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        </childnode>
      </node>
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        <label>ViennaRNA/probing/SHAPE.h</label>
        <link refid="probing_2SHAPE_8h"/>
        <childnode refid="95" relation="include">
        </childnode>
        <childnode refid="96" relation="include">
        </childnode>
      </node>
      <node id="97">
        <label>ViennaRNA/probing/basic.h</label>
        <link refid="probing_2basic_8h"/>
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        </childnode>
        <childnode refid="98" relation="include">
        </childnode>
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        </childnode>
        <childnode refid="101" relation="include">
        </childnode>
      </node>
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        <label>ViennaRNA/probing/strategy_deigan.h</label>
        <link refid="strategy__deigan_8h"/>
      </node>
      <node id="99">
        <label>ViennaRNA/probing/strategy_eddy.h</label>
        <link refid="strategy__eddy_8h"/>
      </node>
      <node id="100">
        <label>ViennaRNA/probing/strategy_nlogp.h</label>
        <link refid="strategy__nlogp_8h"/>
      </node>
      <node id="101">
        <label>ViennaRNA/probing/strategy_zarringhalam.h</label>
        <link refid="strategy__zarringhalam_8h"/>
      </node>
      <node id="135">
        <label>ViennaRNA/profiledist.h</label>
        <link refid="profiledist_8h"/>
      </node>
      <node id="102">
        <label>ViennaRNA/sampling/basic.h</label>
        <link refid="sampling_2basic_8h"/>
        <childnode refid="7" relation="include">
        </childnode>
        <childnode refid="103" relation="include">
        </childnode>
        <childnode refid="78" relation="include">
        </childnode>
      </node>
      <node id="111">
        <label>ViennaRNA/sequence.h</label>
        <link refid="sequence_8h"/>
      </node>
      <node id="104">
        <label>ViennaRNA/sequences/alignments.h</label>
        <link refid="sequences_2alignments_8h_source"/>
        <childnode refid="7" relation="include">
        </childnode>
        <childnode refid="105" relation="include">
        </childnode>
        <childnode refid="106" relation="include">
        </childnode>
      </node>
      <node id="107">
        <label>ViennaRNA/sequences/alphabet.h</label>
        <link refid="sequences_2alphabet_8h"/>
        <childnode refid="108" relation="include">
        </childnode>
        <childnode refid="45" relation="include">
        </childnode>
        <childnode refid="65" relation="include">
        </childnode>
      </node>
      <node id="110">
        <label>ViennaRNA/sequences/sequence.h</label>
        <link refid="sequences_2sequence_8h"/>
        <childnode refid="34" relation="include">
        </childnode>
        <childnode refid="111" relation="include">
        </childnode>
      </node>
      <node id="136">
        <label>ViennaRNA/snofold.h</label>
        <link refid="snofold_8h_source"/>
      </node>
      <node id="137">
        <label>ViennaRNA/snoop.h</label>
        <link refid="snoop_8h_source"/>
      </node>
      <node id="144">
        <label>ViennaRNA/string_utils.h</label>
        <link refid="string__utils_8h"/>
      </node>
      <node id="139">
        <label>ViennaRNA/structure_utils.h</label>
        <link refid="structure__utils_8h"/>
      </node>
      <node id="138">
        <label>ViennaRNA/structures/benchmark.h</label>
        <link refid="benchmark_8h"/>
        <childnode refid="139" relation="include">
        </childnode>
        <childnode refid="140" relation="include">
        </childnode>
      </node>
      <node id="112">
        <label>ViennaRNA/structures/centroid.h</label>
        <link refid="structures_2centroid_8h"/>
        <childnode refid="113" relation="include">
        </childnode>
      </node>
      <node id="83">
        <label>ViennaRNA/structures/mea.h</label>
        <link refid="mea_8h_source"/>
        <childnode refid="84" relation="include">
        </childnode>
      </node>
      <node id="86">
        <label>ViennaRNA/subopt.h</label>
        <link refid="subopt_8h"/>
      </node>
      <node id="114">
        <label>ViennaRNA/subopt/gquad.h</label>
        <link refid="subopt_2gquad_8h"/>
      </node>
      <node id="85">
        <label>ViennaRNA/subopt/wuchty.h</label>
        <link refid="wuchty_8h"/>
        <childnode refid="86" relation="include">
        </childnode>
      </node>
      <node id="115">
        <label>ViennaRNA/subopt/zuker.h</label>
        <link refid="zuker_8h_source"/>
        <childnode refid="116" relation="include">
        </childnode>
      </node>
      <node id="116">
        <label>ViennaRNA/subopt_zuker.h</label>
        <link refid="subopt__zuker_8h"/>
      </node>
      <node id="117">
        <label>ViennaRNA/unstructured_domains.h</label>
        <link refid="unstructured__domains_8h"/>
        <childnode refid="1" relation="include">
        </childnode>
        <childnode refid="34" relation="include">
        </childnode>
      </node>
      <node id="109">
        <label>ViennaRNA/utils.h</label>
        <link refid="utils_8h"/>
      </node>
      <node id="106">
        <label>ViennaRNA/utils/alignments.h</label>
        <link refid="utils_2alignments_8h"/>
      </node>
      <node id="141">
        <label>ViennaRNA/utils/basic.h</label>
        <link refid="utils_2basic_8h"/>
        <childnode refid="18" relation="include">
        </childnode>
        <childnode refid="21" relation="include">
        </childnode>
        <childnode refid="24" relation="include">
        </childnode>
        <childnode refid="46" relation="include">
        </childnode>
        <childnode refid="33" relation="include">
        </childnode>
        <childnode refid="47" relation="include">
        </childnode>
        <childnode refid="66" relation="include">
        </childnode>
        <childnode refid="70" relation="include">
        </childnode>
        <childnode refid="121" relation="include">
        </childnode>
        <childnode refid="142" relation="include">
        </childnode>
        <childnode refid="40" relation="include">
        </childnode>
        <childnode refid="79" relation="include">
        </childnode>
        <childnode refid="109" relation="include">
        </childnode>
      </node>
      <node id="143">
        <label>ViennaRNA/utils/strings.h</label>
        <link refid="strings_8h"/>
        <childnode refid="144" relation="include">
        </childnode>
        <childnode refid="109" relation="include">
        </childnode>
      </node>
      <node id="140">
        <label>ViennaRNA/utils/structures.h</label>
        <link refid="utils_2structures_8h"/>
        <childnode refid="109" relation="include">
        </childnode>
      </node>
      <node id="60">
        <label>ViennaRNA/walk.h</label>
        <link refid="walk_8h"/>
      </node>
    </invincdepgraph>
    <innerclass refid="structvrna__basepair__t" prot="public">vrna_basepair_t</innerclass>
    <innerclass refid="structvrna__bp__stack__t" prot="public">vrna_bp_stack_t</innerclass>
    <innerclass refid="structvrna__cpair__s" prot="public">vrna_cpair_s</innerclass>
    <innerclass refid="structvrna__color__s" prot="public">vrna_color_s</innerclass>
    <innerclass refid="structvrna__data__linear__s" prot="public">vrna_data_linear_s</innerclass>
    <innerclass refid="structpu__contrib" prot="public">pu_contrib</innerclass>
