure);</highlight></codeline>
<codeline lineno="225"><highlight class="normal"></highlight></codeline>
<codeline lineno="226"><highlight class="normal"></highlight></codeline>
<codeline lineno="258"><highlight class="normal"></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*</highlight></codeline>
<codeline lineno="259" refid="group__struct__utils__dot__bracket_1ga97dbebaa3fc49524cf5afa338a6c52ee" refkind="member"><highlight class="normal"><ref refid="group__struct__utils__dot__bracket_1ga97dbebaa3fc49524cf5afa338a6c52ee" kindref="member">vrna_db_pk_remove</ref>(</highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*structure,</highlight></codeline>
<codeline lineno="260"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/>options);</highlight></codeline>
<codeline lineno="261"><highlight class="normal"></highlight></codeline>
<codeline lineno="262"><highlight class="normal"></highlight><highlight class="comment">/*<sp/>End<sp/>dot-bracket<sp/>interface<sp/>*/</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="264"><highlight class="normal"></highlight></codeline>
<codeline lineno="265"><highlight class="normal"></highlight></codeline>
<codeline lineno="270"><highlight class="normal"></highlight></codeline>
<codeline lineno="280"><highlight class="normal"></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*</highlight></codeline>
<codeline lineno="281" refid="group__struct__utils__wuss_1ga68e657cbbb1db0d435728e9f8c682d26" refkind="member"><highlight class="normal"><ref refid="group__struct__utils__wuss_1ga68e657cbbb1db0d435728e9f8c682d26" kindref="member">vrna_db_from_WUSS</ref>(</highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*wuss);</highlight></codeline>
<codeline lineno="282"><highlight class="normal"></highlight></codeline>
<codeline lineno="283"><highlight class="normal"></highlight></codeline>
<codeline lineno="284"><highlight class="normal"></highlight><highlight class="comment">/*<sp/>End<sp/>WUSS<sp/>notation<sp/>interface<sp/>*/</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="286"><highlight class="normal"></highlight></codeline>
<codeline lineno="287"><highlight class="normal"></highlight></codeline>
<codeline lineno="292"><highlight class="normal"></highlight></codeline>
<codeline lineno="296"><highlight class="normal"></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/>*</highlight></codeline>
<codeline lineno="297" refid="group__struct__utils_1ga8a2c825d6a9c2d73329b6c09320a6a90" refkind="member"><highlight class="normal"><ref refid="group__struct__utils_1ga8a2c825d6a9c2d73329b6c09320a6a90" kindref="member">vrna_loopidx_from_ptable</ref>(</highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">short</highlight><highlight class="normal"><sp/>*pt);</highlight></codeline>
<codeline lineno="298"><highlight class="normal"></highlight></codeline>
<codeline lineno="300"><highlight class="normal"></highlight></codeline>
<codeline lineno="301"><highlight class="normal"></highlight></codeline>
<codeline lineno="306"><highlight class="normal"></highlight></codeline>
<codeline lineno="310"><highlight class="normal"></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*</highlight></codeline>
<codeline lineno="311" refid="group__struct__utils_1gacb5f1fafaf20eaf6a63052153499f0bb" refkind="member"><highlight class="normal"><ref refid="group__struct__utils_1gacb5f1fafaf20eaf6a63052153499f0bb" kindref="member">vrna_db_from_probs</ref>(</highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/><ref refid="group__data__structures_1ga31125aeace516926bf7f251f759b6126" kindref="member">FLT_OR_DBL</ref><sp/>*<ref refid="fold__vars_8h_1ac98ec419070aee6831b44e5c700f090f" kindref="member">pr</ref>,</highlight></codeline>
<codeline lineno="312"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>length);</highlight></codeline>
<codeline lineno="313"><highlight class="normal"></highlight></codeline>
<codeline lineno="314"><highlight class="normal"></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*</highlight></codeline>
<codeline lineno="315"><highlight class="normal">vrna_pairing_tendency(<ref refid="group__fold__compound_1ga1b0cef17fd40466cef5968eaeeff6166" kindref="member">vrna_fold_compound_t</ref><sp/>*fc);</highlight></codeline>
<codeline lineno="316"><highlight class="normal"></highlight></codeline>
<codeline lineno="317"><highlight class="normal"></highlight></codeline>
