<?xml version='1.0' encoding='UTF-8' standalone='no'?>
<doxygen xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:noNamespaceSchemaLocation="compound.xsd" version="1.15.0" xml:lang="en-US">
  <compounddef id="concentrations_8h" kind="file" language="C++">
    <compoundname>concentrations.h</compoundname>
    <includes refid="params_2basic_8h" local="no">ViennaRNA/params/basic.h</includes>
    <includedby refid="part__func__co_8h" local="no">ViennaRNA/part_func_co.h</includedby>
    <incdepgraph>
      <node id="1">
        <label>ViennaRNA/concentrations.h</label>
        <link refid="concentrations_8h"/>
        <childnode refid="2" relation="include">
        </childnode>
      </node>
      <node id="19">
        <label>ViennaRNA/constraints/basic.h</label>
        <link refid="constraints_2basic_8h"/>
        <childnode refid="6" relation="include">
        </childnode>
      </node>
      <node id="18">
        <label>ViennaRNA/constraints/hard.h</label>
        <link refid="hard_8h"/>
        <childnode refid="6" relation="include">
        </childnode>
        <childnode refid="19" relation="include">
        </childnode>
        <childnode refid="10" relation="include">
        </childnode>
      </node>
      <node id="20">
        <label>ViennaRNA/constraints/soft.h</label>
        <link refid="soft_8h"/>
        <childnode refid="11" relation="include">
        </childnode>
        <childnode refid="5" relation="include">
        </childnode>
        <childnode refid="6" relation="include">
        </childnode>
        <childnode refid="19" relation="include">
        </childnode>
      </node>
      <node id="12">
        <label>ViennaRNA/datastructures/array.h</label>
        <link refid="array_8h"/>
        <childnode refid="13" relation="include">
        </childnode>
        <childnode refid="14" relation="include">
        </childnode>
      </node>
      <node id="5">
        <label>ViennaRNA/datastructures/basic.h</label>
        <link refid="datastructures_2basic_8h"/>
        <childnode refid="3" relation="include">
        </childnode>
        <childnode refid="6" relation="include">
        </childnode>
        <childnode refid="7" relation="include">
        </childnode>
        <childnode refid="2" relation="include">
        </childnode>
        <childnode refid="9" relation="include">
        </childnode>
        <childnode refid="18" relation="include">
        </childnode>
        <childnode refid="20" relation="include">
        </childnode>
        <childnode refid="22" relation="include">
        </childnode>
        <childnode refid="23" relation="include">
        </childnode>
        <childnode refid="24" relation="include">
        </childnode>
        <childnode refid="26" relation="include">
        </childnode>
        <childnode refid="27" relation="include">
        </childnode>
        <childnode refid="28" relation="include">
        </childnode>
        <childnode refid="29" relation="include">
        </childnode>
        <childnode refid="30" relation="include">
        </childnode>
      </node>
      <node id="9">
        <label>ViennaRNA/datastructures/dp_matrices.h</label>
        <link refid="datastructures_2dp__matrices_8h"/>
        <childnode refid="5" relation="include">
        </childnode>
        <childnode refid="10" relation="include">
        </childnode>
        <childnode refid="6" relation="include">
        </childnode>
      </node>
      <node id="10">
        <label>ViennaRNA/datastructures/sparse_mx.h</label>
        <link refid="sparse__mx_8h_source"/>
        <childnode refid="11" relation="include">
        </childnode>
        <childnode refid="12" relation="include">
        </childnode>
      </node>
      <node id="6">
        <label>ViennaRNA/fold_compound.h</label>
        <link refid="fold__compound_8h"/>
        <childnode refid="7" relation="include">
        </childnode>
        <childnode refid="2" relation="include">
        </childnode>
        <childnode refid="8" relation="include">
        </childnode>
        <childnode refid="9" relation="include">
        </childnode>
        <childnode refid="18" relation="include">
        </childnode>
        <childnode refid="20" relation="include">
        </childnode>
        <childnode refid="21" relation="include">
        </childnode>
        <childnode refid="22" relation="include">
        </childnode>
        <childnode refid="23" relation="include">
        </childnode>
        <childnode refid="25" relation="include">
        </childnode>
      </node>
      <node id="21">
        <label>ViennaRNA/grammar/basic.h</label>
        <link refid="grammar_2basic_8h"/>