    <innerclass refid="structinteract" prot="public">interact</innerclass>
    <innerclass refid="structpu__out" prot="public">pu_out</innerclass>
    <innerclass refid="structconstrain" prot="public">constrain</innerclass>
    <innerclass refid="structduplexT" prot="public">duplexT</innerclass>
    <innerclass refid="structnode" prot="public">node</innerclass>
    <innerclass refid="structsnoopT" prot="public">snoopT</innerclass>
    <innerclass refid="structdupVar" prot="public">dupVar</innerclass>
    <innerclass refid="structvrna__sect__s" prot="public">vrna_sect_s</innerclass>
    <innerclass refid="structvrna__basepair__s" prot="public">vrna_basepair_s</innerclass>
    <sectiondef kind="typedef">
      <member refid="group__data__structures_1ga5bd6f0d16685b1249b7c3b73049dd5dc" kind="typedef"><name>vrna_plist_t</name></member>
      <member refid="group__data__structures_1gae4fc91141cc69c6d8eaf1332cb991ecc" kind="typedef"><name>vrna_cpair_t</name></member>
      <member refid="group__data__structures_1gaab843d6cdafd5433e3f6fa3b834d12f9" kind="typedef"><name>vrna_data_lin_t</name></member>
      <member refid="group__data__structures_1gaed93ddf2ef6b26141a89f9a65b9426b9" kind="typedef"><name>vrna_color_t</name></member>
      <member refid="group__data__structures_1ga31125aeace516926bf7f251f759b6126" kind="typedef"><name>FLT_OR_DBL</name></member>
      <member refid="group__data__structures_1ga4381025ffbd692e54189b2c679c79c99" kind="typedef"><name>PAIR</name></member>
      <member refid="group__data__structures_1ga9608eed021ebfbdd7a901cfdc446c8e9" kind="typedef"><name>plist</name></member>
      <member refid="group__data__structures_1ga8412f116a2eb07b59ade9e14ca7c5ef1" kind="typedef"><name>cpair</name></member>
      <member refid="group__data__structures_1gaaacedee1f05d3d45aa6764eca51a8876" kind="typedef"><name>sect</name></member>
      <member refid="group__data__structures_1ga6114174c02666861dc12e1f8db32a17e" kind="typedef"><name>bondT</name></member>
      <member refid="group__data__structures__bt_1ga79fec76412a4fd843e3d4baf87118f14" kind="typedef"><name>vrna_bts_t</name></member>
      <member refid="group__data__structures__bt_1ga9452b56292759e4264eb888ed3cc8655" kind="typedef"><name>vrna_bps_t</name></member>
      <member refid="group__data__structures__bt_1ga01442581d60780d905993768e2efa98d" kind="typedef"><name>vrna_bp_t</name></member>
      <member refid="group__data__structures__bt_1gacc9cdae790dac75a7024e7069c0d4400" kind="typedef"><name>vrna_sect_t</name></member>
      <member refid="group__data__structures_1ga8f28b2ff98fb3f7a139c50fda3d01a77" kind="typedef"><name>pu_contrib</name></member>
      <member refid="group__data__structures_1ga2d25e7fc868ebb4fa8b5bfec1c5eb771" kind="typedef"><name>interact</name></member>
      <member refid="group__data__structures_1gabc7a2003605bb458e161a391be3f2cbd" kind="typedef"><name>pu_out</name></member>
      <member refid="group__data__structures_1ga77624181a1c5caa27e9cf9f1da33604f" kind="typedef"><name>constrain</name></member>
      <member refid="group__data__structures_1ga520389d6980cd4ce9f2450e93e270944" kind="typedef"><name>folden</name></member>
      <member refid="group__data__structures_1gaa527b6c15d607e89f7107bbb24e70c4c" kind="typedef"><name>dupVar</name></member>
    </sectiondef>
    <sectiondef kind="func">
      <member refid="group__data__structures__bt_1ga0282b54896b38d6d53c8c3e42bfb6aff" kind="function"><name>vrna_bts_init</name></member>
      <member refid="group__data__structures__bt_1ga7cdef67681eff2cb6ef8b8be7bc9536a" kind="function"><name>vrna_bts_free</name></member>
      <member refid="group__data__structures__bt_1ga9f5687d82e4b2b4213431ed50c69985c" kind="function"><name>vrna_bts_push</name></member>
      <member refid="group__data__structures__bt_1ga7b0647a270f155c274a2b1a31dfbe303" kind="function"><name>vrna_bts_top</name></member>
      <member refid="group__data__structures__bt_1ga1f5f641d9db2419f26c8d11e735a828c" kind="function"><name>vrna_bts_pop</name></member>
      <member refid="group__data__structures__bt_1gab04c05287617c6a62372040e57e5baef" kind="function"><name>vrna_bts_size</name></member>
      <member refid="group__data__structures__bt_1ga34fafe57ae3fccaa6e6328bbd78c7b38" kind="function"><name>vrna_bps_init</name></member>
      <member refid="group__data__structures__bt_1ga76a6d13504ea3a9321a2fd8477d34039" kind="function"><name>vrna_bps_free</name></member>
      <member refid="group__data__structures__bt_1ga84c9b0f7fe3b7664eb00222320316050" kind="function"><name>vrna_bps_push</name></member>
      <member refid="group__data__structures__bt_1ga506a606916ee51789a7f3b899ae68adb" kind="function"><name>vrna_bps_top</name></member>
      <member refid="group__data__structures__bt_1ga1fc5da8296944496d5d9082bbd30a297" kind="function"><name>vrna_bps_pop</name></member>
      <member refid="group__data__structures__bt_1ga6ca54e333c6f0ad6d93c115e472ace40" kind="function"><name>vrna_bps_at</name></member>
      <member refid="group__data__structures__bt_1ga52014fbb171f9c1a06edbf8f0300fc71" kind="function"><name>vrna_bps_size</name></member>
      <member refid="group__data__structures_1ga21744ae2d6a17309f9327d3547cef0cb" kind="function"><name>vrna_C11_features</name></member>
    </sectiondef>
    <briefdescription>
<para>Various data structures and pre-processor macros. </para>
    </briefdescription>
    <detaileddescription>
    </detaileddescription>
    <programlisting>
<codeline lineno="1"><highlight class="preprocessor">#ifndef<sp/>VIENNA_RNA_PACKAGE_DATA_STRUCTURES_H</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="2"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/>VIENNA_RNA_PACKAGE_DATA_STRUCTURES_H</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="3"><highlight class="normal"></highlight></codeline>
<codeline lineno="9"><highlight class="normal"></highlight></codeline>
<codeline lineno="14"><highlight class="normal"></highlight></codeline>
<codeline lineno="15"><highlight class="normal"></highlight><highlight class="comment">/*<sp/>below<sp/>are<sp/>several<sp/>convenience<sp/>typedef&apos;s<sp/>we<sp/>use<sp/>throughout<sp/>the<sp/>ViennaRNA<sp/>library<sp/>*/</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="16"><highlight class="normal"></highlight></codeline>
<codeline lineno="18" refid="group__data__structures_1ga5bd6f0d16685b1249b7c3b73049dd5dc" refkind="member"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structvrna__elem__prob__s" kindref="compound">vrna_elem_prob_s</ref><sp/><ref refid="group__data__structures_1ga5bd6f0d16685b1249b7c3b73049dd5dc" kindref="member">vrna_plist_t</ref>;</highlight></codeline>
<codeline lineno="19"><highlight class="normal"></highlight></codeline>
<codeline lineno="21" refid="group__data__structures_1gae4fc91141cc69c6d8eaf1332cb991ecc" refkind="member"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structvrna__cpair__s" kindref="compound">vrna_cpair_s</ref><sp/><ref refid="group__data__structures_1gae4fc91141cc69c6d8eaf1332cb991ecc" kindref="member">vrna_cpair_t</ref>;</highlight></codeline>
<codeline lineno="22"><highlight class="normal"></highlight></codeline>
<codeline lineno="23"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structvrna__data__linear__s" kindref="compound">vrna_data_linear_s</ref><sp/>vrna_data_lin_t;</highlight></codeline>
<codeline lineno="24"><highlight class="normal"></highlight></codeline>
<codeline lineno="25"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structvrna__color__s" kindref="compound">vrna_color_s</ref><sp/>vrna_color_t;</highlight></codeline>
