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PySCeS
The official PySCeS project source code repository.
I've been playing around with using LLM's to generate/convert docstrings and found two docstring formats for Python that are widely used: - PEP 287 (https://peps.python.org/pep-0287/) reST and Sphinx compatible but...
I picked up an issue when species are in conc, and output is in conc as well, with a model that has compartments (even only a single compartment) with a...
Currently PySCeS imports/exports L2V4 and we need to deal with the model syntax (no defaults etc) as well as new/changes elements (event handling, math, packages, annotation).
I am trying to use PySCeS for a very simple chemical reaction, the goal is to define a model, perform a parameter scan and finally run simulations with the fitted...
See the [log](https://people.freebsd.org/~yuri/py-PySCeS-1.0.1.log): ``` compile options: '-I/usr/local/include/python3.8 -c' extra options: '-mavx5124fmaps -mavx5124vnniw -mavx512vpopcntdq' CCompilerOpt.dist_test[576] : CCompilerOpt._dist_test_spawn[711] : Command (cc -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -O2 -pipe -fstack-protector-strong -fno-strict-aliasing -O2 -pipe -fno-omit-frame-pointer...
Here is a model that tellurium and VCell can execute with CVODE with their default settings, but PySCeS cannot BIOMD0000000035: [model_ODE_deterministic.xml.txt](https://github.com/PySCeS/pysces/files/7094326/model_ODE_deterministic.xml.txt) PySCeS fails with this error: ``` 'Convergence test failures...
Reminder to enable tests for Win-ARM64-build (#104) once official Scipy wheels for this platform have been released (expected Sep 10). Also reminder to test Win-x64 build works with LLVM as...