PhysiCell

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DC function standardization

1

There are many functions provided in `BioFVM_microenvironment.cpp` designed for implementing Dirichlet conditions (DCs). However, there is inconsistency across what they do and the naming conventions shed little light on what...

drbergman

Fix bug related to maximum/minimum saturation values and uniqueness test for rules

5

In the previous implementation, the last rule determined the maximum or minimum response of the behavior. In the current update, the behavior now checks for the maximum and minimum response...

heberlr

Sporadic error when rules sharing cell type and behavior

13

Sometimes, when two rules have the same target cell type and the same target behavior, a segmentation fault occurs when building the dictionary of rules for that cell type. This...

drbergman

suspicious that custom data conserved attribute not being set

2

https://github.com/MathCancer/PhysiCell/blob/master/core/PhysiCell_cell.cpp#L3039

rheiland

Fix bug in reading in rules.

3

Just needed to initialize the pointers in a better way for them to be passed across functions and objects. I won't pretend to understand why this works, only that it...

drbergman

added ability to initialize BioFVM substrates with initial conditions

2

BioFVM substrates can be read in from a .mat file. The .mat file is a single matrix where each row is a voxel. The first three entries in the row...

drbergman

A common feature implemented in PhysiCell models is initializing cells within a given cell type with heterogeneity across one or more variables. Currently, users can either set this up in...

drbergman

Cell definitions share fixed_duration boolean for apoptosis death model

5

To see this, make the template project and place the attached xml into the config folder. Run the simulation. Output should roughly match the attached video. Expected behavior: All cells...

drbergman

Improvement: code generates output folder

2

physicell will run into an error if there not already an output folder exist (with whatever the exact name specified under in the settings.xml). it would be nice if the...

elmbeech

Using a unique function to save both MultiCellDS data and intracellular data

1

This comes as an effort to make the main.cpp of PhysiBoSS (and ultimately intracellular) models standard. As of now, the only difference is that after saving the MultiCellDS data, I'm...

vincent-noel