<codeline lineno="26"><highlight class="normal"></highlight></codeline>
<codeline lineno="28"><highlight class="normal"></highlight><highlight class="preprocessor">#ifdef<sp/><sp/>USE_FLOAT_PF</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="29"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/><ref refid="group__data__structures_1ga31125aeace516926bf7f251f759b6126" kindref="member">FLT_OR_DBL</ref>;</highlight></codeline>
<codeline lineno="30"><highlight class="normal"></highlight><highlight class="preprocessor">#else</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="31" refid="group__data__structures_1ga31125aeace516926bf7f251f759b6126" refkind="member"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><ref refid="group__data__structures_1ga31125aeace516926bf7f251f759b6126" kindref="member">FLT_OR_DBL</ref>;</highlight></codeline>
<codeline lineno="32"><highlight class="normal"></highlight><highlight class="preprocessor">#endif</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="33"><highlight class="normal"></highlight></codeline>
<codeline lineno="34"><highlight class="normal"></highlight></codeline>
<codeline lineno="35"><highlight class="normal"></highlight><highlight class="preprocessor">#ifndef<sp/>VRNA_DISABLE_BACKWARD_COMPATIBILITY</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="36"><highlight class="normal"></highlight></codeline>
<codeline lineno="37"><highlight class="normal"></highlight><highlight class="comment">/*<sp/>the<sp/>following<sp/>typedefs<sp/>are<sp/>for<sp/>backward<sp/>compatibility<sp/>only<sp/>*/</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="38"><highlight class="normal"></highlight></codeline>
<codeline lineno="42" refid="structvrna__basepair__t" refkind="compound"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal">{</highlight></codeline>
<codeline lineno="43"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/>i;</highlight></codeline>
<codeline lineno="44"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/>j;</highlight></codeline>
<codeline lineno="45"><highlight class="normal">}<sp/><ref refid="structvrna__basepair__t" kindref="compound">vrna_basepair_t</ref>;</highlight></codeline>
<codeline lineno="46"><highlight class="normal"></highlight></codeline>
<codeline lineno="47"><highlight class="normal"></highlight></codeline>
<codeline lineno="49" refid="structvrna__bp__stack__t" refkind="compound"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal">{</highlight></codeline>
<codeline lineno="50"><highlight class="normal"><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="51"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/>j;</highlight></codeline>
<codeline lineno="52"><highlight class="normal">}<sp/><ref refid="structvrna__bp__stack__t" kindref="compound">vrna_bp_stack_t</ref>;</highlight></codeline>
<codeline lineno="53"><highlight class="normal"></highlight></codeline>
<codeline lineno="54"><highlight class="normal"></highlight></codeline>
<codeline lineno="59" refid="group__data__structures_1ga4381025ffbd692e54189b2c679c79c99" refkind="member"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structvrna__basepair__s" kindref="compound">vrna_basepair_s</ref><sp/><ref refid="group__data__structures_1ga4381025ffbd692e54189b2c679c79c99" kindref="member">PAIR</ref>;</highlight></codeline>
<codeline lineno="60"><highlight class="normal"></highlight></codeline>
<codeline lineno="65" refid="group__data__structures_1ga9608eed021ebfbdd7a901cfdc446c8e9" refkind="member"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structvrna__elem__prob__s" kindref="compound">vrna_elem_prob_s</ref><sp/><ref refid="group__data__structures_1ga9608eed021ebfbdd7a901cfdc446c8e9" kindref="member">plist</ref>;</highlight></codeline>
<codeline lineno="70" refid="group__data__structures_1ga8412f116a2eb07b59ade9e14ca7c5ef1" refkind="member"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structvrna__cpair__s" kindref="compound">vrna_cpair_s</ref><sp/><ref refid="group__data__structures_1ga8412f116a2eb07b59ade9e14ca7c5ef1" kindref="member">cpair</ref>;</highlight></codeline>
<codeline lineno="71"><highlight class="normal"></highlight></codeline>
<codeline lineno="76" refid="group__data__structures_1gaaacedee1f05d3d45aa6764eca51a8876" refkind="member"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structvrna__sect__s" kindref="compound">vrna_sect_s</ref><sp/><ref refid="group__data__structures_1gaaacedee1f05d3d45aa6764eca51a8876" kindref="member">sect</ref>;</highlight></codeline>
<codeline lineno="77"><highlight class="normal"></highlight></codeline>
<codeline lineno="82" refid="group__data__structures_1ga6114174c02666861dc12e1f8db32a17e" refkind="member"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/><ref refid="structvrna__bp__stack__t" kindref="compound">vrna_bp_stack_t</ref><sp/><ref refid="group__data__structures_1ga6114174c02666861dc12e1f8db32a17e" kindref="member">bondT</ref>;</highlight></codeline>
<codeline lineno="83"><highlight class="normal"></highlight></codeline>
<codeline lineno="84"><highlight class="normal"></highlight><highlight class="preprocessor">#endif</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="85"><highlight class="normal"></highlight></codeline>
<codeline lineno="89"><highlight class="normal"></highlight></codeline>
<codeline lineno="90"><highlight class="normal"></highlight></codeline>
<codeline lineno="95"><highlight class="normal"></highlight></codeline>
<codeline lineno="102" refid="group__data__structures__bt_1ga79fec76412a4fd843e3d4baf87118f14" refkind="member"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal">vrna_bt_stack_s<sp/><sp/>*<ref refid="group__data__structures__bt_1ga79fec76412a4fd843e3d4baf87118f14" kindref="member">vrna_bts_t</ref>;</highlight></codeline>
<codeline lineno="103"><highlight class="normal"></highlight></codeline>
<codeline lineno="104"><highlight class="normal"></highlight></codeline>
<codeline lineno="111" refid="group__data__structures__bt_1ga9452b56292759e4264eb888ed3cc8655" refkind="member"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal">vrna_bp_stack_s<sp/><sp/>*<ref refid="group__data__structures__bt_1ga9452b56292759e4264eb888ed3cc8655" kindref="member">vrna_bps_t</ref>;</highlight></codeline>
<codeline lineno="112"><highlight class="normal"></highlight></codeline>
<codeline lineno="113"><highlight class="normal"></highlight></codeline>
<codeline lineno="115" refid="group__data__structures__bt_1ga01442581d60780d905993768e2efa98d" refkind="member"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structvrna__basepair__s" kindref="compound">vrna_basepair_s</ref><sp/><sp/><ref refid="group__data__structures__bt_1ga01442581d60780d905993768e2efa98d" kindref="member">vrna_bp_t</ref>;</highlight></codeline>
<codeline lineno="116"><highlight class="normal"></highlight></codeline>
<codeline lineno="118" refid="group__data__structures__bt_1gacc9cdae790dac75a7024e7069c0d4400" refkind="member"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structvrna__sect__s" kindref="compound">vrna_sect_s</ref><sp/><ref refid="group__data__structures__bt_1gacc9cdae790dac75a7024e7069c0d4400" kindref="member">vrna_sect_t</ref>;</highlight></codeline>
<codeline lineno="119"><highlight class="normal"></highlight></codeline>
<codeline lineno="123"><highlight class="normal"></highlight></codeline>
