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  <compounddef id="tree_8h" kind="file" language="C++">
    <compoundname>tree.h</compoundname>
    <includedby refid="structure__utils_8h" local="no">ViennaRNA/structure_utils.h</includedby>
    <includedby refid="utils_2structures_8h" local="no">ViennaRNA/utils/structures.h</includedby>
    <invincdepgraph>
      <node id="2">
        <label>ViennaRNA/structure_utils.h</label>
        <link refid="structure__utils_8h"/>
      </node>
      <node id="1">
        <label>ViennaRNA/structures/tree.h</label>
        <link refid="tree_8h"/>
        <childnode refid="2" relation="include">
        </childnode>
        <childnode refid="3" relation="include">
        </childnode>
      </node>
      <node id="4">
        <label>ViennaRNA/utils.h</label>
        <link refid="utils_8h"/>
      </node>
      <node id="3">
        <label>ViennaRNA/utils/structures.h</label>
        <link refid="utils_2structures_8h"/>
        <childnode refid="4" relation="include">
        </childnode>
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    <sectiondef kind="define">
      <memberdef kind="define" id="tree_8h_1aab347a3c03fbe8e7319551b9fa0cce4a" prot="public" static="no">
        <name>DEPRECATED</name>
        <param><defname>func   </defname></param>
        <param><defname>msg</defname></param>
        <initializer>func</initializer>
        <briefdescription>
        </briefdescription>
        <detaileddescription>
        </detaileddescription>
        <inbodydescription>
        </inbodydescription>
        <location file="ViennaRNA/structures/tree.h" line="13" column="11" bodyfile="ViennaRNA/structures/tree.h" bodystart="13" bodyend="-1"/>
      </memberdef>
      <member refid="group__struct__utils__tree_1ga3ad5609bc93ef20034c3ab989365c1f0" kind="define"><name>VRNA_STRUCTURE_TREE_HIT</name></member>
      <member refid="group__struct__utils__tree_1ga549e259a963d77e2d5b7e14083fc016e" kind="define"><name>VRNA_STRUCTURE_TREE_SHAPIRO_SHORT</name></member>
      <member refid="group__struct__utils__tree_1ga4acd9991a0250ccd4cd44c4725b31927" kind="define"><name>VRNA_STRUCTURE_TREE_SHAPIRO</name></member>
      <member refid="group__struct__utils__tree_1ga8666a10982a4f7a26892066ff07b4b48" kind="define"><name>VRNA_STRUCTURE_TREE_SHAPIRO_EXT</name></member>
      <member refid="group__struct__utils__tree_1ga91f2e3a3a502d5445fd7fe5983a5fe92" kind="define"><name>VRNA_STRUCTURE_TREE_SHAPIRO_WEIGHT</name></member>
      <member refid="group__struct__utils__tree_1gab3b65489d1322da65d3a3e53242307ef" kind="define"><name>VRNA_STRUCTURE_TREE_EXPANDED</name></member>
    </sectiondef>
    <sectiondef kind="func">
      <member refid="group__struct__utils__tree_1ga6a315cabbaf0868d640dfc9d922f0393" kind="function"><name>vrna_db_to_tree_string</name></member>
      <member refid="group__struct__utils__tree_1ga6531febe012d26927a87fae9e7bb4e76" kind="function"><name>vrna_tree_string_unweight</name></member>
      <member refid="group__struct__utils__tree_1ga33f017d7a065a92a1055a818b0ccbef4" kind="function"><name>vrna_tree_string_to_db</name></member>
    </sectiondef>
    <briefdescription>
<para>Various utility- and helper-functions for secondary structure parsing, converting, etc. </para>
    </briefdescription>
    <detaileddescription>
    </detaileddescription>
    <programlisting>
<codeline lineno="1"><highlight class="preprocessor">#ifndef<sp/>VIENNA_RNA_PACKAGE_STRUCTURES_TREE_H</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="2"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/>VIENNA_RNA_PACKAGE_STRUCTURES_TREE_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></codeline>
<codeline lineno="27"><highlight class="normal"></highlight></codeline>
<codeline lineno="32" refid="group__struct__utils__tree_1ga3ad5609bc93ef20034c3ab989365c1f0" refkind="member"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/><sp/><sp/>VRNA_STRUCTURE_TREE_HIT<sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>1U</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="33"><highlight class="normal"></highlight></codeline>
<codeline lineno="34"><highlight class="normal"></highlight></codeline>
<codeline lineno="39" refid="group__struct__utils__tree_1ga549e259a963d77e2d5b7e14083fc016e" refkind="member"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/><sp/><sp/>VRNA_STRUCTURE_TREE_SHAPIRO_SHORT<sp/><sp/><sp/>2U</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="40"><highlight class="normal"></highlight></codeline>
