[docs] Make Doxygen style more consistent (con't)

doc/doxygen/thermoprops.dox

@@ -176,90 +176,90 @@
  *
  *     <TABLE>
  *      <TR>
- *        <TD> \link Cantera::ThermoPhase::setState_TPX() setState_TPX()\endlink </TD>
+ *        <TD> @link Cantera::ThermoPhase::setState_TPX() setState_TPX()@endlink </TD>
  *        <TD>    Sets the temperature, mole fractions and then the pressure
  *                of the phase. </TD>
  *      </TR>
  *      <TR>
- *        <TD> \link Cantera::ThermoPhase::setState_TPY() setState_TPY()\endlink    </TD>
+ *        <TD> @link Cantera::ThermoPhase::setState_TPY() setState_TPY()@endlink    </TD>
  *        <TD>    Set the temperature, mass fractions and then the pressure
  *                of the phase. </TD>
  *      </TR>
  *      <TR>
- *        <TD> \link Cantera::MolalityVPSSTP::setState_TPM() setState_TPM()\endlink     </TD>
+ *        <TD> @link Cantera::MolalityVPSSTP::setState_TPM() setState_TPM()@endlink     </TD>
  *        <TD>    Set the temperature, solute molalities, and then the
  *                pressure of the phase. Only from %ThermoPhase objects which
  *                inherit from MolalityVPSSTP
  *        </TD>
  *      </TR>
  *      <TR>
- *        <TD> \link Cantera::ThermoPhase::setState_TP() setState_TP()\endlink     </TD>
+ *        <TD> @link Cantera::ThermoPhase::setState_TP() setState_TP()@endlink     </TD>
  *        <TD>    Set the temperature, and then the pressure
  *                of the phase. The mole fractions are assumed fixed.
  *        </TD>
  *      </TR>
  *      <TR>
- *        <TD> \link Cantera::ThermoPhase::setState_PX() setState_PX()\endlink     </TD>
+ *        <TD> @link Cantera::ThermoPhase::setState_PX() setState_PX()@endlink     </TD>
  *        <TD>    Set the mole fractions and then the pressure
  *                         of the phase. The temperature is assumed fixed.
  *        </TD>
  *      </TR>
  *      <TR>
- *        <TD> \link Cantera::ThermoPhase::setState_PY() setState_PY()\endlink     </TD>
+ *        <TD> @link Cantera::ThermoPhase::setState_PY() setState_PY()@endlink     </TD>
  *        <TD>  Set the mass fractions and then the pressure
  *                         of the phase. The temperature is assumed fixed.
  *        </TD>
  *      </TR>
  *      <TR>
- *        <TD> \link Cantera::ThermoPhase::setState_HP() setState_HP()\endlink     </TD>
+ *        <TD> @link Cantera::ThermoPhase::setState_HP() setState_HP()@endlink     </TD>
  *        <TD> Set the total specific enthalpy and the pressure
  *                         of the phase using an iterative process.
  *                         The mole fractions are assumed fixed
  *        </TD>
  *      </TR>
  *      <TR>
- *        <TD> \link Cantera::ThermoPhase::setState_UV() setState_UV()\endlink     </TD>
+ *        <TD> @link Cantera::ThermoPhase::setState_UV() setState_UV()@endlink     </TD>
  *        <TD>  Set the total specific internal energy and the pressure
  *                         of the phase using an iterative process.
  *                         The mole fractions are assumed fixed.
  *        </TD>
  *      </TR>
  *      <TR>
- *        <TD> \link Cantera::ThermoPhase::setState_SP setState_SP()\endlink     </TD>
+ *        <TD> @link Cantera::ThermoPhase::setState_SP setState_SP()@endlink     </TD>
  *        <TD>  Set the total specific internal energy and the pressure
  *                         of the phase using an iterative process.
  *                         The mole fractions are assumed fixed.
  *        </TD>
  *      </TR>
  *      <TR>
- *        <TD> \link Cantera::ThermoPhase::setState_SV setState_SV()\endlink     </TD>
+ *        <TD> @link Cantera::ThermoPhase::setState_SV setState_SV()@endlink     </TD>
  *        <TD> Set the total specific entropy and the total specific
  *                         molar volume of the phase using an iterative process.
  *                         The mole fractions are assumed fixed.
  *        </TD>
  *      </TR>
  *      <TR>
- *        <TD> \link Cantera::Phase::setConcentrations setConcentrations()\endlink     </TD>
+ *        <TD> @link Cantera::Phase::setConcentrations setConcentrations()@endlink     </TD>
  *        <TD> Set the concentrations of all the species in the
  *                         phase. Note this implicitly specifies the pressure and
  *                         density of the phase. The temperature is assumed fixed.
  *        </TD>
  *      </TR>
  *      <TR>
- *        <TD> \link Cantera::Phase::setDensity setDensity()\endlink     </TD>
+ *        <TD> @link Cantera::Phase::setDensity setDensity()@endlink     </TD>
  *        <TD>  Set the total density of the phase. The temperature and
  *                         mole fractions are assumed fixed. Note this implicitly
  *                         sets the pressure of the phase.
  *        </TD>
  *      </TR>
  *      <TR>
- *        <TD> \link Cantera::Phase::setTemperature() setTemperature()\endlink     </TD>
+ *        <TD> @link Cantera::Phase::setTemperature() setTemperature()@endlink     </TD>
  *        <TD> Set the temperature of the phase. The density and
  *                         the mole fractions of the phase are fixed.
  *        </TD>
  *      </TR>
  *      <TR>
- *        <TD> \link Cantera::ThermoPhase::setToEquilState() setToEquilState()\endlink     </TD>
+ *        <TD> @link Cantera::ThermoPhase::setToEquilState() setToEquilState()@endlink     </TD>
  *        <TD>  Sets the mole fractions of the phase to their
  *                         equilibrium values assuming fixed temperature and
  *                         total density.