<codeline lineno="124"><highlight class="normal"></highlight><highlight class="preprocessor">#include<sp/>&lt;<ref refid="constants_8h" kindref="compound">ViennaRNA/params/constants.h</ref>&gt;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="125"><highlight class="normal"></highlight><highlight class="preprocessor">#include<sp/>&lt;<ref refid="fold__compound_8h" kindref="compound">ViennaRNA/fold_compound.h</ref>&gt;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="126"><highlight class="normal"></highlight><highlight class="preprocessor">#include<sp/>&lt;<ref refid="model_8h" kindref="compound">ViennaRNA/model.h</ref>&gt;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="127"><highlight class="normal"></highlight><highlight class="preprocessor">#include<sp/>&lt;<ref refid="params_2basic_8h" kindref="compound">ViennaRNA/params/basic.h</ref>&gt;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="128"><highlight class="normal"></highlight><highlight class="preprocessor">#include<sp/>&lt;<ref refid="datastructures_2dp__matrices_8h" kindref="compound">ViennaRNA/datastructures/dp_matrices.h</ref>&gt;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="129"><highlight class="normal"></highlight><highlight class="preprocessor">#include<sp/>&lt;<ref refid="hard_8h" kindref="compound">ViennaRNA/constraints/hard.h</ref>&gt;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="130"><highlight class="normal"></highlight><highlight class="preprocessor">#include<sp/>&lt;<ref refid="soft_8h" kindref="compound">ViennaRNA/constraints/soft.h</ref>&gt;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="131"><highlight class="normal"></highlight><highlight class="preprocessor">#include<sp/>&quot;<ref refid="structured__domains_8h" kindref="compound">ViennaRNA/structured_domains.h</ref>&quot;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="132"><highlight class="normal"></highlight><highlight class="preprocessor">#include<sp/>&quot;<ref refid="unstructured__domains_8h" kindref="compound">ViennaRNA/unstructured_domains.h</ref>&quot;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="133"><highlight class="normal"></highlight><highlight class="preprocessor">#include<sp/>&quot;<ref refid="problist_8h" kindref="compound">ViennaRNA/structures/problist.h</ref>&quot;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="134"><highlight class="normal"></highlight><highlight class="preprocessor">#include<sp/>&quot;<ref refid="pairtable_8h" kindref="compound">ViennaRNA/structures/pairtable.h</ref>&quot;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="135"><highlight class="normal"></highlight><highlight class="preprocessor">#include<sp/>&quot;<ref refid="dotbracket_8h" kindref="compound">ViennaRNA/structures/dotbracket.h</ref>&quot;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="136"><highlight class="normal"></highlight><highlight class="preprocessor">#include<sp/>&quot;<ref refid="structures_2utils_8h" kindref="compound">ViennaRNA/structures/utils.h</ref>&quot;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="137"><highlight class="normal"></highlight><highlight class="preprocessor">#include<sp/>&quot;<ref refid="metrics_8h" kindref="compound">ViennaRNA/structures/metrics.h</ref>&quot;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="138"><highlight class="normal"></highlight><highlight class="preprocessor">#include<sp/>&quot;<ref refid="helix_8h" kindref="compound">ViennaRNA/structures/helix.h</ref>&quot;</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="139"><highlight class="normal"></highlight></codeline>
<codeline lineno="140"><highlight class="normal"></highlight><highlight class="comment">/*</highlight></codeline>
<codeline lineno="141"><highlight class="comment"><sp/>*<sp/>############################################################</highlight></codeline>
<codeline lineno="142"><highlight class="comment"><sp/>*<sp/>Here<sp/>are<sp/>the<sp/>type<sp/>definitions<sp/>of<sp/>various<sp/>datastructures</highlight></codeline>
<codeline lineno="143"><highlight class="comment"><sp/>*<sp/>shared<sp/>among<sp/>the<sp/>Vienna<sp/>RNA<sp/>Package</highlight></codeline>
<codeline lineno="144"><highlight class="comment"><sp/>*<sp/>############################################################</highlight></codeline>
<codeline lineno="145"><highlight class="comment"><sp/>*/</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="146"><highlight class="normal"></highlight></codeline>
<codeline lineno="150" refid="structvrna__cpair__s" refkind="compound"><highlight class="normal"></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structvrna__cpair__s" kindref="compound">vrna_cpair_s</ref><sp/>{</highlight></codeline>
<codeline lineno="151"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/>i,<sp/>j,<sp/>mfe;</highlight></codeline>
<codeline lineno="152"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>p,<sp/>hue,<sp/>sat;</highlight></codeline>
<codeline lineno="153"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/>type;</highlight></codeline>
<codeline lineno="154"><highlight class="normal">};</highlight></codeline>
<codeline lineno="155"><highlight class="normal"></highlight></codeline>
<codeline lineno="156" refid="structvrna__color__s" refkind="compound"><highlight class="normal"></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structvrna__color__s" kindref="compound">vrna_color_s</ref><sp/>{</highlight></codeline>
<codeline lineno="157"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>hue;</highlight></codeline>
<codeline lineno="158"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>sat;</highlight></codeline>
<codeline lineno="159"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>bri;</highlight></codeline>
<codeline lineno="160"><highlight class="normal">};</highlight></codeline>
<codeline lineno="161"><highlight class="normal"></highlight></codeline>
<codeline lineno="162" refid="structvrna__data__linear__s" refkind="compound"><highlight class="normal"></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structvrna__data__linear__s" kindref="compound">vrna_data_linear_s</ref><sp/>{</highlight></codeline>
<codeline lineno="163"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/>position;</highlight></codeline>
<codeline lineno="164"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>value;</highlight></codeline>
<codeline lineno="165"><highlight class="normal"><sp/><sp/>vrna_color_t<sp/><sp/>color;</highlight></codeline>
<codeline lineno="166"><highlight class="normal">};</highlight></codeline>
<codeline lineno="167"><highlight class="normal"></highlight></codeline>
<codeline lineno="168"><highlight class="normal"></highlight></codeline>
<codeline lineno="173"><highlight class="normal"></highlight></codeline>
<codeline lineno="174"><highlight class="normal"></highlight><highlight class="comment">/*</highlight></codeline>
<codeline lineno="175"><highlight class="comment"><sp/>*<sp/>############################################################</highlight></codeline>
<codeline lineno="176"><highlight class="comment"><sp/>*<sp/>RNAup<sp/>data<sp/>structures</highlight></codeline>
<codeline lineno="177"><highlight class="comment"><sp/>*<sp/>############################################################</highlight></codeline>
<codeline lineno="178"><highlight class="comment"><sp/>*/</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="179"><highlight class="normal"></highlight></codeline>
<codeline lineno="183" refid="structpu__contrib" refkind="compound"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structpu__contrib" kindref="compound">pu_contrib</ref><sp/>{</highlight></codeline>
