Kwabena Amponsah
Kwabena Amponsah
Follow-up from Arnau **Chaste:** 1. Diffusion with 1k sinks: 1. We are not sure of your resulting dynamic. The mean concentration should reach the equilibrium at 10 uM and yours...
> 2. Cells pushing: > > 1. Please confirm that the distances are from the cells’ centres or from the cells’ surface The distances are from the cell centres. The...
Currently, system images don't configure correctly because `-DBoost_NO_BOOST_CMAKE` and `-DBoost_NO_SYSTEM_PATHS` are set directly in CI workflows. Moving the options into the modulefiles will allow images to set them `ON` and...
Getting `maybe-uninitialized` errors with GCC 13.2.0 on Ubuntu 23.10 Mantic Minotaur: https://github.com/Chaste/dependency-modules/actions/runs/7539367160/job/20521728238
> Getting `maybe-uninitialized` errors with GCC 13.2.0 on Ubuntu 23.10 Mantic Minotaur: https://github.com/Chaste/dependency-modules/actions/runs/7539367160/job/20521728238 ~~Fixed after rebuilding image with boost modulefile changes.~~
> Worth a look to see if the compiler is correct, sometimes it is and sometimes it isn't for these sort of warnings. Probably don't want to disable that warning...
It turns out boost is configuring properly. The same error occurs in the base Ubuntu 23.10 Mantic Minotaur image without the modulefiles.
All portabilities pass except for the new ones - Lunar (gcc 12) and Mantic (gcc 13). The configure step completes okay, but the build step throws `maybe-uninitialized` errors. https://github.com/Chaste/Chaste/actions/runs/7623994326
## Roadmap - [ ] SRN Models - [x] Start with existing code from [SBMLChaste](https://github.com/jmosborne/SBMLChaste). - [x] Check that existing code works with current Chaste `develop`. - [x] Check that...
## Goldbeter (1991) * Paper: [A minimal cascade model for the mitotic oscillator involving cyclin and cdc2 kinase](https://doi.org/10.1073/pnas.88.20.9107) * SBML: https://www.ebi.ac.uk/biomodels/BIOMD0000000003 * Chaste Implementation: * Goldbeter1991OdeSystem [cpp](https://github.com/Chaste/Chaste/blob/develop/cell_based/src/odes/Goldbeter1991OdeSystem.cpp) [hpp](https://github.com/Chaste/Chaste/blob/develop/cell_based/src/odes/Goldbeter1991OdeSystem.hpp) * Goldbeter1991SrnModel...