<codeline lineno="321"><highlight class="normal"></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="322" refid="group__struct__utils_1ga025bff1b27fa46534c8fae6980f64bb5" refkind="member"><highlight class="normal"><ref refid="group__struct__utils_1ga025bff1b27fa46534c8fae6980f64bb5" kindref="member">vrna_bpp_symbol</ref>(</highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>*x);</highlight></codeline>
<codeline lineno="323"><highlight class="normal"></highlight></codeline>
<codeline lineno="324"><highlight class="normal"></highlight></codeline>
<codeline lineno="336"><highlight class="normal"></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*</highlight></codeline>
<codeline lineno="337" refid="group__struct__utils_1ga29d5a2517277a5b7eba6c8a101555ef4" refkind="member"><highlight class="normal"><ref refid="group__struct__utils_1ga29d5a2517277a5b7eba6c8a101555ef4" kindref="member">vrna_db_from_bps</ref>(<ref refid="group__data__structures__bt_1ga9452b56292759e4264eb888ed3cc8655" kindref="member">vrna_bps_t</ref><sp/><sp/><sp/>bp_stack,</highlight></codeline>
<codeline lineno="338"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/>length);</highlight></codeline>
<codeline lineno="339"><highlight class="normal"></highlight></codeline>
<codeline lineno="351"><highlight class="normal"></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*</highlight></codeline>
<codeline lineno="352" refid="group__struct__utils_1ga807dbe2fdefa8a482cdad46520908464" refkind="member"><highlight class="normal"><ref refid="group__struct__utils_1ga807dbe2fdefa8a482cdad46520908464" kindref="member">vrna_db_from_bp_stack</ref>(<ref refid="structvrna__bp__stack__t" kindref="compound">vrna_bp_stack_t</ref><sp/>*bp,</highlight></codeline>
<codeline lineno="353"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/>length);</highlight></codeline>
<codeline lineno="354"><highlight class="normal"></highlight></codeline>
<codeline lineno="355"><highlight class="normal"></highlight></codeline>
<codeline lineno="356"><highlight class="normal"></highlight><highlight class="keywordtype">void</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="357"><highlight class="normal">vrna_letter_structure(</highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>*structure,</highlight></codeline>
<codeline lineno="358"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><ref refid="structvrna__bp__stack__t" kindref="compound">vrna_bp_stack_t</ref><sp/>*bp,</highlight></codeline>
<codeline lineno="359"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/>length);</highlight></codeline>
<codeline lineno="360"><highlight class="normal"></highlight></codeline>
<codeline lineno="361"><highlight class="normal"></highlight></codeline>
<codeline lineno="363"><highlight class="normal"></highlight></codeline>
<codeline lineno="398"><highlight class="normal"></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="399" refid="group__gquad__parse_1gaef509be75de5e229c3e710cd819dc4ca" refkind="member"><highlight class="normal"><ref refid="group__gquad__parse_1gaef509be75de5e229c3e710cd819dc4ca" kindref="member">vrna_gq_parse</ref>(</highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*db_string,</highlight></codeline>
<codeline lineno="400"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/>*L,</highlight></codeline>
<codeline lineno="401"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/>l[3]);</highlight></codeline>
<codeline lineno="402"><highlight class="normal"></highlight></codeline>
<codeline lineno="403"><highlight class="normal"></highlight><highlight class="keywordtype">void</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="404"><highlight class="normal">vrna_db_insert_gq(</highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>*db,</highlight></codeline>
<codeline lineno="405"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/>i,</highlight></codeline>
<codeline lineno="406"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/>L,</highlight></codeline>
<codeline lineno="407"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/>l[3],</highlight></codeline>
<codeline lineno="408"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/>n);</highlight></codeline>
<codeline lineno="409"><highlight class="normal"></highlight></codeline>
<codeline lineno="411"><highlight class="normal"></highlight></codeline>