<codeline lineno="184" refid="structpu__contrib_1ac9034ac9a84ed0647587659d6e9be1e8" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>**<ref refid="structpu__contrib_1ac9034ac9a84ed0647587659d6e9be1e8" kindref="member">H</ref>;<sp/><sp/><sp/><sp/></highlight></codeline>
<codeline lineno="185" refid="structpu__contrib_1a8ca0da20536780589fb3e3472ca0581f" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>**<ref refid="structpu__contrib_1a8ca0da20536780589fb3e3472ca0581f" kindref="member">I</ref>;<sp/><sp/><sp/><sp/></highlight></codeline>
<codeline lineno="186" refid="structpu__contrib_1a1222ebf74f426bbcd843dcc325da207b" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>**<ref refid="structpu__contrib_1a1222ebf74f426bbcd843dcc325da207b" kindref="member">M</ref>;<sp/><sp/><sp/><sp/></highlight></codeline>
<codeline lineno="187" refid="structpu__contrib_1accb192ba6b4b91a1cb2f8080934fd428" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>**<ref refid="structpu__contrib_1accb192ba6b4b91a1cb2f8080934fd428" kindref="member">E</ref>;<sp/><sp/><sp/><sp/></highlight></codeline>
<codeline lineno="188" refid="structpu__contrib_1a33d5ada6e861db0c81aa3d5b2989262e" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><ref refid="structpu__contrib_1a33d5ada6e861db0c81aa3d5b2989262e" kindref="member">length</ref>;<sp/></highlight></codeline>
<codeline lineno="189" refid="structpu__contrib_1a403c1c7f20beeeffba7632fac0cfcbff" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><ref refid="structpu__contrib_1a403c1c7f20beeeffba7632fac0cfcbff" kindref="member">w</ref>;<sp/><sp/><sp/><sp/><sp/><sp/></highlight></codeline>
<codeline lineno="190" refid="group__data__structures_1ga8f28b2ff98fb3f7a139c50fda3d01a77" refkind="member"><highlight class="normal">}<sp/><ref refid="structpu__contrib" kindref="compound">pu_contrib</ref>;</highlight></codeline>
<codeline lineno="191"><highlight class="normal"></highlight></codeline>
<codeline lineno="195" refid="structinteract" refkind="compound"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structinteract" kindref="compound">interact</ref><sp/>{</highlight></codeline>
<codeline lineno="196" refid="structinteract_1a1fc8b3860c083f164daa9712690a3a56" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>*<ref refid="structinteract_1a1fc8b3860c083f164daa9712690a3a56" kindref="member">Pi</ref>;<sp/><sp/><sp/><sp/><sp/><sp/></highlight></codeline>
<codeline lineno="197" refid="structinteract_1a54f8183542fff4c32ab7ace49a16c02c" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>*<ref refid="structinteract_1a54f8183542fff4c32ab7ace49a16c02c" kindref="member">Gi</ref>;<sp/><sp/><sp/><sp/><sp/><sp/></highlight></codeline>
<codeline lineno="198" refid="structinteract_1ad58303190f9e085c3ab59890cbf61223" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/><ref refid="structinteract_1ad58303190f9e085c3ab59890cbf61223" kindref="member">Gikjl</ref>;<sp/><sp/><sp/><sp/></highlight></codeline>
<codeline lineno="200" refid="structinteract_1a41793812abae560805414761fec398fe" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/><ref refid="structinteract_1a41793812abae560805414761fec398fe" kindref="member">Gikjl_wo</ref>;<sp/></highlight></codeline>
<codeline lineno="201" refid="structinteract_1ab6d031a21388be8763b75ea74c937f17" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><ref refid="structinteract_1ab6d031a21388be8763b75ea74c937f17" kindref="member">i</ref>;<sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight></codeline>
<codeline lineno="202" refid="structinteract_1a61e457fbf943d57364be6ddf1b4e7b8a" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><ref refid="structinteract_1a61e457fbf943d57364be6ddf1b4e7b8a" kindref="member">k</ref>;<sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight></codeline>
<codeline lineno="203" refid="structinteract_1a7555cb6363d1479341eb72b9c087aa34" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><ref refid="structinteract_1a7555cb6363d1479341eb72b9c087aa34" kindref="member">j</ref>;<sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight></codeline>
<codeline lineno="204" refid="structinteract_1a030ab45056342e12cb3955e4defd3904" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><ref refid="structinteract_1a030ab45056342e12cb3955e4defd3904" kindref="member">l</ref>;<sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight></codeline>
<codeline lineno="205" refid="structinteract_1ac9fcb5dca54ec5faa76e02b6488b9524" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><ref refid="structinteract_1ac9fcb5dca54ec5faa76e02b6488b9524" kindref="member">length</ref>;<sp/><sp/><sp/></highlight></codeline>
<codeline lineno="206" refid="group__data__structures_1ga2d25e7fc868ebb4fa8b5bfec1c5eb771" refkind="member"><highlight class="normal">}<sp/><ref refid="structinteract" kindref="compound">interact</ref>;</highlight></codeline>
<codeline lineno="207"><highlight class="normal"></highlight></codeline>
<codeline lineno="211" refid="structpu__out" refkind="compound"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structpu__out" kindref="compound">pu_out</ref><sp/>{</highlight></codeline>
<codeline lineno="212" refid="structpu__out_1a314b8f43c3ee0bf6060afbeced5dbe6c" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><ref refid="structpu__out_1a314b8f43c3ee0bf6060afbeced5dbe6c" kindref="member">len</ref>;<sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight></codeline>
<codeline lineno="213" refid="structpu__out_1a7697bc7a46cd1b8e37e337e708cb6023" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><ref refid="structpu__out_1a7697bc7a46cd1b8e37e337e708cb6023" kindref="member">u_vals</ref>;<sp/><sp/><sp/><sp/><sp/></highlight></codeline>
<codeline lineno="214" refid="structpu__out_1a638b0de1837cfd441871d005d3ab2938" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><ref refid="structpu__out_1a638b0de1837cfd441871d005d3ab2938" kindref="member">contribs</ref>;<sp/><sp/><sp/></highlight></codeline>
<codeline lineno="215" refid="structpu__out_1ac9e9e30b16e7d04c770460b8487fb09d" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/><sp/><sp/><sp/>**<ref refid="structpu__out_1ac9e9e30b16e7d04c770460b8487fb09d" kindref="member">header</ref>;<sp/><sp/><sp/></highlight></codeline>
<codeline lineno="216" refid="structpu__out_1a366edbc4170d5c177908e178ff340828" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>**<ref refid="structpu__out_1a366edbc4170d5c177908e178ff340828" kindref="member">u_values</ref>;<sp/></highlight></codeline>
<codeline lineno="217" refid="group__data__structures_1gabc7a2003605bb458e161a391be3f2cbd" refkind="member"><highlight class="normal">}<sp/><ref refid="structpu__out" kindref="compound">pu_out</ref>;</highlight></codeline>
<codeline lineno="218"><highlight class="normal"></highlight></codeline>
<codeline lineno="222" refid="structconstrain" refkind="compound"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structconstrain" kindref="compound">constrain</ref><sp/>{</highlight></codeline>
<codeline lineno="223"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/>*indx;</highlight></codeline>
<codeline lineno="224"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/><sp/>*ptype;</highlight></codeline>
<codeline lineno="225" refid="group__data__structures_1ga77624181a1c5caa27e9cf9f1da33604f" refkind="member"><highlight class="normal">}<sp/><ref refid="structconstrain" kindref="compound">constrain</ref>;</highlight></codeline>
