Mark unused/untested classes as deprecated

Deprecated thermo classes: Adsorbate, MetalSHEelectrons, MineralEQ3,
MolarityIonicVPSSTP, PhaseCombo_Interaction

Deprecated kinetics classes: AqueousKinetics

Deprecated transport classes: LTPSpecies, LiquidTranInteraction,
LiquidTransport, LiquidTransportData, LiquidTransportParams, SimpleTransport,
SolidTransport, SolidTransportData, Tortuosity

See #267

include/cantera/kinetics/AqueousKinetics.h

@@ -26,6 +26,8 @@ namespace Cantera
  *     future version of Cantera. See
  *     https://github.com/Cantera/cantera/issues/267 for additional information.
  *
+ * @deprecated To be removed after Cantera 2.4
+ *
  * @ingroup kinetics
  */
 class AqueousKinetics : public BulkKinetics

include/cantera/thermo/AdsorbateThermo.h

@@ -29,6 +29,8 @@ namespace Cantera
  *     future version of Cantera. See
  *     https://github.com/Cantera/cantera/issues/267 for additional information.
  *
+ * @deprecated To be removed after Cantera 2.4
+ *
  * This class is designed specifically for use by the class MultiSpeciesThermo.
  * It implements a model for the thermodynamic properties of a molecule that can
  * be modeled as a set of independent quantum harmonic oscillators.
@@ -48,6 +50,7 @@ public:
     Adsorbate(double tlow, double thigh, double pref, const double* coeffs)
         : SpeciesThermoInterpType(tlow, thigh, pref)
     {
+        warn_deprecated("Class Adsorbate", "To be removed after Cantera 2.4");
         m_freq.resize(int(coeffs[0]));
         m_be = coeffs[1];
         std::copy(coeffs+2, coeffs + 2 + m_freq.size(), m_freq.begin());

include/cantera/thermo/MetalSHEelectrons.h

@@ -29,6 +29,8 @@ namespace Cantera
  *     future version of Cantera. See
  *     https://github.com/Cantera/cantera/issues/267 for additional information.
  *
+ * @deprecated To be removed after Cantera 2.4
+ *
  * The class is based on the electron having a chemical potential equal to one-
  * half of the entropy of the H2 gas at the system pressure
  *

include/cantera/thermo/MineralEQ3.h

@@ -27,6 +27,8 @@ namespace Cantera
  *     future version of Cantera. See
  *     https://github.com/Cantera/cantera/issues/267 for additional information.
  *
+ * @deprecated To be removed after Cantera 2.4
+ *
  * This class inherits from SingleSpeciesTP class. EQ's parameterization is
  * mapped onto the Shomate polynomial class.
  *
@@ -96,7 +98,9 @@ class MineralEQ3 : public StoichSubstance
 {
 public:
     //! Default constructor for the MineralEQ3 class
-    MineralEQ3() {}
+    MineralEQ3() {
+        warn_deprecated("Class MineralEQ3", "To be removed after Cantera 2.4");
+    }
 
     //! Construct and initialize a MineralEQ3 ThermoPhase object
     //! directly from an ASCII input file

include/cantera/thermo/MolarityIonicVPSSTP.h

@@ -35,6 +35,8 @@ namespace Cantera
  *     future version of Cantera. See
  *     https://github.com/Cantera/cantera/issues/267 for additional information.
  *
+ * @deprecated To be removed after Cantera 2.4
+ *
  * This class adds additional functions onto the ThermoPhase interface that
  * handles the calculation of the excess Gibbs free energy. The ThermoPhase
  * class includes a member function, ThermoPhase::activityConvention() that

include/cantera/thermo/PhaseCombo_Interaction.h

@@ -29,6 +29,8 @@ namespace Cantera
  *     future version of Cantera. See
  *     https://github.com/Cantera/cantera/issues/267 for additional information.
  *
+ * @deprecated To be removed after Cantera 2.4
+ *
  * PhaseCombo_Interaction derives from class GibbsExcessVPSSTP which is derived
  * from VPStandardStateTP, and overloads the virtual methods defined there with
  * ones that use expressions appropriate for the Margules Excess Gibbs free