        <childnode refid="6" relation="include">
        </childnode>
        <childnode refid="5" relation="include">
        </childnode>
        <childnode refid="12" relation="include">
        </childnode>
      </node>
      <node id="7">
        <label>ViennaRNA/model.h</label>
        <link refid="model_8h"/>
      </node>
      <node id="2">
        <label>ViennaRNA/params/basic.h</label>
        <link refid="params_2basic_8h"/>
        <childnode refid="3" relation="include">
        </childnode>
        <childnode refid="5" relation="include">
        </childnode>
        <childnode refid="6" relation="include">
        </childnode>
        <childnode refid="7" relation="include">
        </childnode>
      </node>
      <node id="3">
        <label>ViennaRNA/params/constants.h</label>
        <link refid="constants_8h"/>
        <childnode refid="4" relation="include">
        </childnode>
      </node>
      <node id="8">
        <label>ViennaRNA/sequences/sequence.h</label>
        <link refid="sequences_2sequence_8h"/>
        <childnode refid="6" relation="include">
        </childnode>
      </node>
      <node id="22">
        <label>ViennaRNA/structured_domains.h</label>
        <link refid="structured__domains_8h"/>
      </node>
      <node id="27">
        <label>ViennaRNA/structures/dotbracket.h</label>
        <link refid="dotbracket_8h"/>
        <childnode refid="24" relation="include">
        </childnode>
      </node>
      <node id="30">
        <label>ViennaRNA/structures/helix.h</label>
        <link refid="helix_8h"/>
      </node>
      <node id="29">
        <label>ViennaRNA/structures/metrics.h</label>
        <link refid="metrics_8h"/>
      </node>
      <node id="26">
        <label>ViennaRNA/structures/pairtable.h</label>
        <link refid="pairtable_8h"/>
      </node>
      <node id="24">
        <label>ViennaRNA/structures/problist.h</label>
        <link refid="problist_8h"/>
      </node>
      <node id="28">
        <label>ViennaRNA/structures/utils.h</label>
        <link refid="structures_2utils_8h"/>
      </node>
      <node id="23">
        <label>ViennaRNA/unstructured_domains.h</label>
        <link refid="unstructured__domains_8h"/>
        <childnode refid="5" relation="include">
        </childnode>
        <childnode refid="6" relation="include">
        </childnode>
        <childnode refid="24" relation="include">
        </childnode>
      </node>
      <node id="14">
        <label>ViennaRNA/utils/log.h</label>
        <link refid="log_8h"/>
        <childnode refid="15" relation="include">
        </childnode>
        <childnode refid="16" relation="include">
        </childnode>
        <childnode refid="17" relation="include">
        </childnode>
      </node>
      <node id="25">
        <label>ViennaRNA/zscore/basic.h</label>
        <link refid="zscore_2basic_8h_source"/>
      </node>
      <node id="4">
        <label>limits.h</label>
      </node>
      <node id="16">
        <label>stdarg.h</label>
      </node>
      <node id="13">
        <label>stddef.h</label>
      </node>
      <node id="15">
        <label>stdio.h</label>
      </node>
      <node id="11">
        <label>stdlib.h</label>
      </node>
      <node id="17">
        <label>time.h</label>
      </node>
    </incdepgraph>
    <invincdepgraph>
      <node id="1">
        <label>ViennaRNA/concentrations.h</label>
        <link refid="concentrations_8h"/>
        <childnode refid="2" relation="include">
        </childnode>
      </node>
      <node id="2">
        <label>ViennaRNA/part_func_co.h</label>
        <link refid="part__func__co_8h"/>
      </node>
    </invincdepgraph>
    <innerclass refid="structvrna__dimer__conc__s" prot="public">vrna_dimer_conc_s</innerclass>
    <sectiondef kind="user-defined">
      <member refid="group__pf__cofold_1gac48c2723444ecfdceafcfd525ca98322" kind="typedef"><name>vrna_dimer_conc_t</name></member>
      <member refid="group__pf__cofold_1ga46244c7adf5040580291c45b465f4efa" kind="typedef"><name>ConcEnt</name></member>
      <member refid="group__pf__cofold_1ga72e714dd5e6612b5d4d6b939c3860c4e" kind="function"><name>vrna_pf_dimer_concentrations</name></member>
      <member refid="group__pf__cofold_1ga888bc698ac08d3a057c9c0a43b548d78" kind="function"><name>vrna_equilibrium_constants</name></member>
    </sectiondef>
    <sectiondef kind="define">
      <memberdef kind="define" id="concentrations_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/concentrations.h" line="13" column="11" bodyfile="ViennaRNA/concentrations.h" bodystart="13" bodyend="-1"/>
      </memberdef>
    </sectiondef>
    <sectiondef kind="func">
