mcell
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mcellteam
MCell Monte Carlo Simulator of Cellular Microphysiology
Hello, I am in the process of converting MCell3.mdl files to be compatible with MCell4/CellBlender. I received the following warning and error while trying to perform the conversion. I was...
Bumps [urllib3](https://github.com/urllib3/urllib3) from 1.22 to 1.26.5. Release notes Sourced from urllib3's releases. 1.26.5 :warning: IMPORTANT: urllib3 v2.0 will drop support for Python 2: Read more in the v2.0 Roadmap Fixed...
![dependabot[bot] avatar](https://avatars.githubusercontent.com/in/29110?v=4 "dependabot[bot] avatar"){kind=avatar}
Bumps [pygments](https://github.com/pygments/pygments) from 2.2.0 to 2.7.4. Release notes Sourced from pygments's releases. 2.7.4 Updated lexers: Apache configurations: Improve handling of malformed tags (#1656) CSS: Add support for variables (#1633, #1666)...
Bumps [jinja2](https://github.com/pallets/jinja) from 2.10 to 2.11.3. Release notes Sourced from jinja2's releases. 2.11.3 This contains a fix for a speed issue with the urlize filter. urlize is likely to be...
Hi, Could you please point me to the lines in the code where the proability of reactions are calculated? I have the probability values and need to compute the reaction...
Currently, to count surface hits, one needs to load the whole file with surface hits as in example mcell_tests, branch pymcell_membranes: `examples_pymcell/0100_2_molecule_types_diffuse_in_box_w_plane/pymcell/0100_2_molecule_types_diffuse_in_box_w_plane.py ` We will need a better way how...
What is the current state of MCell? I see there is activity in the dev branch but no new release since 2016.
Here's my rework of the pymcell build system. I tried to incorporate the recent changes to your branch since I did the bulk of my work back in May, but...
If you try to build the distribution created by sdist (python setup sdist; cd dist; python setup.py build), it will fail when using the [nfsim_dynamic_meshes_pymcell branch](https://github.com/mcellteam/mcell/tree/nfsim_dynamic_meshes_pymcell) because the requirements.py file...
We already have them listed for Ubuntu. We should do the same for OSX.