include/cantera/base/Units.h

@@ -2,7 +2,7 @@
  * @file Units.h
  * Header for unit conversion utilities, which are used to translate
  * user input from input files (See @ref inputGroup and
- * class \link Cantera::Units Units\endlink).
+ * class @link Cantera::Units Units@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/base/logger.h

@@ -1,7 +1,7 @@
 /**
  * @file logger.h
  * Header for Base class for 'loggers' that write text messages to log files
- * (see @ref logGroup and class \link Cantera::Logger Logger\endlink).
+ * (see @ref logGroup and class @link Cantera::Logger Logger@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/equil/MultiPhase.h

@@ -1,6 +1,6 @@
 /**
  * @file MultiPhase.h
- * Headers for the \link Cantera::MultiPhase MultiPhase\endlink
+ * Headers for the @link Cantera::MultiPhase MultiPhase@endlink
  * object that is used to set up multiphase equilibrium problems (see @ref equilGroup).
  */
 

include/cantera/equil/vcs_solve.h

@@ -1,7 +1,7 @@
 /**
  * @file vcs_solve.h Header file for the internal object that holds the vcs
- *    equilibrium problem (see Class \link Cantera::VCS_SOLVE
- *    VCS_SOLVE\endlink and @ref equilGroup ).
+ *    equilibrium problem (see Class @link Cantera::VCS_SOLVE
+ *    VCS_SOLVE@endlink and @ref equilGroup ).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/kinetics/ImplicitSurfChem.h

@@ -2,7 +2,7 @@
  *  @file ImplicitSurfChem.h
  * Declarations for the implicit integration of surface site density equations
  *  (see @ref  kineticsmgr and class
- *  \link Cantera::ImplicitSurfChem ImplicitSurfChem\endlink).
+ *  @link Cantera::ImplicitSurfChem ImplicitSurfChem@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/kinetics/Kinetics.h

@@ -2,7 +2,7 @@
  * @file Kinetics.h
  *  Base class for kinetics managers and also contains the kineticsmgr
  *  module documentation (see @ref  kineticsmgr and class
- *  \link Cantera::Kinetics Kinetics\endlink).
+ *  @link Cantera::Kinetics Kinetics@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/kinetics/ReactionRateFactory.h