      <memberdef kind="function" id="concentrations_8h_1aa9930effa92cb25d9bb149679d29d750" prot="public" static="no" const="no" explicit="no" inline="no" virt="non-virtual">
        <type><ref refid="group__pf__cofold_1gac48c2723444ecfdceafcfd525ca98322" kindref="member">vrna_dimer_conc_t</ref> *</type>
        <definition>vrna_dimer_conc_t * get_concentrations</definition>
        <argsstring>(double FEAB, double FEAA, double FEBB, double FEA, double FEB, double *startconc)</argsstring>
        <name>get_concentrations</name>
        <param>
          <type>double</type>
          <declname>FEAB</declname>
        </param>
        <param>
          <type>double</type>
          <declname>FEAA</declname>
        </param>
        <param>
          <type>double</type>
          <declname>FEBB</declname>
        </param>
        <param>
          <type>double</type>
          <declname>FEA</declname>
        </param>
        <param>
          <type>double</type>
          <declname>FEB</declname>
        </param>
        <param>
          <type>double *</type>
          <declname>startconc</declname>
        </param>
        <briefdescription>
<para>Given two start monomer concentrations a and b, compute the concentrations in thermodynamic equilibrium of all dimers and the monomers. </para>
        </briefdescription>
        <detaileddescription>
<para>This function takes an array &apos;startconc&apos; of input concentrations with alternating entries for the initial concentrations of molecules A and B (terminated by two zeroes), then computes the resulting equilibrium concentrations from the free energies for the dimers. Dimer free energies should be the dimer-only free energies, i.e. the FcAB entries from the <ref refid="group__pf__cofold_1ga444df1587c9a2ca15b8eb25188f629c3" kindref="member">vrna_dimer_pf_t</ref> struct.</para>
<para><xrefsect id="deprecated_1_deprecated000041"><xreftitle>Deprecated</xreftitle><xrefdescription></xrefdescription></xrefsect></para>
<para><parameterlist kind="param"><parameteritem>
<parameternamelist>
<parametername>FEAB</parametername>
</parameternamelist>
<parameterdescription>
<para>Free energy of AB dimer (FcAB entry) </para>
</parameterdescription>
</parameteritem>
<parameteritem>
<parameternamelist>
<parametername>FEAA</parametername>
</parameternamelist>
<parameterdescription>
<para>Free energy of AA dimer (FcAB entry) </para>
</parameterdescription>
</parameteritem>
<parameteritem>
<parameternamelist>
<parametername>FEBB</parametername>
</parameternamelist>
<parameterdescription>
<para>Free energy of BB dimer (FcAB entry) </para>
</parameterdescription>
</parameteritem>
<parameteritem>
<parameternamelist>
<parametername>FEA</parametername>
</parameternamelist>
<parameterdescription>
<para>Free energy of monomer A </para>
</parameterdescription>
</parameteritem>
<parameteritem>
<parameternamelist>
<parametername>FEB</parametername>
</parameternamelist>
<parameterdescription>
<para>Free energy of monomer B </para>
</parameterdescription>
</parameteritem>
<parameteritem>
<parameternamelist>
<parametername>startconc</parametername>
</parameternamelist>
<parameterdescription>
<para>List of start concentrations [a0],[b0],[a1],[b1],...,[an][bn],[0],[0] </para>
</parameterdescription>
</parameteritem>
</parameterlist>
<simplesect kind="return"><para><ref refid="group__pf__cofold_1gac48c2723444ecfdceafcfd525ca98322" kindref="member">vrna_dimer_conc_t</ref> array containing the equilibrium energies and start concentrations </para>
</simplesect>
</para>
        </detaileddescription>
        <inbodydescription>
        </inbodydescription>
        <location file="ViennaRNA/concentrations.h" line="151" column="20" declfile="ViennaRNA/concentrations.h" declline="151" declcolumn="20"/>
      </memberdef>
    </sectiondef>
    <briefdescription>
<para>Concentration computations for RNA-RNA interactions. </para>
    </briefdescription>
    <detaileddescription>
    </detaileddescription>
    <programlisting>
<codeline lineno="1"><highlight class="preprocessor">#ifndef<sp/>VIENNA_RNA_PACKAGE_CONCENTRATIONS_H</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="2"><highlight class="normal"></highlight><highlight class="preprocessor">#define<sp/>VIENNA_RNA_PACKAGE_CONCENTRATIONS_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="26"><highlight class="normal"></highlight></codeline>
<codeline lineno="28" refid="group__pf__cofold_1gac48c2723444ecfdceafcfd525ca98322" 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__dimer__conc__s" kindref="compound">vrna_dimer_conc_s</ref><sp/><ref refid="group__pf__cofold_1gac48c2723444ecfdceafcfd525ca98322" kindref="member">vrna_dimer_conc_t</ref>;</highlight></codeline>
