Ecosyste.ms: Timeline
Browse the timeline of events for every public repo on GitHub. Data updated hourly from GH Archive.
sonarcloud[bot] created a comment on a pull request on AMICI-dev/AMICI
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sonarcloud[bot] created a comment on a pull request on AMICI-dev/AMICI
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FFroehlich pushed 1 commit to jax_export AMICI-dev/AMICI
- simply tests + add support for non-dynamic simulation in jax 82a01ba
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FFroehlich pushed 1 commit to jax_export AMICI-dev/AMICI
- add support for heavyside functions 7faae32
dweindl opened an issue on AMICI-dev/AMICI
Add missing simulation status codes
Add missing simulation status codes to string mapping: -42 -43 -25
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FFroehlich pushed 2 commits to jax_export AMICI-dev/AMICI
dweindl created a comment on an issue on AMICI-dev/AMICI
https://github.com/AMICI-dev/AMICI/releases/tag/v0.27.0 has some improvements with regards to potentially interfering systems packages. It might be worth retrying with the most recent version. Clos...
dweindl closed an issue on AMICI-dev/AMICI
Segmentation fault when importing amici on Mac
Hi, I tried to install AMICI in a conda environment on my Mac. I followed the [installation instructions](https://amici.readthedocs.io/en/latest/python_installation.html), and I installed all of...
dweindl created a comment on an issue on AMICI-dev/AMICI
Fixed in https://github.com/AMICI-dev/AMICI/releases/tag/v0.27.0
dweindl closed an issue on AMICI-dev/AMICI
Deprecation warnings in `python/examples/example_jax/ExampleJax.ipynb`
``` [/tmp/ipykernel_2317/4172501162.py:12](https://hub.binder.curvenote.dev/tmp/ipykernel_2317/4172501162.py#line=11): DeprecationWarning: Accessing `petab.LIN` is deprecated and will be removed i...
dweindl created a comment on an issue on AMICI-dev/AMICI
Fixed in https://github.com/AMICI-dev/AMICI/releases/tag/v0.27.0
dweindl closed an issue on AMICI-dev/AMICI
`ValueError: result_shape_dtypes cannot specify 64-bit types when `jax_enable_x64` is disabled` in `python/examples/example_jax/ExampleJax.ipynb`
Notebook tests are currently failing, e.g. https://github.com/AMICI-dev/AMICI/actions/runs/11212778064/job/31164450397
dweindl created a tag on AMICI-dev/AMICI
v0.27.0 - Advanced Multilanguage Interface to CVODES and IDAS
dweindl published a release on AMICI-dev/AMICI
AMICI v0.27.0
This release comes with an **updated version of the SUNDIALS package (7.1.1)** (https://github.com/AMICI-dev/AMICI/pull/2513). For C++ users of some of AMICI's internal RAII classes, this may in...
dweindl pushed 2 commits to develop AMICI-dev/AMICI
dweindl closed an issue on AMICI-dev/AMICI
Assertion error in ForwardProblem::getSimulationStateTimepoint
I got the following assertion error in `ForwardProblem::getSimulationStateTimepoint` when simulating [Weber_BMC2015](https://github.com/Benchmarking-Initiative/Benchmark-Models-PEtab/tree/master/Be...
dweindl closed an issue on AMICI-dev/AMICI
Sundials warnings not showing since 7.1.1 upgrade
Sundials warnings got lost since sundials 7 upgrade (#2513). (Things like `Internal t = 2.13327 and h = 1.33227e-16 are such that t + h = t on the next step.`). This is because there are now sep...
dweindl closed an issue on AMICI-dev/AMICI
SBML import: Incorrect processing of piecewise/Heaviside function
[Beer_MolBioSystems2014](https://github.com/Benchmarking-Initiative/Benchmark-Models-PEtab/tree/v2024.10.15/Benchmark-Models/Beer_MolBioSystems2014) has an assignment rule containing `piecewise`. T...
dweindl closed an issue on AMICI-dev/AMICI
model name "model" leads to cmake failures
model name "model" is default for pysb, leads to clash in cmake target names (see error below). Not sure whether we should not permit models named "model" or add a prefix to the cmake target. ...
dweindl closed an issue on AMICI-dev/AMICI
Refactor: move Model::state_ initalization to ModelState ctor
Move `Model::state_` initalization to `ModelState` ctor where it belongs.
dweindl closed an issue on AMICI-dev/AMICI
SBML test suite fails since sundials upgrade
https://github.com/AMICI-dev/AMICI/actions/runs/11212756053 > [OTHER] AMICI simulation failed: CVODE routine CVodeInit failed with error code -22. > Error: [rank 0][/home/runner/work/AMICI/AM...
dweindl closed an issue on AMICI-dev/AMICI
Install `amici[vis]` for binder
Currently, some notebooks fail to run on binder, because matplotlib and seaborn are missing. Amici needs to be installed with `vis` extras.