<codeline lineno="412"><highlight class="normal"></highlight><highlight class="preprocessor">#ifndef<sp/>VRNA_DISABLE_BACKWARD_COMPATIBILITY</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="413"><highlight class="normal"></highlight></codeline>
<codeline lineno="414"><highlight class="normal"></highlight><highlight class="comment">/*###########################################*/</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="415"><highlight class="normal"></highlight><highlight class="comment">/*#<sp/>deprecated<sp/>functions<sp/>below<sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>#*/</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="416"><highlight class="normal"></highlight><highlight class="comment">/*###########################################*/</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="417"><highlight class="normal"></highlight></codeline>
<codeline lineno="431"><highlight class="normal">DEPRECATED(</highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*<ref refid="group__struct__utils__deprecated_1ga99e8565f0e7eb7c59a100841d50d7ee5" kindref="member">pack_structure</ref>(</highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*struc),</highlight></codeline>
<codeline lineno="432" refid="group__struct__utils__deprecated_1ga99e8565f0e7eb7c59a100841d50d7ee5" refkind="member"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="stringliteral">&quot;Use<sp/>vrna_db_pack()<sp/>instead&quot;</highlight><highlight class="normal">);</highlight></codeline>
<codeline lineno="433"><highlight class="normal"></highlight></codeline>
<codeline lineno="445"><highlight class="normal">DEPRECATED(</highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*<ref refid="group__struct__utils__deprecated_1ga288130063fdf28acbe3c2ce3e826cf4b" kindref="member">unpack_structure</ref>(</highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*packed),</highlight></codeline>
<codeline lineno="446" refid="group__struct__utils__deprecated_1ga288130063fdf28acbe3c2ce3e826cf4b" refkind="member"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="stringliteral">&quot;Use<sp/>vrna_db_unpack()<sp/>instead&quot;</highlight><highlight class="normal">);</highlight></codeline>
<codeline lineno="447"><highlight class="normal"></highlight></codeline>
<codeline lineno="456"><highlight class="normal">DEPRECATED(</highlight><highlight class="keywordtype">void</highlight><highlight class="normal"><sp/><ref refid="group__struct__utils__deprecated_1gadf0ad2d46c9ca7b850437d1b79627a7e" kindref="member">parenthesis_structure</ref>(</highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>*structure,</highlight></codeline>
<codeline lineno="457"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><ref refid="structvrna__bp__stack__t" kindref="compound">vrna_bp_stack_t</ref><sp/>*bp,</highlight></codeline>
<codeline lineno="458"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>length),</highlight></codeline>
<codeline lineno="459" refid="group__struct__utils__deprecated_1gadf0ad2d46c9ca7b850437d1b79627a7e" refkind="member"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="stringliteral">&quot;Use<sp/>vrna_parenthesis_structure()<sp/>instead&quot;</highlight><highlight class="normal">);</highlight></codeline>
<codeline lineno="460"><highlight class="normal"></highlight></codeline>
<codeline lineno="470"><highlight class="normal">DEPRECATED(</highlight><highlight class="keywordtype">void</highlight><highlight class="normal"><sp/><ref refid="group__struct__utils__deprecated_1gab9c5c8311bd5120900585d4fa50c2df0" kindref="member">parenthesis_zuker</ref>(</highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>*structure,</highlight></codeline>
<codeline lineno="471"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><ref refid="structvrna__bp__stack__t" kindref="compound">vrna_bp_stack_t</ref><sp/>*bp,</highlight></codeline>
<codeline lineno="472"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>length),</highlight></codeline>
<codeline lineno="473" refid="group__struct__utils__deprecated_1gab9c5c8311bd5120900585d4fa50c2df0" refkind="member"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="stringliteral">&quot;Use<sp/>vrna_parenthesis_zuker()<sp/>instead&quot;</highlight><highlight class="normal">);</highlight></codeline>
<codeline lineno="474"><highlight class="normal"></highlight></codeline>
