Brian 1.2.1

We have just released Brian 1.2.1. This is mostly a bug fixing release, and minor new features. One highlight is the new remote control system which allows you to interact with a Brian script as it is running - e.g. changing parameter values, plotting intermediate results, etc. Also, GPU support on 64 bit and Linux machines is now much better. Major features: * New remote controlling of running Brian scripts via RemoteControlServer and RemoteControlClient. Minor features: * New module * weight and sparseness can now both be functions in connect_random * New StateHistogramMonitor object * clear now has a new keyword all which allows you to destroy all Brian objects regardless of whether or not they would be found by MagicNetwork. In addition, garbage collection is called after a clear. * New method StateMonitor.insert_spikes to have spikes on voltage traces. Improvements * The sparseness keyword in connect_random can be a function * Added ‘wmin’ to STDP * You can now access STDP internal variables, e.g. stdp.A_pre, and monitor them by doing e.g. StateMonitor(stdp.pre_group, ‘A_pre’) * STDP now supports nonlinear equations and parameters * refractory can now be a vector (see docstring for NeuronGroup) for constant resets. * modelfitting now uses playdoh library * C++ compiled code is now much faster thanks to adding -ffast-math switch to gcc, and there is an option which allows you to set your own compiler switches, for example -march=native on gcc 4.2+. * SpikeGeneratorGroup now has a spiketimes attribute to reset the list of spike times. * StateMonitor now caches values in an array, improving speed for M[i] operation and resolving ticket #53 Bug fixes * Sparse matrices with some versions of scipy * Weave now works on 64 bit platforms with 64 bit Python * Fixed bug introduced in 1.2.0 where dense DelayConnection structures would not propagate any spikes * Fixed bug where connect* functions on DelayConnection didn’t work with subgroups but only with the whole group. * Fixed bug with linked_var from subgroups not working * Fixed bug with adding Equations objects together using a shared base equation (ticket #9 on the trac) * unit_checking=False now works (didn’t do anything before) * Fixed bug with using Equations object twice (for two different NeuronGroups) * Fixed unit checking bug and ZeroDivisionError (ticket #38) * Fixed rare problems with spikes being lost due to wrong size of SpikeContainer, it now dynamically adapts to the number of spikes. * Fixed ticket #5, ionic_currents did not work with units off * Fixed ticket #6, Current+MembraneEquation now works * Fixed bug in modelfitting : the fitness was not computed right with CPUs. * Fixed bug in modelfitting with random seeds on Unix systems. * brian.hears.filtering now works correctly on 64 bit systems Removed features * Model has now been removed from Brian (it was deprecated in 1.1).