Hi,
There are lots of minor improvements and fixes in this version, but a
major feature is the support for user-defined functions for
continuation using PyCont.
Also added: some basic phase-plane tools, calculation of phase
response curves for oscillators and support for some special math
functions. A summary of changes is below.
Thanks!
Rob, Erik, and Drew.
Summary of changes
-----------------------------
* PyCont can now perform continuation according to the zeros of user-defined
functions or bounds (see example tests/PyCont_vanDerPol.py and
PyCont_Hopfield.py)
* Support for scipy.special functions in Generator definitions (Python targets
only. C targets with a more limited range of functions will be
supported soon)
* A few phase plane analysis tools have been added to Toolbox/phaseplane.py
-- in particular, the finding of fixed points, nullclines,
and some simple code to compute saddle manifolds in planar systems
* Phase response curves can now be calculated for limit cycles using
the adjoint
method (see tests/ML_adjointPRC.py and HH_adjointPRC.py for examples)
* Generators now include auxiliary variable data in recorded event data
* Pointset comparisons using arithmetic operators now consistent with the
norm-based comparisons used by Points
* Time mesh points for external inputs to integrators now forced to
be integration
mesh points for greater numerical accuracy and stability
* VODE now supports 'use_special' for forcing values of output trajectory mesh
* Improved support for numpy float and int types alongside standard
python types
* Improved numerical first derivative computed by central finite
differences and
Ridders' method
* Added a multilinear regression auxiliary function builder
(common.py/makeMultilinearRegrFn)
* Support for parameter estimation using least squares using
qualitative features
such as positions of extrema (see wiki page ParamEst)
* Moved ParamEst.py into PyDSTool/Toolbox, a more logical home, and removed its
default import in PyDSTool
* Added Toolbox/ModelHelper.py for additional model building utilities (esp.
for neural modelling)
* Minor bug fixes and improvements (see Trac wiki site for full change log)
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