@@ -1,7 +1,7 @@
 /**
  *  @file ReactionRateFactory.h
  *  Factory class for reaction rate objects. Used by classes that implement kinetics
- *  (see @ref reactionGroup and class \link Cantera::ReactionRate ReactionRate\endlink).
+ *  (see @ref reactionGroup and class @link Cantera::ReactionRate ReactionRate@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/kinetics/solveSP.h

@@ -1,6 +1,6 @@
 /**
  * @file solveSP.h Header file for implicit surface problem solver (see @ref
- *       chemkinetics and class \link Cantera::solveSP solveSP\endlink).
+ *       chemkinetics and class @link Cantera::solveSP solveSP@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/numerics/BandMatrix.h

@@ -2,7 +2,7 @@
  *  @file BandMatrix.h
  *   Declarations for the class BandMatrix
  *   which is a child class of GeneralMatrix for banded matrices handled by solvers
- *    (see class @ref numerics and \link Cantera::BandMatrix BandMatrix\endlink).
+ *    (see class @ref numerics and @link Cantera::BandMatrix BandMatrix@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/numerics/DenseMatrix.h

@@ -2,7 +2,7 @@
  *  @file DenseMatrix.h
  *  Headers for the DenseMatrix object, which deals with dense rectangular matrices and
  *  description of the numerics groupings of objects
- *  (see @ref numerics and \link Cantera::DenseMatrix DenseMatrix \endlink) .
+ *  (see @ref numerics and @link Cantera::DenseMatrix DenseMatrix @endlink) .
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/numerics/GeneralMatrix.h

@@ -1,7 +1,7 @@
 /**
  *  @file GeneralMatrix.h
  *   Declarations for the class GeneralMatrix which is a virtual base class for matrices handled by solvers
- *    (see class @ref matrices and \link Cantera::GeneralMatrix GeneralMatrix\endlink).
+ *    (see class @ref matrices and @link Cantera::GeneralMatrix GeneralMatrix@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/thermo/BinarySolutionTabulatedThermo.h

@@ -2,7 +2,7 @@
  * @file BinarySolutionTabulatedThermo.h
  * Header file for an binary solution model with tabulated standard state
  * thermodynamic data (see @ref thermoprops and class
- * \link Cantera::BinarySolutionTabulatedThermo BinarySolutionTabulatedThermo\endlink).
+ * @link Cantera::BinarySolutionTabulatedThermo BinarySolutionTabulatedThermo@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/thermo/ConstCpPoly.h

@@ -1,8 +1,8 @@
 /**
  *  @file ConstCpPoly.h
- * Headers for the \link Cantera::SpeciesThermoInterpType SpeciesThermoInterpType\endlink
+ * Headers for the @link Cantera::SpeciesThermoInterpType SpeciesThermoInterpType@endlink
  * object that employs a constant heat capacity assumption (see @ref spthermo and
- * \link Cantera::ConstCpPoly ConstCpPoly\endlink).
+ * @link Cantera::ConstCpPoly ConstCpPoly@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/thermo/CoverageDependentSurfPhase.h

@@ -4,7 +4,7 @@
  *  phase derived from SurfPhase, applying adsorbate lateral interaction
  *  correction factors to the SurfPhase thermodynamic properties.
  *  (see @ref thermoprops and class
- *  \link Cantera::CoverageDependentSurfPhase CoverageDependentSurfPhase\endlink).
+ *  @link Cantera::CoverageDependentSurfPhase CoverageDependentSurfPhase@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/thermo/DebyeHuckel.h

@@ -2,7 +2,7 @@
  *  @file DebyeHuckel.h
  *    Headers for the DebyeHuckel ThermoPhase object, which models dilute
  *    electrolyte solutions
- *    (see @ref thermoprops and \link Cantera::DebyeHuckel DebyeHuckel \endlink) .
+ *    (see @ref thermoprops and @link Cantera::DebyeHuckel DebyeHuckel @endlink) .
  *
  * Class DebyeHuckel represents a dilute liquid electrolyte phase which
  * obeys the Debye Huckel formulation for nonideality.