<codeline lineno="226"><highlight class="normal"></highlight></codeline>
<codeline lineno="227"><highlight class="normal"></highlight><highlight class="comment">/*</highlight></codeline>
<codeline lineno="228"><highlight class="comment"><sp/>*<sp/>############################################################</highlight></codeline>
<codeline lineno="229"><highlight class="comment"><sp/>*<sp/>RNAduplex<sp/>data<sp/>structures</highlight></codeline>
<codeline lineno="230"><highlight class="comment"><sp/>*<sp/>############################################################</highlight></codeline>
<codeline lineno="231"><highlight class="comment"><sp/>*/</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="232"><highlight class="normal"></highlight></codeline>
<codeline lineno="236" refid="structduplexT" refkind="compound"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal">{</highlight></codeline>
<codeline lineno="237"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>i;</highlight></codeline>
<codeline lineno="238"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>j;</highlight></codeline>
<codeline lineno="239"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>end;</highlight></codeline>
<codeline lineno="240"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/><sp/><sp/><sp/>*structure;</highlight></codeline>
<codeline lineno="241"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>energy;</highlight></codeline>
<codeline lineno="242"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>energy_backtrack;</highlight></codeline>
<codeline lineno="243"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>opening_backtrack_x;</highlight></codeline>
<codeline lineno="244"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>opening_backtrack_y;</highlight></codeline>
<codeline lineno="245"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>offset;</highlight></codeline>
<codeline lineno="246"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>dG1;</highlight></codeline>
<codeline lineno="247"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>dG2;</highlight></codeline>
<codeline lineno="248"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>ddG;</highlight></codeline>
<codeline lineno="249"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>tb;</highlight></codeline>
<codeline lineno="250"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>te;</highlight></codeline>
<codeline lineno="251"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>qb;</highlight></codeline>
<codeline lineno="252"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>qe;</highlight></codeline>
<codeline lineno="253"><highlight class="normal">}<sp/><ref refid="structduplexT" kindref="compound">duplexT</ref>;</highlight></codeline>
<codeline lineno="254"><highlight class="normal"></highlight></codeline>
<codeline lineno="255"><highlight class="normal"></highlight><highlight class="comment">/*</highlight></codeline>
<codeline lineno="256"><highlight class="comment"><sp/>*<sp/>############################################################</highlight></codeline>
<codeline lineno="257"><highlight class="comment"><sp/>*<sp/>RNAsnoop<sp/>data<sp/>structures</highlight></codeline>
<codeline lineno="258"><highlight class="comment"><sp/>*<sp/>############################################################</highlight></codeline>
<codeline lineno="259"><highlight class="comment"><sp/>*/</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="260"><highlight class="normal"></highlight></codeline>
<codeline lineno="264" refid="structnode" refkind="compound"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structnode" kindref="compound">node</ref><sp/>{</highlight></codeline>
<codeline lineno="265"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>k;</highlight></codeline>
<codeline lineno="266"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>energy;</highlight></codeline>
<codeline lineno="267"><highlight class="normal"><sp/><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structnode" kindref="compound">node</ref><sp/>*next;</highlight></codeline>
<codeline lineno="268" refid="group__data__structures_1ga520389d6980cd4ce9f2450e93e270944" refkind="member"><highlight class="normal">}<sp/><ref refid="group__data__structures_1ga520389d6980cd4ce9f2450e93e270944" kindref="member">folden</ref>;</highlight></codeline>
<codeline lineno="269"><highlight class="normal"></highlight></codeline>
<codeline lineno="273" refid="structsnoopT" refkind="compound"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal">{</highlight></codeline>
<codeline lineno="274"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/>i;</highlight></codeline>
<codeline lineno="275"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/>j;</highlight></codeline>
<codeline lineno="276"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/>u;</highlight></codeline>
<codeline lineno="277"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/><sp/>*structure;</highlight></codeline>
<codeline lineno="278"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>energy;</highlight></codeline>
<codeline lineno="279"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>Duplex_El;</highlight></codeline>
<codeline lineno="280"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>Duplex_Er;</highlight></codeline>
<codeline lineno="281"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>Loop_E;</highlight></codeline>
<codeline lineno="282"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>Loop_D;</highlight></codeline>
<codeline lineno="283"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>pscd;</highlight></codeline>
<codeline lineno="284"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>psct;</highlight></codeline>
<codeline lineno="285"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>pscg;</highlight></codeline>
<codeline lineno="286"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>Duplex_Ol;</highlight></codeline>
<codeline lineno="287"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>Duplex_Or;</highlight></codeline>
<codeline lineno="288"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>Duplex_Ot;</highlight></codeline>
<codeline lineno="289"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">float</highlight><highlight class="normal"><sp/>fullStemEnergy;</highlight></codeline>
<codeline lineno="290"><highlight class="normal">}<sp/><ref refid="structsnoopT" kindref="compound">snoopT</ref>;</highlight></codeline>
<codeline lineno="291"><highlight class="normal"></highlight></codeline>
<codeline lineno="292"><highlight class="normal"></highlight></codeline>
<codeline lineno="293"><highlight class="normal"></highlight><highlight class="comment">/*</highlight></codeline>
<codeline lineno="294"><highlight class="comment"><sp/>*<sp/>############################################################</highlight></codeline>
<codeline lineno="295"><highlight class="comment"><sp/>*<sp/>PKplex<sp/>data<sp/>structures</highlight></codeline>
<codeline lineno="296"><highlight class="comment"><sp/>*<sp/>############################################################</highlight></codeline>
<codeline lineno="297"><highlight class="comment"><sp/>*/</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="298"><highlight class="normal"></highlight></codeline>
<codeline lineno="302" refid="structdupVar" refkind="compound"><highlight class="normal"></highlight><highlight class="keyword">typedef</highlight><highlight class="normal"><sp/></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structdupVar" kindref="compound">dupVar</ref><sp/>{</highlight></codeline>
