The Sundials CMakeLists.txt was not correctly updated for the 2.5.0 release, and
builds a version of Sundials that still claims to be 2.4.0. This leads to
compilation errors since some Sundials functions have changed signatures between
2.4 and 2.5, and Canteran needs to distinguish between the two.
Cherry-pick of trunk r2887.
The work array hasn't always been allocated, so taking its address isn't
necessarily valid. Also, dlange doesn't use the work array in the '1' norm
case anyway.
Cherry-pick of trunk commit 2830.
When using Python 3, using -1 as the dummy value for density and site_density
causes probems, because the (ordered) comparison between a density specified
with units (as a tuple) and 0 is not allowed. Instead, use None as the
placeholder value.
Cherry-pick of trunk commit r2800.
installShomateThermoFromXML now checks that 7 coefficients are supplied in the
floatArray and throws if that is not the case.
Partial cherry-pick of r2778.
We don't actually have system-dependent versions of these headers, so just put
the templates in place directly. This is also a workaround for a SCons bug on
Cygwin.
Cherry-pick of trunk r2735.
Use separate SCons Environments so the 'py_include_dirs' variable (which
contains the Numpy include directory) can be distinct for each Python module.
Cherry-pick of trunk r2710.
Cast the unsigned return type of newKineticsFromXML to a signed type so that the
check on the Matlab side (which looks at the sign of the return value) can
detect and report errors.
Cherry-pick of trunk r2724.
This addesses a parsing error that would occur if a mechanism contained both
'foo' and 'foo+', where reactions written as 'foo+bar' would be parsed as a
reaction with 'foo+' and 'bar'.
See Issue 182.
Cherry pick of trunk commit r2701.
Fixes the case where the next section header contains a modifier, e.g. 'thermo
all' or 'reactions <units>'.
Based on a patch provided by Bryan Weber.
See Issue 199.
Cherry-pick of trunk r2662.
Warn when a species is given multiple times in the input list. Do not add the
duplicate species to speciesList.
Based on patch provided by Bryan Weber.
Resolves Issue 199.
Cherry-pick of trunk r2660.
This makes the default consistent with the documentation in the Python
module. Reported by & patch from Bryan Weber.
Fixes Issue 194.
Cherry-pick of trunk r2614.
Adding the attribute allow_discontinuities="true" to a phase's
'thermo' node (CTML) or adding 'allow_discontinuous_thermo' to a
phase's 'options' argument (CTI) will disable the automatic adjustment
of the provided polynomials so that enthalpy and entropy are
continuous at the midpoint temperature.
Cherry-pick of trunk r2590.
