Chaste
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Chaste
Chaste - Cancer Heart And Soft Tissue Environment - main public repository.
This tracks the PyChaste Merge into Chaste trunk from the initial discussion on the PyChaste repository: https://github.com/Chaste/PyChaste/issues/46
Will this be in Oxford or Nottingham? Will it be on 17th September? What shall we do in it?
Given its not really documented anywhere (except in the papers its been used). there is no good record of the Cell-Based PDE component of Cell-Based. Ive started doing this https://www.overleaf.com/1746474362mzpxcwvptjzm#787e1f...
Newer GCC (13+) has found what appears to be a genuine error in Chaste. The following method: https://github.com/Chaste/Chaste/blob/0c1a2248f7dd114dedfc2221572fd8e58de9caff/pde/src/problem/AbstractLinearEllipticPde.hpp#L144-L148 calls `ComputeLinearInUCoeffInSourceTerm`, which is implemented as such in `AveragedSourceEllipticPde`: https://github.com/Chaste/Chaste/blob/0c1a2248f7dd114dedfc2221572fd8e58de9caff/cell_based/src/cell_based_pde/pdes/AveragedSourceEllipticPde.cpp#L113-L118 Note that...
This folder (of the main repo) is mainly infrastructure scripts and not all are python, so a rename would clarify the purpose. There are also subdirectories e.g. `old` that could...
This issue documents a specific problematic interaction as of GCC 13.x between `std::vector` and `ublas::c_vector`, specifically when the `c_vector` is one-dimensional. When compiling in Release mode, there is a failure...
OpenVT
This is a meta-issue to trac concrete progress towards Chaste implementations of OpenVT reference models. Work is based on @jmosborne and @AlexFletcher 's cell based comparison paper: "Comparing individual-based approaches...
Prompted by #119 where tests started taking ages, which wasn't spotted. In addition to the profiling of individual tests we should keep track of the total runtime for the Continuous...
## Dependencies ```xml /usr/bin/c++, version 14.2.0 -Wall -Werror -Wnon-virtual-dtor -Woverloaded-virtual -Wextra -Wno-attributes -Wno-unused-parameter -Wvla -Wimplicit-fallthrough=2 -g 3.20.6 1.83.0 1.10.10 4.0.3 4.0.0 6.4.1 9.3 3.2.4 chaste_codegen 0.10.5 ``` ## Test failures...
Related to: - Ubuntu 24.04 support https://github.com/Chaste/Chaste/issues/257 - libexpat problem https://github.com/Chaste/Chaste/issues/249 - PyChaste installation issue https://github.com/Chaste/Chaste/issues/314 The version of VTK 9.3 (9.3.0+dfsg1-1build1) that we bundled with the chaste-dependencies package in...