<codeline lineno="303"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>i;</highlight></codeline>
<codeline lineno="304"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>j;</highlight></codeline>
<codeline lineno="305"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>end;</highlight></codeline>
<codeline lineno="306"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/><sp/><sp/><sp/>*pk_helix;</highlight></codeline>
<codeline lineno="307"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">char</highlight><highlight class="normal"><sp/><sp/><sp/><sp/>*structure;</highlight></codeline>
<codeline lineno="308"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>energy;</highlight></codeline>
<codeline lineno="309"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>offset;</highlight></codeline>
<codeline lineno="310"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>dG1;</highlight></codeline>
<codeline lineno="311"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>dG2;</highlight></codeline>
<codeline lineno="312"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>ddG;</highlight></codeline>
<codeline lineno="313"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>tb;</highlight></codeline>
<codeline lineno="314"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>te;</highlight></codeline>
<codeline lineno="315"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>qb;</highlight></codeline>
<codeline lineno="316"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>qe;</highlight></codeline>
<codeline lineno="317"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>inactive;</highlight></codeline>
<codeline lineno="318"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/>processed;</highlight></codeline>
<codeline lineno="319" refid="group__data__structures_1gaa527b6c15d607e89f7107bbb24e70c4c" refkind="member"><highlight class="normal">}<sp/><ref refid="structdupVar" kindref="compound">dupVar</ref>;</highlight></codeline>
<codeline lineno="320"><highlight class="normal"></highlight></codeline>
<codeline lineno="324"><highlight class="normal"></highlight></codeline>
<codeline lineno="325"><highlight class="normal"></highlight></codeline>
<codeline lineno="326"><highlight class="normal"></highlight></codeline>
<codeline lineno="331"><highlight class="normal"></highlight></codeline>
<codeline lineno="332"><highlight class="normal"></highlight></codeline>
<codeline lineno="336" refid="structvrna__sect__s" refkind="compound"><highlight class="normal"></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structvrna__sect__s" kindref="compound">vrna_sect_s</ref><sp/>{</highlight></codeline>
<codeline lineno="337"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>i;</highlight></codeline>
<codeline lineno="338"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>j;</highlight></codeline>
<codeline lineno="339"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/>ml;</highlight></codeline>
<codeline lineno="340"><highlight class="normal">};</highlight></codeline>
<codeline lineno="341"><highlight class="normal"></highlight></codeline>
<codeline lineno="342"><highlight class="normal"></highlight></codeline>
<codeline lineno="346" refid="structvrna__basepair__s" refkind="compound"><highlight class="normal"></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structvrna__basepair__s" kindref="compound">vrna_basepair_s</ref><sp/>{</highlight></codeline>
<codeline lineno="347"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/>i;</highlight></codeline>
<codeline lineno="348"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/>j;</highlight></codeline>
<codeline lineno="349"><highlight class="normal"><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="350"><highlight class="normal"><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="351"><highlight class="normal">};</highlight></codeline>
<codeline lineno="352"><highlight class="normal"></highlight></codeline>
<codeline lineno="371"><highlight class="normal"><ref refid="group__data__structures__bt_1ga79fec76412a4fd843e3d4baf87118f14" kindref="member">vrna_bts_t</ref></highlight></codeline>
<codeline lineno="372" refid="group__data__structures__bt_1ga0282b54896b38d6d53c8c3e42bfb6aff" refkind="member"><highlight class="normal"><ref refid="group__data__structures__bt_1ga0282b54896b38d6d53c8c3e42bfb6aff" kindref="member">vrna_bts_init</ref>(</highlight><highlight class="keywordtype">size_t</highlight><highlight class="normal"><sp/><sp/>n);</highlight></codeline>
<codeline lineno="373"><highlight class="normal"></highlight></codeline>
<codeline lineno="379"><highlight class="normal"></highlight><highlight class="keywordtype">void</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="380" refid="group__data__structures__bt_1ga7cdef67681eff2cb6ef8b8be7bc9536a" refkind="member"><highlight class="normal"><ref refid="group__data__structures__bt_1ga7cdef67681eff2cb6ef8b8be7bc9536a" kindref="member">vrna_bts_free</ref>(<ref refid="group__data__structures__bt_1ga79fec76412a4fd843e3d4baf87118f14" kindref="member">vrna_bts_t</ref><sp/>bts);</highlight></codeline>
<codeline lineno="381"><highlight class="normal"></highlight></codeline>
<codeline lineno="382"><highlight class="normal"></highlight></codeline>
<codeline lineno="393"><highlight class="normal"></highlight><highlight class="keywordtype">size_t</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="394" refid="group__data__structures__bt_1ga9f5687d82e4b2b4213431ed50c69985c" refkind="member"><highlight class="normal"><ref refid="group__data__structures__bt_1ga9f5687d82e4b2b4213431ed50c69985c" kindref="member">vrna_bts_push</ref>(<ref refid="group__data__structures__bt_1ga79fec76412a4fd843e3d4baf87118f14" kindref="member">vrna_bts_t</ref><sp/><sp/>bts,</highlight></codeline>
<codeline lineno="395"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><ref refid="group__data__structures__bt_1gacc9cdae790dac75a7024e7069c0d4400" kindref="member">vrna_sect_t</ref><sp/>element);</highlight></codeline>
<codeline lineno="396"><highlight class="normal"></highlight></codeline>
<codeline lineno="397"><highlight class="normal"></highlight></codeline>
<codeline lineno="408"><highlight class="normal"><ref refid="group__data__structures__bt_1gacc9cdae790dac75a7024e7069c0d4400" kindref="member">vrna_sect_t</ref></highlight></codeline>
<codeline lineno="409" refid="group__data__structures__bt_1ga7b0647a270f155c274a2b1a31dfbe303" refkind="member"><highlight class="normal"><ref refid="group__data__structures__bt_1ga7b0647a270f155c274a2b1a31dfbe303" kindref="member">vrna_bts_top</ref>(<ref refid="group__data__structures__bt_1ga79fec76412a4fd843e3d4baf87118f14" kindref="member">vrna_bts_t</ref><sp/>bts);</highlight></codeline>
<codeline lineno="410"><highlight class="normal"></highlight></codeline>
<codeline lineno="411"><highlight class="normal"></highlight></codeline>
<codeline lineno="422"><highlight class="normal"><ref refid="group__data__structures__bt_1gacc9cdae790dac75a7024e7069c0d4400" kindref="member">vrna_sect_t</ref></highlight></codeline>
<codeline lineno="423" refid="group__data__structures__bt_1ga1f5f641d9db2419f26c8d11e735a828c" refkind="member"><highlight class="normal"><ref refid="group__data__structures__bt_1ga1f5f641d9db2419f26c8d11e735a828c" kindref="member">vrna_bts_pop</ref>(<ref refid="group__data__structures__bt_1ga79fec76412a4fd843e3d4baf87118f14" kindref="member">vrna_bts_t</ref><sp/>bts);</highlight></codeline>