include/cantera/transport/LTPspecies.h

@@ -64,6 +64,8 @@ enum LTPTemperatureDependenceType {
 //! Class LTPspecies holds transport parameterizations for a specific liquid-
 //! phase species.
 /*!
+ * @deprecated To be removed after Cantera 2.4
+ *
  * Subclasses handle different means of specifying transport properties like
  * constant, %Arrhenius or polynomial temperature fits.  In its current state,
  * it is primarily suitable for specifying temperature dependence, but the

include/cantera/transport/LiquidTranInteraction.h

@@ -18,6 +18,8 @@ namespace Cantera
 {
 //! Composition dependence type for liquid mixture transport properties
 /*!
+ * @deprecated To be removed after Cantera 2.4
+ *
  *  Types of temperature dependencies:
  *  -   0  - Mixture calculations with this property are not allowed
  *  -   1  - Use solvent (species 0) properties
@@ -86,6 +88,8 @@ enum LiquidTranMixingModel {
 
 //! Base class to handle transport property evaluation in a mixture.
 /*!
+ * @deprecated To be removed after Cantera 2.4
+ *
  * In a mixture, the mixture transport properties will generally depend on the
  * contributions of each of the standard state species transport properties.
  * Many composition dependencies are possible.  This class,

include/cantera/transport/LiquidTransport.h

@@ -26,6 +26,8 @@ namespace Cantera
  *     future version of Cantera. See
  *     https://github.com/Cantera/cantera/issues/267 for additional information.
  *
+ * @deprecated To be removed after Cantera 2.4
+ *
  * Liquid Transport is set up with some flexibility in this class.  Transport
  * properties like viscosity and thermal conductivity are allowed flexibility
  * within the constraints of the LiquidTransportProperty and

include/cantera/transport/LiquidTransportData.h

@@ -19,6 +19,8 @@ namespace Cantera
 //! Class LiquidTransportData holds transport parameters for a
 //! specific liquid-phase species.
 /*!
+ * @deprecated To be removed after Cantera 2.4
+ *
  * A LiquidTransportData object is created for each species.
  *
  * This class is mainly used to collect transport properties from the parse

include/cantera/transport/LiquidTransportParams.h

@@ -18,6 +18,8 @@ namespace Cantera
 //! Class LiquidTransportParams holds transport model parameters relevant to
 //! transport in mixtures.
 /*!
+ * @deprecated To be removed after Cantera 2.4
+ *
  * This class is used by TransportFactory to initialize transport objects.
  */
 class LiquidTransportParams : public TransportParams

include/cantera/transport/SimpleTransport.h

@@ -18,7 +18,9 @@ namespace Cantera
 //! Class SimpleTransport implements mixture-averaged transport properties for
 //! liquid phases.
 /*!
- * The model is based on that described by Newman, Electrochemical Systems
+ * @deprecated To be removed after Cantera 2.4
+ *
+ *  The model is based on that described by Newman, Electrochemical Systems
  *
  * The velocity of species i may be described by the following equation p. 297
  * (12.1)

include/cantera/transport/SolidTransport.h

@@ -19,6 +19,8 @@ namespace Cantera
 //! Class SolidTransport implements transport properties for solids.
 //! @ingroup tranprops
 /*!
+ * @deprecated To be removed after Cantera 2.4
+ *
  * @attention This class currently does not have any test cases or examples. Its
  *     implementation may be incomplete, and future changes to Cantera may
  *     unexpectedly cause this class to stop working. If you use this class,

include/cantera/transport/SolidTransportData.h

@@ -18,6 +18,8 @@ namespace Cantera
 //! Class SolidTransportData holds transport parameters for a specific solid-
 //! phase species.
 /*!
+ * @deprecated To be removed after Cantera 2.4
+ *
  * A SolidTransportData object is created for a solid phase
  * (not for each species as happens for the analogous LiquidTransportData).
  *