<codeline lineno="29"><highlight class="normal"></highlight></codeline>
<codeline lineno="30"><highlight class="normal"></highlight></codeline>
<codeline lineno="31"><highlight class="normal"></highlight><highlight class="preprocessor">#ifndef<sp/>VRNA_DISABLE_BACKWARD_COMPATIBILITY</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="32"><highlight class="normal"></highlight></codeline>
<codeline lineno="36" refid="group__pf__cofold_1ga46244c7adf5040580291c45b465f4efa" 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__dimer__conc__s" kindref="compound">vrna_dimer_conc_s</ref><sp/><ref refid="group__pf__cofold_1ga46244c7adf5040580291c45b465f4efa" kindref="member">ConcEnt</ref>;</highlight></codeline>
<codeline lineno="37"><highlight class="normal"></highlight></codeline>
<codeline lineno="38"><highlight class="normal"></highlight><highlight class="preprocessor">#endif</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="39"><highlight class="normal"></highlight></codeline>
<codeline lineno="40"><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="41"><highlight class="normal"></highlight></codeline>
<codeline lineno="45" refid="structvrna__dimer__conc__s" refkind="compound"><highlight class="normal"></highlight><highlight class="keyword">struct<sp/></highlight><highlight class="normal"><ref refid="structvrna__dimer__conc__s" kindref="compound">vrna_dimer_conc_s</ref><sp/>{</highlight></codeline>
<codeline lineno="46" refid="structvrna__dimer__conc__s_1a6e64ce1afbc93756afef06c0e3ccce97" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/><ref refid="structvrna__dimer__conc__s_1a6e64ce1afbc93756afef06c0e3ccce97" kindref="member">Ac_start</ref>;<sp/><sp/><sp/></highlight></codeline>
<codeline lineno="47" refid="structvrna__dimer__conc__s_1a5763381efee22a0bbec2f2d0754f7697" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/><ref refid="structvrna__dimer__conc__s_1a5763381efee22a0bbec2f2d0754f7697" kindref="member">Bc_start</ref>;<sp/><sp/><sp/></highlight></codeline>
<codeline lineno="48" refid="structvrna__dimer__conc__s_1aef56a1fe8d7f07e7b5d9a65417dda8a4" refkind="member"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/><ref refid="structvrna__dimer__conc__s_1aef56a1fe8d7f07e7b5d9a65417dda8a4" kindref="member">ABc</ref>;<sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight></codeline>
<codeline lineno="49"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>AAc;</highlight></codeline>
<codeline lineno="50"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>BBc;</highlight></codeline>
<codeline lineno="51"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>Ac;</highlight></codeline>
<codeline lineno="52"><highlight class="normal"><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/>Bc;</highlight></codeline>
<codeline lineno="53"><highlight class="normal">};</highlight></codeline>
<codeline lineno="54"><highlight class="normal"></highlight></codeline>
<codeline lineno="55"><highlight class="normal"></highlight></codeline>
<codeline lineno="75" refid="group__pf__cofold_1ga72e714dd5e6612b5d4d6b939c3860c4e" refkind="member"><highlight class="normal"><ref refid="group__pf__cofold_1gac48c2723444ecfdceafcfd525ca98322" kindref="member">vrna_dimer_conc_t</ref><sp/>*<ref refid="group__pf__cofold_1ga72e714dd5e6612b5d4d6b939c3860c4e" kindref="member">vrna_pf_dimer_concentrations</ref>(</highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>FcAB,</highlight></codeline>
<codeline lineno="76"><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/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>FcAA,</highlight></codeline>
<codeline lineno="77"><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/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>FcBB,</highlight></codeline>
<codeline lineno="78"><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/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>FEA,</highlight></codeline>
<codeline lineno="79"><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/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>FEB,</highlight></codeline>
<codeline lineno="80"><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/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>*startconc,</highlight></codeline>
<codeline lineno="81"><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/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/><ref refid="group__energy__parameters_1ga01d8b92fe734df8d79a6169482c7d8d8" kindref="member">vrna_exp_param_t</ref><sp/><sp/>*exp_params);</highlight></codeline>
<codeline lineno="82"><highlight class="normal"></highlight></codeline>
<codeline lineno="83"><highlight class="normal"></highlight></codeline>
