feat: Improve context generation script

- Refactor to use Path objects and config variables.
- Added include/exclude patterns for files/dirs.
- Added --layouts mode to only include layout files.
- Added --with-public-html flag for including public HTML.
- Improved logging and error handling.
- Updated documentation and help messages.

fix: Update BrainScaleS-2 links

Updated BrainScaleS-2 links to local pages for consistency.

Author: neural-loop

content/neuromorphic-computing/hardware/brainscales-2-universitat-heidelberg/index.md

@@ -63,9 +63,9 @@ The BrainScaleS-2 accelerated neuromorphic system is an integrated circuit archi
 - Training of deep spiking neural networks using surrogate and exact gradient techniques
 - Non-spiking neural network execution leveraging synaptic crossbar for analog matrix multiplication
 - Available via three different software frameworks:
-  - [jaxsnn](https://open-neuromorphic.org/neuromorphic-computing/software/snn-frameworks/jaxsnn/), a JAX-based framework for event-based numerical simulation of SNNs
-  - [hxtorch](https://open-neuromorphic.org/neuromorphic-computing/software/snn-frameworks/hxtorch/), a PyTorch-based deep learning Python library for SNNs
-  - [PyNN.brainscales2](https://open-neuromorphic.org/neuromorphic-computing/software/snn-frameworks/pynn-brainscales2), an implementation of the PyNN API
+  - [jaxsnn](/neuromorphic-computing/software/snn-frameworks/jaxsnn/), a JAX-based framework for event-based numerical simulation of SNNs
+  - [hxtorch](/neuromorphic-computing/software/snn-frameworks/hxtorch/), a PyTorch-based deep learning Python library for SNNs
+  - [PyNN.brainscales2](/neuromorphic-computing/software/snn-frameworks/pynn-brainscales2), an implementation of the PyNN API
 
 The accelerated operation and flexible architecture facilitate applications in computational neuroscience research and novel machine learning approaches. The system design serves as a scalable basis for future large-scale neuromorphic computing platforms.