<codeline lineno="41"><highlight class="normal"></highlight></codeline>
<codeline lineno="46" refid="group__struct__utils__tree_1ga4acd9991a0250ccd4cd44c4725b31927" refkind="member"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/><sp/><sp/>VRNA_STRUCTURE_TREE_SHAPIRO<sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>3U</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="47"><highlight class="normal"></highlight></codeline>
<codeline lineno="48"><highlight class="normal"></highlight></codeline>
<codeline lineno="53" refid="group__struct__utils__tree_1ga8666a10982a4f7a26892066ff07b4b48" refkind="member"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/><sp/><sp/>VRNA_STRUCTURE_TREE_SHAPIRO_EXT<sp/><sp/><sp/><sp/><sp/>4U</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="54"><highlight class="normal"></highlight></codeline>
<codeline lineno="55"><highlight class="normal"></highlight></codeline>
<codeline lineno="60" refid="group__struct__utils__tree_1ga91f2e3a3a502d5445fd7fe5983a5fe92" refkind="member"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/><sp/><sp/>VRNA_STRUCTURE_TREE_SHAPIRO_WEIGHT<sp/><sp/>5U</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="61"><highlight class="normal"></highlight></codeline>
<codeline lineno="66" refid="group__struct__utils__tree_1gab3b65489d1322da65d3a3e53242307ef" refkind="member"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/><sp/><sp/>VRNA_STRUCTURE_TREE_EXPANDED<sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>6U</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="67"><highlight class="normal"></highlight></codeline>
<codeline lineno="68"><highlight class="normal"></highlight></codeline>
<codeline lineno="98"><highlight class="normal"></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*</highlight></codeline>
<codeline lineno="99" refid="group__struct__utils__tree_1ga6a315cabbaf0868d640dfc9d922f0393" refkind="member"><highlight class="normal"><ref refid="group__struct__utils__tree_1ga6a315cabbaf0868d640dfc9d922f0393" kindref="member">vrna_db_to_tree_string</ref>(</highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/><sp/><sp/>*structure,</highlight></codeline>
<codeline lineno="100"><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">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/>type);</highlight></codeline>
<codeline lineno="101"><highlight class="normal"></highlight></codeline>
<codeline lineno="102"><highlight class="normal"></highlight></codeline>
<codeline lineno="114"><highlight class="normal"></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*</highlight></codeline>
<codeline lineno="115" refid="group__struct__utils__tree_1ga6531febe012d26927a87fae9e7bb4e76" refkind="member"><highlight class="normal"><ref refid="group__struct__utils__tree_1ga6531febe012d26927a87fae9e7bb4e76" kindref="member">vrna_tree_string_unweight</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="116"><highlight class="normal"></highlight></codeline>
<codeline lineno="117"><highlight class="normal"></highlight></codeline>
<codeline lineno="129"><highlight class="normal"></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*</highlight></codeline>
<codeline lineno="130" refid="group__struct__utils__tree_1ga33f017d7a065a92a1055a818b0ccbef4" refkind="member"><highlight class="normal"><ref refid="group__struct__utils__tree_1ga33f017d7a065a92a1055a818b0ccbef4" kindref="member">vrna_tree_string_to_db</ref>(</highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/>*tree);</highlight></codeline>
<codeline lineno="131"><highlight class="normal"></highlight></codeline>
<codeline lineno="132"><highlight class="normal"></highlight></codeline>
<codeline lineno="133"><highlight class="normal"></highlight><highlight class="comment">/*<sp/>End<sp/>tree<sp/>representations<sp/>*/</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="135"><highlight class="normal"></highlight></codeline>
<codeline lineno="136"><highlight class="normal"></highlight></codeline>
<codeline lineno="137"><highlight class="normal"></highlight><highlight class="preprocessor">#endif</highlight></codeline>
    </programlisting>
    <location file="ViennaRNA/structures/tree.h"/>
  </compounddef>
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