<codeline lineno="105"><highlight class="normal"></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/>*</highlight></codeline>
<codeline lineno="106" refid="group__pf__cofold_1ga888bc698ac08d3a057c9c0a43b548d78" refkind="member"><highlight class="normal"><ref refid="group__pf__cofold_1ga888bc698ac08d3a057c9c0a43b548d78" kindref="member">vrna_equilibrium_constants</ref>(</highlight><highlight class="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>*dG_complexes,</highlight></codeline>
<codeline lineno="107"><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="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>*dG_strands,</highlight></codeline>
<codeline lineno="108"><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="keyword">const</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">unsigned</highlight><highlight class="normal"><sp/></highlight><highlight class="keywordtype">int</highlight><highlight class="normal"><sp/><sp/>**A,</highlight></codeline>
<codeline lineno="109"><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">double</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>kT,</highlight></codeline>
<codeline lineno="110"><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">size_t</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>strands,</highlight></codeline>
<codeline lineno="111"><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">size_t</highlight><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/>complexes);</highlight></codeline>
<codeline lineno="112"><highlight class="normal"></highlight></codeline>
<codeline lineno="116"><highlight class="normal"></highlight></codeline>
<codeline lineno="117"><highlight class="normal"></highlight><highlight class="preprocessor">#ifndef<sp/>VRNA_DISABLE_BACKWARD_COMPATIBILITY</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="118"><highlight class="normal"></highlight></codeline>
<codeline lineno="119"><highlight class="normal"></highlight><highlight class="comment">/*</highlight></codeline>
<codeline lineno="120"><highlight class="comment"><sp/>#################################################</highlight></codeline>
<codeline lineno="121"><highlight class="comment"><sp/>#<sp/>DEPRECATED<sp/>FUNCTIONS<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></codeline>
<codeline lineno="122"><highlight class="comment"><sp/>#################################################</highlight></codeline>
<codeline lineno="123"><highlight class="comment"><sp/>*/</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="124"><highlight class="normal"></highlight></codeline>
<codeline lineno="145"><highlight class="normal">DEPRECATED(<ref refid="group__pf__cofold_1gac48c2723444ecfdceafcfd525ca98322" kindref="member">vrna_dimer_conc_t</ref><sp/>*<ref refid="concentrations_8h_1aa9930effa92cb25d9bb149679d29d750" kindref="member">get_concentrations</ref>(</highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/>FEAB,</highlight></codeline>
<codeline lineno="146"><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/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/>FEAA,</highlight></codeline>
<codeline lineno="147"><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/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/>FEBB,</highlight></codeline>
<codeline lineno="148"><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/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/>FEA,</highlight></codeline>
<codeline lineno="149"><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/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/>FEB,</highlight></codeline>
<codeline lineno="150"><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/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="keywordtype">double</highlight><highlight class="normal"><sp/>*startconc),</highlight></codeline>
<codeline lineno="151" refid="concentrations_8h_1aa9930effa92cb25d9bb149679d29d750" refkind="member"><highlight class="normal"><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/><sp/></highlight><highlight class="stringliteral">&quot;Use<sp/>vrna_pf_dimer_concentrations()<sp/>instead&quot;</highlight><highlight class="normal">);</highlight></codeline>
<codeline lineno="152"><highlight class="normal"></highlight></codeline>
<codeline lineno="153"><highlight class="normal"></highlight><highlight class="preprocessor">#endif</highlight><highlight class="normal"></highlight></codeline>
<codeline lineno="154"><highlight class="normal"></highlight></codeline>
<codeline lineno="155"><highlight class="normal"></highlight><highlight class="preprocessor">#endif</highlight></codeline>
    </programlisting>
    <location file="ViennaRNA/concentrations.h"/>
  </compounddef>
</doxygen>