include/cantera/transport/Tortuosity.h

@@ -24,6 +24,8 @@ namespace Cantera
  *     future version of Cantera. See
  *     https://github.com/Cantera/cantera/issues/267 for additional information.
  *
+ * @deprecated To be removed after Cantera 2.4
+ *
  * Class to compute the increase in diffusive path length associated with
  * tortuous path diffusion through, for example, porous media. This base class
  * implementation relates tortuosity to volume fraction through a power-law

src/kinetics/AqueousKinetics.cpp

@@ -18,6 +18,7 @@ namespace Cantera
 AqueousKinetics::AqueousKinetics(thermo_t* thermo) :
     BulkKinetics(thermo)
 {
+    warn_deprecated("Class AqueousKinetics", "To be removed after Cantera 2.4");
 }
 
 void AqueousKinetics::_update_rates_T()

src/thermo/MetalSHEelectrons.cpp

@@ -20,15 +20,18 @@ namespace Cantera
 
 MetalSHEelectrons::MetalSHEelectrons()
 {
+    warn_deprecated("Class MetalSHEelectrons", "To be removed after Cantera 2.4");
 }
 
 MetalSHEelectrons::MetalSHEelectrons(const std::string& infile, const std::string& id_)
 {
+    warn_deprecated("Class MetalSHEelectrons", "To be removed after Cantera 2.4");
     initThermoFile(infile, id_);
 }
 
 MetalSHEelectrons::MetalSHEelectrons(XML_Node& xmlphase, const std::string& id_)
 {
+    warn_deprecated("Class MetalSHEelectrons", "To be removed after Cantera 2.4");
     importPhase(xmlphase, this);
 }
 

src/thermo/MineralEQ3.cpp

@@ -22,11 +22,13 @@ namespace Cantera
 
 MineralEQ3::MineralEQ3(const std::string& infile, const std::string& id_)
 {
+    warn_deprecated("Class MineralEQ3", "To be removed after Cantera 2.4");
     initThermoFile(infile, id_);
 }
 
 MineralEQ3::MineralEQ3(XML_Node& xmlphase, const std::string& id_)
 {
+    warn_deprecated("Class MineralEQ3", "To be removed after Cantera 2.4");
     importPhase(xmlphase, this);
 }
 

src/thermo/MolarityIonicVPSSTP.cpp

@@ -30,6 +30,7 @@ MolarityIonicVPSSTP::MolarityIonicVPSSTP() :
     numPBSpecies_(m_kk),
     neutralPBindexStart(0)
 {
+    warn_deprecated("Class MolarityIonicVPSSTP", "To be removed after Cantera 2.4");
 }
 
 MolarityIonicVPSSTP::MolarityIonicVPSSTP(const std::string& inputFile,
@@ -38,6 +39,7 @@ MolarityIonicVPSSTP::MolarityIonicVPSSTP(const std::string& inputFile,
     numPBSpecies_(m_kk),
     neutralPBindexStart(0)
 {
+    warn_deprecated("Class MolarityIonicVPSSTP", "To be removed after Cantera 2.4");
     initThermoFile(inputFile, id_);
 }
 
@@ -47,6 +49,7 @@ MolarityIonicVPSSTP::MolarityIonicVPSSTP(XML_Node& phaseRoot,
     numPBSpecies_(m_kk),
     neutralPBindexStart(0)
 {
+    warn_deprecated("Class MolarityIonicVPSSTP", "To be removed after Cantera 2.4");
     importPhase(phaseRoot, this);
 }
 

src/thermo/PhaseCombo_Interaction.cpp

@@ -19,6 +19,7 @@ PhaseCombo_Interaction::PhaseCombo_Interaction() :
     formMargules_(0),
     formTempModel_(0)
 {
+    warn_deprecated("Class PhaseCombo_Interaction", "To be removed after Cantera 2.4");
 }
 
 PhaseCombo_Interaction::PhaseCombo_Interaction(const std::string& inputFile,
@@ -27,6 +28,7 @@ PhaseCombo_Interaction::PhaseCombo_Interaction(const std::string& inputFile,
     formMargules_(0),
     formTempModel_(0)
 {
+    warn_deprecated("Class PhaseCombo_Interaction", "To be removed after Cantera 2.4");
     initThermoFile(inputFile, id_);
 }
 
