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815 commits

Author SHA1 Message Date
Santosh Shanbhogue
3593fad14a Fix ct2ctml when string passed as 'source' argument 
Make ct2ctml create a temp cti file for a large source argument

Fixes #416
 2016-12-29 22:06:27 -05:00
EmilAtz
1e08d7499c Deprecation of MatLab importPhase function 
Addition of comments in importPhase to warn for function deprecation.
 2016-12-21 15:39:54 -05:00
Ray Speth
2284bc9186 [Transport] Fix transport geometry flag check for charged species 
Electrons should not be counted when determining the number of atoms in a
molecule and the corresponding allowable molecular geometries.
 2016-12-17 19:09:37 -05:00
Bryan W. Weber
2024d0f08a [SCons] Fix calling 3to2 on Windows with conda 3to2 package 
Fixes #408
 2016-12-09 20:13:22 -05:00
Santosh Shanbhogue
d1df40af87 Separate transport data from comments in parseTransportData 2016-12-09 19:59:52 -05:00
Santosh Shanbhogue
3f382e2590 Add test to catch superflous entries in a tranport file 2016-12-09 19:59:52 -05:00
Santosh Shanbhogue
06578612eb Identify species with bad transport entries 2016-12-09 19:59:52 -05:00
Bryan W. Weber
c7db81f33c [Doc] Document the ReactorSurface class in Python 
Fixes #407
 2016-12-09 19:51:46 -05:00
Bryan W. Weber
4829310f11 Add messages to the assertion statements in thermo.pyx 
Fixes #335
 2016-11-27 23:28:21 -05:00
Ray Speth
aa4d07f543 [Thermo] Allow discontinuous thermo warnings to be suppressed 
Resolves #354
 2016-11-26 00:57:23 -05:00
Ray Speth
8e6d53d18b Enable parsing of composition strings when species names contain colons 2016-11-25 18:19:38 -05:00
Ray Speth
1db103cd87 Fix Phase.species_index when species name contains a colon 2016-11-25 18:19:38 -05:00
Ray Speth
3300611379 Allow colons in species names in CTI phase definitions 2016-11-25 18:19:38 -05:00
Bryan W. Weber
05ad05c904 [ck2cti/Test] Add tests for explicit reverse reaction equal to zero 2016-11-25 18:18:38 -05:00
Bryan W. Weber
a9814a1216 [ck2cti] Don't include reactions with explicit reverse rate equal to zero 2016-11-25 18:18:38 -05:00
Bryan W. Weber
6b32c73eee [ck2cti] Use logging.error when a thermo entry can't be read. 
This matches the use when a reaction line can't be read.
 2016-11-25 18:18:38 -05:00
Bryan W. Weber
ce90a798c5 [ck2cti] Raise ValueError in compatible_quantities instead of Exception 2016-11-25 18:18:38 -05:00
Bryan W. Weber
990f995796 [ck2cti] Minor spacing updates to improve legibility 2016-11-25 18:18:38 -05:00
Bryan W. Weber
bed546ad92 [ck2cti] Remove unused isnumberlike function 2016-11-25 18:18:38 -05:00
Bryan W. Weber
e250d23435 [ck2cti] remove duplicate sys import 2016-11-25 18:18:38 -05:00
Ray Speth
6dc92b618f [Doc] Eliminate some Doxygen and Sphinx warnings 2016-11-14 17:43:45 -05:00
Ray Speth
170f1d0fad [1D/Python] Avoid unnecessary solve if first attempt succeeded 2016-11-12 16:15:38 -05:00
Ray Speth
4753ae4a86 [1D/Python] Add adjoint laminar flame speed sensitivity calculation 
This is approximately an order of magnitude faster than the 'forward' method for
calculating these sensitivities. It also eliminates the need to adjust the
solver tolerances.
 2016-11-12 14:48:01 -05:00
Ray Speth
ca8b101acc [1D] Add general support for calculating adjoint sensitivities 2016-11-12 14:48:01 -05:00
Ray Speth
2d623e893e [Python] Fix documentation for Sim1D.set_steady_callback 2016-11-11 23:06:35 -05:00
Ray Speth
5641fa83e9 [clib/Matlab] Add function for getting Cantera version 2016-11-11 23:06:35 -05:00
Ray Speth
828fba5611 [CTI] Improve error messages associated with problematic reactions 2016-11-11 23:06:35 -05:00
Bryan W. Weber
4fb0d52d4b [Test] Remove printed output from tests 2016-11-11 17:40:46 -05:00
Bryan W. Weber
06a739d26e [Test/1D] Add tests for max_grid_points 2016-11-11 17:40:46 -05:00
Bryan W. Weber
3fd46f7a1f [Cython/1D] Modify the auto solver so the minimal code is in the try block. 
This ensures we only catch an error from a single solve call so it is handled properly.
 2016-11-11 17:40:46 -05:00
Bryan W. Weber
c91bdee2e2 [Cython/1D] Raise an error if the auto solver exceeds the max number of grid points 2016-11-11 17:40:46 -05:00
Bryan W. Weber
a82dd5a483 [Cython/1D] Add Cython interface for getting/setting max_grid_points 2016-11-11 17:40:46 -05:00
Bryan W. Weber
4e1c45c2aa [Test] Fix typo in test_multiComponent 2016-11-10 15:16:10 -05:00
Bryan W. Weber
e235f69543 [Cython/Test] Make python tests portable 2016-11-10 15:16:10 -05:00
Bryan W. Weber
fc9270786f [Cython/Test] Add working directory attributes to CanteraTest class 2016-11-10 15:16:10 -05:00
Bryan W. Weber
ea4b3502c3 [Cython/Test] Install extra data files from main data directory 2016-11-10 15:16:10 -05:00
Bryan W. Weber
1cdc6b6d7e Add C-Lib and Matlab interface to getDataDirectories 2016-10-31 17:14:26 -04:00
Bryan W. Weber
d1c2ec48e7 Add function to get the data directories Cantera searches 2016-10-31 17:14:26 -04:00
Ray Speth
52727a9550 [1D] Eliminate unnecessary state variables from Inlet1D 
We do not need to solve the trivial equations 'T = Tin' and 'mdot = mdot_in'.
 2016-10-30 21:35:20 -04:00
Ray Speth
95764fdf6e [Reactor] Add tests for reactors using pure fluid phases 2016-10-23 17:17:28 -04:00
Ray Speth
3f3b96587b [Thermo] Fix finite-difference properties in two-phase region 
These properties are actually infinite in the two-phase region, but attempting
to compute them by finite difference would incorrectly give a finite result, so
they need to be treated as a special case.
 2016-10-21 13:28:51 -04:00
Ray Speth
a92245f683 [Thermo] Fix calculation of derivative properties of pure fluids 
Calculating specific heat capacities (cp or cv) for states near the saturation
curve would give incorrect results if the finite difference method used points
within the saturation region. To avoid this, we now check the points used for
computing the properties and use values outside the saturation region to compute
the derivatives.