<codeline lineno="475"><highlight class="normal">DEPRECATED(</highlight><highlight class="keywordtype">void</highlight><highlight class="normal"><sp/>letter_structure(</highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>*structure,</highlight></codeline>
<codeline lineno="476"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><ref refid="structvrna__bp__stack__t" kindref="compound">vrna_bp_stack_t</ref><sp/><sp/>*bp,</highlight></codeline>
<codeline lineno="477"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>length),</highlight></codeline>
<codeline lineno="478"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="stringliteral">&quot;Use<sp/>vrna_letter_structure()<sp/>instead&quot;</highlight><highlight class="normal">);</highlight></codeline>
<codeline lineno="479"><highlight class="normal"></highlight></codeline>
<codeline lineno="485"><highlight class="normal">DEPRECATED(</highlight><highlight class="keywordtype">void</highlight><highlight class="normal"><sp/><sp/><ref refid="group__struct__utils__deprecated_1ga129d81c4a1ead793c5b2311333e03dfa" kindref="member">bppm_to_structure</ref>(</highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>*structure,</highlight></codeline>
<codeline lineno="486"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><ref refid="group__data__structures_1ga31125aeace516926bf7f251f759b6126" kindref="member">FLT_OR_DBL</ref><sp/><sp/><sp/>*<ref refid="fold__vars_8h_1ac98ec419070aee6831b44e5c700f090f" kindref="member">pr</ref>,</highlight></codeline>
<codeline lineno="487"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/>length),</highlight></codeline>
<codeline lineno="488" refid="group__struct__utils__deprecated_1ga129d81c4a1ead793c5b2311333e03dfa" refkind="member"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="stringliteral">&quot;Use<sp/>vrna_db_from_probs()<sp/>instead&quot;</highlight><highlight class="normal">);</highlight></codeline>
<codeline lineno="489"><highlight class="normal"></highlight></codeline>
<codeline lineno="495"><highlight class="normal">DEPRECATED(</highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><ref refid="group__struct__utils__deprecated_1ga49962ad6242b8c628de6ca16bb831c1d" kindref="member">bppm_symbol</ref>(</highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>*x),</highlight></codeline>
<codeline lineno="496" refid="group__struct__utils__deprecated_1ga49962ad6242b8c628de6ca16bb831c1d" refkind="member"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="stringliteral">&quot;Use<sp/>vrna_bpp_symbol()<sp/>instead&quot;</highlight><highlight class="normal">);</highlight></codeline>
<codeline lineno="497"><highlight class="normal"></highlight></codeline>
<codeline lineno="502"><highlight class="normal"></highlight></codeline>
<codeline lineno="515"><highlight class="normal">DEPRECATED(</highlight><highlight class="keywordtype">int</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="516"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><ref refid="group__gquad__deprecated_1gae41763215b9c64d2a7b67f0df8a28078" kindref="member">parse_gquad</ref>(</highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*struc,</highlight></codeline>
<codeline lineno="517"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>*L,</highlight></codeline>
<codeline lineno="518"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>l[3]),</highlight></codeline>
<codeline lineno="519" refid="group__gquad__deprecated_1gae41763215b9c64d2a7b67f0df8a28078" refkind="member"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="stringliteral">&quot;Use<sp/>vrna_gq_parse()<sp/>instead&quot;</highlight><highlight class="normal">);</highlight></codeline>
<codeline lineno="520"><highlight class="normal"></highlight></codeline>
<codeline lineno="521"><highlight class="normal"></highlight></codeline>
<codeline lineno="525"><highlight class="normal"></highlight></codeline>
<codeline lineno="526"><highlight class="normal"></highlight><highlight class="preprocessor">#endif</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="527"><highlight class="normal"></highlight></codeline>
<codeline lineno="528"><highlight class="normal"></highlight><highlight class="preprocessor">#endif</highlight></codeline>
    </programlisting>
    <location file="ViennaRNA/structures/dotbracket.h"/>
  </compounddef>
</doxygen>