include/cantera/thermo/EdgePhase.h

@@ -1,7 +1,7 @@
 /**
  *  @file EdgePhase.h Declarations for the EdgePhase ThermoPhase object, which
  *       models the interface between two surfaces (see @ref thermoprops and
- *       \link Cantera::EdgePhase EdgePhase\endlink).
+ *       @link Cantera::EdgePhase EdgePhase@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/thermo/GibbsExcessVPSSTP.h

@@ -3,7 +3,7 @@
  *   Header for intermediate ThermoPhase object for phases which
  *   employ Gibbs excess free energy based formulations
  *  (see @ref thermoprops
- * and class \link Cantera::GibbsExcessVPSSTP GibbsExcessVPSSTP\endlink).
+ * and class @link Cantera::GibbsExcessVPSSTP GibbsExcessVPSSTP@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/thermo/HMWSoln.h

@@ -2,7 +2,7 @@
  *  @file HMWSoln.h
  *    Headers for the HMWSoln ThermoPhase object, which models concentrated
  *    electrolyte solutions
- *    (see @ref thermoprops and \link Cantera::HMWSoln HMWSoln \endlink) .
+ *    (see @ref thermoprops and @link Cantera::HMWSoln HMWSoln @endlink) .
  *
  * Class HMWSoln represents a concentrated liquid electrolyte phase which
  * obeys the Pitzer formulation for nonideality using molality-based

include/cantera/thermo/IdealGasPhase.h

@@ -2,7 +2,7 @@
  *  @file IdealGasPhase.h
  *   ThermoPhase object for the ideal gas equation of
  * state - workhorse for %Cantera (see @ref thermoprops
- * and class \link Cantera::IdealGasPhase IdealGasPhase\endlink).
+ * and class @link Cantera::IdealGasPhase IdealGasPhase@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or
@@ -33,8 +33,8 @@ namespace Cantera
  *
  * It is assumed that the reference state thermodynamics may be obtained by a
  * pointer to a populated species thermodynamic property manager class in the
- * base class, ThermoPhase::m_spthermo (see the base class \link
- * Cantera::MultiSpeciesThermo MultiSpeciesThermo \endlink for a description of
+ * base class, ThermoPhase::m_spthermo (see the base class @link
+ * Cantera::MultiSpeciesThermo MultiSpeciesThermo @endlink for a description of
  * the specification of reference state species thermodynamics functions). The
  * reference state, where the pressure is fixed at a single pressure, is a key
  * species property calculation for the Ideal Gas Equation of state.

include/cantera/thermo/IdealMolalSoln.h

@@ -2,7 +2,7 @@
  *  @file IdealMolalSoln.h
  *   ThermoPhase object for the ideal molal equation of
  * state (see @ref thermoprops
- * and class \link Cantera::IdealMolalSoln IdealMolalSoln\endlink).
+ * and class @link Cantera::IdealMolalSoln IdealMolalSoln@endlink).
  *
  * Header file for a derived class of ThermoPhase that handles variable pressure
  * standard state methods for calculating thermodynamic properties that are

include/cantera/thermo/IdealSolidSolnPhase.h

@@ -1,7 +1,7 @@
 /**
  * @file IdealSolidSolnPhase.h Header file for an ideal solid solution model
  *      with incompressible thermodynamics (see @ref thermoprops and
- *      \link Cantera::IdealSolidSolnPhase IdealSolidSolnPhase\endlink).
+ *      @link Cantera::IdealSolidSolnPhase IdealSolidSolnPhase@endlink).
  *
  * This class inherits from the %Cantera class ThermoPhase and implements an
  * ideal solid solution model with incompressible thermodynamics.