Fixes #273
 2016-10-21 13:28:51 -04:00
Ray Speth
b1a1ce6e23 [Thermo] Fix pure fluid thermal expansion coefficient calculation 2016-10-19 19:51:31 -04:00
Ray Speth
5b1a4a60bb [Thermo] Fix silent failures in HP/UV/SV/SP convergence 
In cases where the specified state was non-physical (i.e. corresponded to a
negative temperature), the iteration would exit when the temperature reached a
small enough value. Computing the error in temperature relative to the current
temperature avoids this problem.

Fixes #264
 2016-10-19 10:58:22 -04:00
Ray Speth
89d0c5601f [Python] Add CanteraError class for execptions 
Anything that raises a CanteraError in C++ will now raise CanteraError in
Python, instead of the more generic RuntimeError.

This change increases the required Cython version to 0.23 or newer.
 2016-10-18 22:58:14 -04:00
Ray Speth
c16c15367f [Matlab] Fix ThermoPhase 'clear' method 
This function was actually being directed into 'thermoget' and calling the
'newFromXML' method (on a non-existent XML tree) instead of calling the 'del'
method.
 2016-10-18 11:21:42 -04:00
Ray Speth
994d7e9a53 [Doc] Adjust example docstrings to get better automatic summaries 2016-10-14 17:06:45 -04:00
Ray Speth
f17750e483 Make species names case-preserving instead of case-sensitive 
This improves interoperability when working with mechanisms which use differing
conventions for naming species using uppercase or lowercase.
 2016-10-13 18:40:03 -04:00
Ray Speth
5d7c8f393b [CTML] Remove unnecessary 'global' declarations 2016-10-13 18:40:03 -04:00
Ray Speth
ae6e7fdff7 Add license/copyright info to files that were missing it 2016-10-10 22:48:23 -04:00