<codeline lineno="424"><highlight class="normal"></highlight></codeline>
<codeline lineno="431"><highlight class="normal"></highlight><highlight class="keywordtype">size_t</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="432" refid="group__data__structures__bt_1gab04c05287617c6a62372040e57e5baef" refkind="member"><highlight class="normal"><ref refid="group__data__structures__bt_1gab04c05287617c6a62372040e57e5baef" kindref="member">vrna_bts_size</ref>(<ref refid="group__data__structures__bt_1ga79fec76412a4fd843e3d4baf87118f14" kindref="member">vrna_bts_t</ref><sp/>bts);</highlight></codeline>
<codeline lineno="433"><highlight class="normal"></highlight></codeline>
<codeline lineno="434"><highlight class="normal"></highlight></codeline>
<codeline lineno="450"><highlight class="normal"><ref refid="group__data__structures__bt_1ga9452b56292759e4264eb888ed3cc8655" kindref="member">vrna_bps_t</ref></highlight></codeline>
<codeline lineno="451" refid="group__data__structures__bt_1ga34fafe57ae3fccaa6e6328bbd78c7b38" refkind="member"><highlight class="normal"><ref refid="group__data__structures__bt_1ga34fafe57ae3fccaa6e6328bbd78c7b38" kindref="member">vrna_bps_init</ref>(</highlight><highlight class="keywordtype">size_t</highlight><highlight class="normal"><sp/><sp/>n);</highlight></codeline>
<codeline lineno="452"><highlight class="normal"></highlight></codeline>
<codeline lineno="453"><highlight class="normal"></highlight></codeline>
<codeline lineno="459"><highlight class="normal"></highlight><highlight class="keywordtype">void</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="460" refid="group__data__structures__bt_1ga76a6d13504ea3a9321a2fd8477d34039" refkind="member"><highlight class="normal"><ref refid="group__data__structures__bt_1ga76a6d13504ea3a9321a2fd8477d34039" kindref="member">vrna_bps_free</ref>(<ref refid="group__data__structures__bt_1ga9452b56292759e4264eb888ed3cc8655" kindref="member">vrna_bps_t</ref><sp/>bps);</highlight></codeline>
<codeline lineno="461"><highlight class="normal"></highlight></codeline>
<codeline lineno="462"><highlight class="normal"></highlight></codeline>
<codeline lineno="470"><highlight class="normal"></highlight><highlight class="keywordtype">size_t</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="471" refid="group__data__structures__bt_1ga84c9b0f7fe3b7664eb00222320316050" refkind="member"><highlight class="normal"><ref refid="group__data__structures__bt_1ga84c9b0f7fe3b7664eb00222320316050" kindref="member">vrna_bps_push</ref>(<ref refid="group__data__structures__bt_1ga9452b56292759e4264eb888ed3cc8655" kindref="member">vrna_bps_t</ref><sp/><sp/>bps,</highlight></codeline>
<codeline lineno="472"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><ref refid="group__data__structures__bt_1ga01442581d60780d905993768e2efa98d" kindref="member">vrna_bp_t</ref><sp/><sp/><sp/>pair);</highlight></codeline>
<codeline lineno="473"><highlight class="normal"></highlight></codeline>
<codeline lineno="474"><highlight class="normal"></highlight></codeline>
<codeline lineno="485"><highlight class="normal"><ref refid="group__data__structures__bt_1ga01442581d60780d905993768e2efa98d" kindref="member">vrna_bp_t</ref></highlight></codeline>
<codeline lineno="486" refid="group__data__structures__bt_1ga506a606916ee51789a7f3b899ae68adb" refkind="member"><highlight class="normal"><ref refid="group__data__structures__bt_1ga506a606916ee51789a7f3b899ae68adb" kindref="member">vrna_bps_top</ref>(<ref refid="group__data__structures__bt_1ga9452b56292759e4264eb888ed3cc8655" kindref="member">vrna_bps_t</ref><sp/>bps);</highlight></codeline>
<codeline lineno="487"><highlight class="normal"></highlight></codeline>
<codeline lineno="488"><highlight class="normal"></highlight></codeline>
<codeline lineno="499"><highlight class="normal"><ref refid="group__data__structures__bt_1ga01442581d60780d905993768e2efa98d" kindref="member">vrna_bp_t</ref></highlight></codeline>
<codeline lineno="500" refid="group__data__structures__bt_1ga1fc5da8296944496d5d9082bbd30a297" refkind="member"><highlight class="normal"><ref refid="group__data__structures__bt_1ga1fc5da8296944496d5d9082bbd30a297" kindref="member">vrna_bps_pop</ref>(<ref refid="group__data__structures__bt_1ga9452b56292759e4264eb888ed3cc8655" kindref="member">vrna_bps_t</ref><sp/>bps);</highlight></codeline>
<codeline lineno="501"><highlight class="normal"></highlight></codeline>
<codeline lineno="502"><highlight class="normal"></highlight></codeline>
<codeline lineno="514"><highlight class="normal"><ref refid="group__data__structures__bt_1ga01442581d60780d905993768e2efa98d" kindref="member">vrna_bp_t</ref></highlight></codeline>
<codeline lineno="515" refid="group__data__structures__bt_1ga6ca54e333c6f0ad6d93c115e472ace40" refkind="member"><highlight class="normal"><ref refid="group__data__structures__bt_1ga6ca54e333c6f0ad6d93c115e472ace40" kindref="member">vrna_bps_at</ref>(<ref refid="group__data__structures__bt_1ga9452b56292759e4264eb888ed3cc8655" kindref="member">vrna_bps_t</ref><sp/><sp/>bps,</highlight></codeline>
<codeline lineno="516"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">size_t</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/>n);</highlight></codeline>
<codeline lineno="517"><highlight class="normal"></highlight></codeline>
<codeline lineno="524"><highlight class="normal"></highlight><highlight class="keywordtype">size_t</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="525" refid="group__data__structures__bt_1ga52014fbb171f9c1a06edbf8f0300fc71" refkind="member"><highlight class="normal"><ref refid="group__data__structures__bt_1ga52014fbb171f9c1a06edbf8f0300fc71" kindref="member">vrna_bps_size</ref>(<ref refid="group__data__structures__bt_1ga9452b56292759e4264eb888ed3cc8655" kindref="member">vrna_bps_t</ref><sp/>bps);</highlight></codeline>
<codeline lineno="526"><highlight class="normal"></highlight></codeline>
<codeline lineno="530"><highlight class="normal"></highlight></codeline>
<codeline lineno="531"><highlight class="normal"></highlight></codeline>
<codeline lineno="536"><highlight class="normal"></highlight></codeline>
<codeline lineno="537"><highlight class="normal"></highlight></codeline>
<codeline lineno="568"><highlight class="normal"></highlight><highlight class="preprocessor">#ifndef<sp/>VRNA_DISABLE_C11_FEATURES</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="569" refid="group__data__structures_1ga21744ae2d6a17309f9327d3547cef0cb" refkind="member"><highlight class="normal"></highlight><highlight class="keywordtype">void</highlight><highlight class="normal"><sp/><ref refid="group__data__structures_1ga21744ae2d6a17309f9327d3547cef0cb" kindref="member">vrna_C11_features</ref>(</highlight><highlight class="keywordtype">void</highlight><highlight class="normal">);</highlight></codeline>
<codeline lineno="570"><highlight class="normal"></highlight></codeline>
<codeline lineno="571"><highlight class="normal"></highlight></codeline>
<codeline lineno="572"><highlight class="normal"></highlight><highlight class="preprocessor">#endif</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="573"><highlight class="normal"></highlight></codeline>
<codeline lineno="577"><highlight class="normal"></highlight></codeline>
<codeline lineno="578"><highlight class="normal"></highlight></codeline>
<codeline lineno="579"><highlight class="normal"></highlight><highlight class="preprocessor">#endif</highlight></codeline>
    </programlisting>
    <location file="ViennaRNA/datastructures/basic.h"/>
  </compounddef>
</doxygen>