include/cantera/thermo/IdealSolnGasVPSS.h

@@ -4,7 +4,7 @@
  * an ideal solution approximation and handles
  * variable pressure standard state methods for calculating
  * thermodynamic properties (see @ref thermoprops and
- * class \link Cantera::IdealSolnGasVPSS IdealSolnGasVPSS\endlink).
+ * class @link Cantera::IdealSolnGasVPSS IdealSolnGasVPSS@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/thermo/IonsFromNeutralVPSSTP.h

@@ -1,8 +1,8 @@
 /**
  *  @file IonsFromNeutralVPSSTP.h Header for intermediate ThermoPhase object for
  *   phases which consist of ions whose thermodynamics is calculated from
- *   neutral molecule thermodynamics. (see @ref thermoprops and class \link
- *   Cantera::IonsFromNeutralVPSSTP IonsFromNeutralVPSSTP\endlink).
+ *   neutral molecule thermodynamics. (see @ref thermoprops and class @link
+ *   Cantera::IonsFromNeutralVPSSTP IonsFromNeutralVPSSTP@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/thermo/LatticePhase.h

@@ -1,8 +1,8 @@
 /**
  *  @file LatticePhase.h Header for a simple thermodynamics model of a bulk
  *      phase derived from ThermoPhase, assuming a lattice of solid atoms (see
- *      @ref thermoprops and class \link Cantera::LatticePhase
- *      LatticePhase\endlink).
+ *      @ref thermoprops and class @link Cantera::LatticePhase
+ *      LatticePhase@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/thermo/LatticeSolidPhase.h

@@ -1,8 +1,8 @@
 /**
  *  @file LatticeSolidPhase.h Header for a simple thermodynamics model of a bulk
  *      solid phase derived from ThermoPhase, assuming an ideal solution model
- *      based on a lattice of solid atoms (see @ref thermoprops and class \link
- *      Cantera::LatticeSolidPhase LatticeSolidPhase\endlink).
+ *      based on a lattice of solid atoms (see @ref thermoprops and class @link
+ *      Cantera::LatticeSolidPhase LatticeSolidPhase@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/thermo/MargulesVPSSTP.h

@@ -1,6 +1,6 @@
 /**
- *  @file  MargulesVPSSTP.h (see @ref thermoprops and class \link
- *      Cantera::MargulesVPSSTP MargulesVPSSTP\endlink).
+ *  @file  MargulesVPSSTP.h (see @ref thermoprops and class @link
+ *      Cantera::MargulesVPSSTP MargulesVPSSTP@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/thermo/MixtureFugacityTP.h

@@ -2,7 +2,7 @@
  *  @file MixtureFugacityTP.h
  *    Header file for a derived class of ThermoPhase that handles
  *    non-ideal mixtures based on the fugacity models (see @ref thermoprops and
- *    class \link Cantera::MixtureFugacityTP MixtureFugacityTP\endlink).
+ *    class @link Cantera::MixtureFugacityTP MixtureFugacityTP@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or

include/cantera/thermo/MolalityVPSSTP.h

@@ -3,7 +3,7 @@
  *   Header for intermediate ThermoPhase object for phases which
  *   employ molality based activity coefficient formulations
  *  (see @ref thermoprops
- * and class \link Cantera::MolalityVPSSTP MolalityVPSSTP\endlink).
+ * and class @link Cantera::MolalityVPSSTP MolalityVPSSTP@endlink).
  *
  * Header file for a derived class of ThermoPhase that handles
  * variable pressure standard state methods for calculating

include/cantera/thermo/Mu0Poly.h

@@ -1,9 +1,9 @@
 /**
  *  @file Mu0Poly.h
  *  Header for a single-species standard state object derived
- *  from \link Cantera::SpeciesThermoInterpType SpeciesThermoInterpType\endlink  based
+ *  from @link Cantera::SpeciesThermoInterpType SpeciesThermoInterpType@endlink  based
  *  on a piecewise constant mu0 interpolation
- *  (see @ref spthermo and class \link Cantera::Mu0Poly Mu0Poly\endlink).
+ *  (see @ref spthermo and class @link Cantera::Mu0Poly Mu0Poly@endlink).
  */
 
 // This file is part of Cantera. See License.txt in the top-level directory or