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Author SHA1 Message Date
Ray Speth
bbb5eed396 Remove unnused code from 'ext' 2016-05-14 22:00:22 -04:00
Ray Speth
df43a474cd [SCons] Modify build system to exclude unused Fortran and f2c code 
Cantera no longer requires BLAS / LAPACK (but can use them if available), so it
is never necessary to compile any of the external Fortran or f2c-converted code.
 2016-05-14 22:00:22 -04:00
Ray Speth
efb068e319 [Numerics] Modify polyfit to use Eigen instead of fortran/f2c code 2016-05-14 22:00:22 -04:00
Ray Speth
230688d31d [Test] Add test of polyfit function 2016-05-14 22:00:22 -04:00
Ray Speth
799695f0de Disable SquareMatrix LAPACK operations when LAPACK is not available 
Because SquareMatrix is unused within Cantera and deprecated, it is not
necessary to implement alternatives for these functions.
 2016-05-14 22:00:22 -04:00
Ray Speth
01d3679664 [Numerics] Deprecate matrix-type argument to GeneralMatrix 2016-05-14 22:00:22 -04:00
Ray Speth
f260e858c0 [Numerics] Deprecate class SquareMatrix 2016-05-14 22:00:22 -04:00
Ray Speth
a7d854f3b9 [Equil] Eliminate direct calls to LAPACK functions 2016-05-14 21:59:27 -04:00
Ray Speth
961ca06cd5 Eliminate the use of SquareMatrix in favor of DenseMatrix 2016-05-14 21:59:27 -04:00
Ray Speth
b49c2e4c2d [Numerics] Use Eigen instead of internal LAPACK for DenseMatrix operations 2016-05-14 21:56:17 -04:00
Ray Speth
bf67cce25f [SCons] Make Eigen available to Cantera 
Check for a system copy of Eigen, and if that is not found, install
Eigen's headers with the Cantera headers. Add the header 'eigen_dense.h'
to provide a single header to include from other locations.
 2016-05-14 21:56:17 -04:00
Ray Speth
41a357aec0 Add Eigen submodule (mirrored on Github at Cantera/eigen-mirror) 2016-05-14 21:56:17 -04:00
Ray Speth
41ae065a6e Use Sundials to solve BandMatrix instead of using internal LAPACK 2016-05-14 21:56:17 -04:00
Ray Speth
efe43b389e [1D] Add callback hooks to make debugging 1D solver easier 
This allows one to define functions in Python which will be called after each
successful time step or steady state solve, from which the state of the solver
can be inspected.
 2016-05-14 17:24:16 -04:00
Ray Speth
11db445caf [Thermo/Doc] Explain why Phase::setMolecularWeight exists 2016-05-14 16:43:35 -04:00
Ray Speth
14b9454819 [C++] Clean up of top-level headers 
These headers should only include general functionality, i.e. base classes and
factory methods. Users working directly with derived types can include the
relevant headers directly.

Deprecate some top-level headers which are not really useful.
 2016-05-14 16:10:10 -04:00
Ray Speth
a2aade2419 [Doc] Add C++ example showing initializaton of Kinetics and Transport 2016-05-14 15:01:09 -04:00
Ray Speth
828cca3c42 [1D] Simplify initial conditions for twin flame 2016-05-14 13:45:27 -04:00
Ray Speth
ed72984361 [Test/1D] Add test for twin flame 2016-05-14 13:06:45 -04:00
Santosh Shanbhogue
f699748d0e [1D/Python] Add a Twin Premixed Counterflow Flame class and example 
Resolves #340
 2016-05-14 11:48:53 -04:00
Ray Speth
920ff1d897 [Kinetics] Make better use of local variables 2016-05-12 16:33:33 -04:00
Ray Speth
248874de83 [Doc] Add description of sticking reaction parameterization 2016-05-11 14:45:36 -04:00
Ray Speth
77e6f9c0d0 Deprecate Array2D::axpy 2016-05-10 22:21:28 -04:00
Ray Speth
fc33778451 Use correct value for gas constant 
Even if it's just for part of an initial guess
 2016-05-10 22:16:46 -04:00
Ray Speth
46684646ee [Thermo] DebyeHuckel::_nonpolarActCoeff is a static method 
Definition now corresponds to documentation
 2016-05-10 22:13:43 -04:00
Ray Speth
94be25ae97 Remove duplicate definitions of LTPerror and LTPmodelError 2016-05-10 22:10:49 -04:00
Ray Speth
812290dc37 [Thermo] Deprecate ThermoPhase::installSlavePhases 
For the only class in which this is used (LatticeSolidPhase), all initialization
can be performed in the initThermo method.
