Refine JIT wrappers for new JAX for comaptiblity with `jax>=0.8.2` (#809

)

* refactor: clean up imports and remove unnecessary newlines

* refactor: remove unused imports and clean up main execution block

* feat: add brainpy_state module and update dependencies

chore(changelog): update changelog for version 2.7.4 release, remove …

…brainpy.state module and consolidate documentation

Release version 2.7.3

Bug fix release with the following improvements:
- Fixed jit parameter handling in bm.for_loop
- Fixed zero-length scan error with jit=False
- Enhanced progress_bar parameter functionality
- Removed unused parameters and fixed related TypeErrors
- Fixed CI Tkinter issues on Windows Python 3.13

Release Date: December 2024
See changelog.md for full details.

Release version 2.7.2

Maintenance release with the following improvements:
- Compatible with JAX >= 0.8.0
- Documentation updates and improvements
- Refactored neural network classes
- Updated CI/CD dependencies

Release Date: October 16, 2024

update state neuron and synapse (#794)

* Update version to 2.7.1 and refactor Dynamics class: enhance input handling and add new properties

* Update version to 2.7.1 and refactor Dynamics class: enhance input handling and add new properties

* Add state version implementations for neuron and synapse models

This commit implements state versions of several neuron and synapse models
using the brainstate framework, following BrainPy v2.7+ architecture.

Neuron Models Added:
- LIF (Leaky Integrate-and-Fire) neurons with multiple variants:
  * LIF: Basic LIF neuron with exponential synaptic input
  * LifRef: LIF with refractory period
  * ExpIF: Exponential Integrate-and-Fire
  * ExpIFRef: ExpIF with refractory period
  * AdExIF: Adaptive Exponential Integrate-and-Fire
  * AdExIFRef: AdExIF with refractory period
  * QuaIF: Quadratic Integrate-and-Fire
  * QuaIFRef: QuaIF with refractory period
  * AdQuaIF: Adaptive Quadratic Integrate-and-Fire
  * AdQuaIFRef: AdQuaIF with refractory period
  * GifRef: Generalized Integrate-and-Fire with refractory

- Izhikevich neuron model with variants:
  * Izhikevich: Basic Izhikevich neuron
  * IzhikevichRef: With refractory period

- Hodgkin-Huxley (HH) neuron model:
  * HH: Classic Hodgkin-Huxley model with Na+ and K+ channels

Synapse Models Added:
- BioNMDA: Biological NMDA receptor with second-order kinetics
  * Implements two-state cascade dynamics (x and g variables)
  * Slower rise time compared to AMPA (biologically realistic)
  * Comprehensive documentation with mathematical formulation

Testing:
- Comprehensive test suites added for all models
- AMPA and GABAa synapse tests added
- All tests passing with proper unit handling

Key Features:
- Uses brainstate ecosystem (HiddenState, ShortTermState, LongTermState)
- Proper unit support with brainunit
- Exponential Euler integration for numerical stability
- Batch processing support
- Consistent API design across all models

Files Modified:
- brainpy/state/_lif.py: Added LIF variants
- brainpy/state/_izhikevich.py: Added Izhikevich variants (new file)
- brainpy/state/_hh.py: Added HH model (new file)
- brainpy/state/_synapse.py: Added BioNMDA model
- brainpy/state/_synapse_test.py: Added comprehensive tests
- brainpy/state/_lif_test.py: Added LIF tests
- brainpy/state/__init__.py: Updated exports
- brainpy/dyn/neurons/lif.py: Minor documentation updates

* Add Examples sections to neuron classes in _lif.py

Added comprehensive Examples sections to 5 neuron classes that were
missing them:
- QuaIF: Quadratic Integrate-and-Fire neuron
- AdQuaIF: Adaptive Quadratic Integrate-and-Fire neuron
- AdQuaIFRef: AdQuaIF with refractory period
- Gif: Generalized Integrate-and-Fire neuron
- GifRef: Gif with refractory period

Each Examples section includes:
- Import statements for required modules
- Basic usage with parameter specifications
- State initialization examples
- Update and spike generation examples
- Network integration with brainstate.nn.Sequential
- Additional Notes highlighting key features

All 13 neuron classes in _lif.py now have complete documentation
with Examples sections following consistent format and style.

* Refactor module assignments to 'brainpy.state' for consistency across files

* Update import paths in _base.py: change references from brainstate to brainpy for consistency

* fix tests

* Update import paths in _inputs.py: change references from brainpy to brainpy.state for consistency

---------

Co-authored-by: Chaoming Wang <adaduo@outlook.com>
Co-authored-by: Chaoming Wang <chao.brain@qq.com>

Downgrade version to 2.7.0 in __init__.py (#792)

Reverts the package version from 3.0.1 to 2.7.0 in brainpy/__init__.py, possibly to match a previous release or resolve compatibility issues.

Upgrade CI (#658)

* version 2.6.0

* upgrade CI

Version control in Publish.yml CI (#610)

version control in Publish.yml CI

Merge pull request #543 from chaoming0625/master

[dyn] update STDP APIs on CPUs and fix bugs

fix