@@ -36,6 +38,7 @@ PhaseCombo_Interaction::PhaseCombo_Interaction(XML_Node& phaseRoot,
     formMargules_(0),
     formTempModel_(0)
 {
+    warn_deprecated("Class PhaseCombo_Interaction", "To be removed after Cantera 2.4");
     importPhase(phaseRoot, this);
 }
 

src/transport/LTPspecies.cpp

@@ -56,6 +56,7 @@ LTPspecies::LTPspecies() :
     m_thermo(0),
     m_mixWeight(1.0)
 {
+    warn_deprecated("class LTPspecies", "To be removed after Cantera 2.4");
 }
 
 LTPspecies* LTPspecies::duplMyselfAsLTPspecies() const

src/transport/LiquidTranInteraction.cpp

@@ -34,6 +34,7 @@ LiquidTranInteraction::LiquidTranInteraction(TransportPropertyType tp_ind) :
     m_model(LTI_MODEL_NOTSET),
     m_property(tp_ind)
 {
+    warn_deprecated("Class LiquidTranInteraction", "To be removed after Cantera 2.4");
 }
 
 LiquidTranInteraction::~LiquidTranInteraction()

src/transport/LiquidTransport.cpp

@@ -52,6 +52,7 @@ LiquidTransport::LiquidTransport(thermo_t* thermo, int ndim) :
     m_mode(-1000),
     m_debug(false)
 {
+    warn_deprecated("Class LiquidTransport", "To be removed after Cantera 2.4");
 }
 
 LiquidTransport::~LiquidTransport()

src/transport/LiquidTransportData.cpp

@@ -20,6 +20,7 @@ LiquidTransportData::LiquidTransportData() :
     electCond(0),
     speciesDiffusivity(0)
 {
+    warn_deprecated("class LiquidTransportData", "To be removed after Cantera 2.4");
 }
 
 LiquidTransportData::LiquidTransportData(const LiquidTransportData& right) :

src/transport/LiquidTransportParams.cpp

@@ -24,6 +24,7 @@ LiquidTransportParams::LiquidTransportParams() :
     model_hydroradius(LTI_MODEL_NOTSET),
     compositionDepTypeDefault_(LTI_MODEL_NOTSET)
 {
+    warn_deprecated("Class LiquidTransportParams", "To be removed after Cantera 2.4");
 }
 
 LiquidTransportParams::~LiquidTransportParams()

src/transport/SimpleTransport.cpp

@@ -34,6 +34,7 @@ SimpleTransport::SimpleTransport(thermo_t* thermo, int ndim) :
     m_cond_mix_ok(false),
     m_nDim(1)
 {
+    warn_deprecated("Class SimpleTransport", "To be removed after Cantera 2.4");
 }
 
 SimpleTransport::~SimpleTransport()

src/transport/SolidTransport.cpp

@@ -22,6 +22,7 @@ SolidTransport::SolidTransport() :
     m_Nlam(0),
     m_Elam(0)
 {
+    warn_deprecated("Class SolidTransport", "To be removed after Cantera 2.4");
 }
 
 bool SolidTransport::initSolid(SolidTransportData& tr)

src/transport/SolidTransportData.cpp

@@ -20,6 +20,7 @@ SolidTransportData::SolidTransportData() :
     defectDiffusivity(0),
     defectActivity(0)
 {
+    warn_deprecated("Class SolidTransportData", "To be removed after Cantera 2.4");
 }
 
 SolidTransportData::SolidTransportData(const SolidTransportData& right) :

test/transport/transportFromScratch.cpp

@@ -263,7 +263,7 @@ TEST_F(SimpleTransportTest, fromXML)
 int main(int argc, char** argv)
 {
     printf("Running main() from transportFromScratch.cpp\n");
-    Cantera::make_deprecation_warnings_fatal();
+    // Cantera::make_deprecation_warnings_fatal();
     testing::InitGoogleTest(&argc, argv);
     int result = RUN_ALL_TESTS();
     appdelete();