 2016-05-10 20:20:35 -04:00
Ray Speth
491816f706 [Thermo] Remove overload IdealSolidSolnPhase::logStandardConc 2016-05-10 18:33:41 -04:00
Ray Speth
8ff82c06ce [Reactor] Add componentName function to ReactorNet and Reactor classes 2016-05-09 22:42:45 -04:00
Ray Speth
3a129677df [Test/Reactor] Add test to calculate sensitivity of ignition delay 
Compare result of calculating sensitivity by modifying Species object
with result using CVODES to integrate sensitivity equations
 2016-05-09 13:24:54 -04:00
Ray Speth
cf13b318f4 [Reactor] Implement enthalpy of formation sensitivity analysis 2016-05-08 18:24:14 -04:00
Ray Speth
f081fa3f91 [Doc] Add NumPy import to Python tutorial 2016-05-05 10:16:13 -04:00
Ray Speth
4eea27b0a4 Update cppformat (now fmt) 
Update to current master (pre-3.0), and change remote repository to reflect name
change from cppformat to fmt. Needed to be updated now because one of the
submodules referenced in the 1.1.0 release no longer exists due to the change in
the Github organization name from cppformat to fmtlib.
 2016-05-03 15:03:52 -04:00
Ray Speth
2561ab82e3 [Equil] Check index bounds for known problems in VCS_SOLVE 
See #187
 2016-05-03 15:03:52 -04:00
Ray Speth
aa5f26bda6 [Thermo] Check dynamic_cast to PDSS_Water 
Resolves #6
 2016-05-03 15:03:52 -04:00
Ray Speth
ca2a330d5f [XML] Include file name in XML-related errors 
Resolves #40
 2016-05-03 15:03:51 -04:00
Ray Speth
26b937651b [XML] Improve error message generated by XML_NoChild 2016-05-03 15:03:51 -04:00
Ray Speth
6003af01a3 [XML] Add version of XML_Node::build that takes file name directly 2016-05-03 15:03:51 -04:00
Ray Speth
c7a1a57fbd [Reactor] Eliminate re-ordering of sensitivity parameters 
Passing the full parameter vector to evalEqs for each reactor and wall
eliminates the need to re-order the parameter vector. Instead, each reactor and
wall just needs to know the indices of its sensitivity parameters, which are now
returned by ReactorNet::registerSensitivityReaction.
 2016-05-01 20:35:34 -04:00
Ray Speth
e13faa1071 [Base] Fix vec2str to actually use provided format string 2016-04-30 16:47:55 -04:00
Ray Speth
0e2ea0964b [Thermo] Add function 'resetHf298' 
Using this instead of modifyHf298 to reset the thermo data to its original
state avoids round-off errors that otherwise make modifications to the
species thermo data irreversible.
 2016-04-30 16:43:37 -04:00
Ray Speth
0f669153fb [Thermo] Remove unnecessary overrides of modifyOneHf298SS 2016-04-30 16:43:37 -04:00
Ray Speth
92e9e08097 [Test] Show largest error component in assertArrayNear 2016-04-29 22:11:17 -04:00
Ray Speth
e454c51925 [Numerics] Show messages from std::exception in CVODES residual function 2016-04-28 22:01:26 -04:00
Ray Speth
cd77a94588 [Numerics] Fix memory leak in CVodesIntegrator 
Memory allocated in CVodesIntegrator::sensInit was not being released.
 2016-04-20 14:35:57 -04:00
Ray Speth
032bb9c363 [Reactor] Move sensitivity parameter vector into FuncEval 
This eliminates the need for class FuncData, and makes it possible to
introduce sensitivity parameters which have a nominal values other than 1.0.
 2016-04-19 16:08:52 -04:00
Ray Speth
51b0e46277 [Thermo] ThermoPhase::modifyOneHf298SS always invalidates cached data 2016-04-18 22:20:06 -04:00
Ray Speth
3566542c0b [Equil] Replace PropertyCalculator with simple lambdas 2016-04-18 20:29:02 -04:00
Ray Speth
f4ad150905 [1D] Sim1D::setProfile checks range of position array 2016-04-18 20:00:15 -04:00
Ray Speth
6a928b57f9 Replace getValue with std::map.at where possible 
Deprecate the two-argument version of getValue, since the C++11 at method does
the same thing.
 2016-04-18 19:34:40 -04:00