PhysiCell

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Fix bug in creating legend. Nuclear coloring in the legend had swapped the roles of stroke and fill.

drbergman

Substrate heatmaps in SVGs, defined in config file

1

This extends the functionality of plotting substrate heatmaps on SVG output: * Allows for all colormaps permitted in studio for visualizing substrate concentrations * Allows for configuration of this heatmap...

drbergman

make reset - avoid "rm *.cpp"?

7

Could we possibly *not* have `make reset` do a `rm *.cpp`? Just wondering what the danger is in having them? I've been bitten by this on multiple occasions. I make...

rheiland

In each `Makefiel` is the following command ```bash PROJ := my_project save: echo "Saving project as $(PROJ) ... " mkdir -p ./user_projects mkdir -p ./user_projects/$(PROJ) mkdir -p ./user_projects/$(PROJ)/custom_modules mkdir -p...

elmbeech

Improvement: lineage tree information in default output

1

the default PhysiCell output misses information to generate evolutionary lineage trees. it would be good enough when each agent saves information about: + parent agent_id + simulation time of birth...

elmbeech

# Bottom line Has anyone thought about passing in other files/folders at the command line rather than in the config file? I think it's going to be useful enough for...

drbergman

Script to provide pre-compiled binaries, built by GitHub actions, for linux/mac/windows

3

This is still very preliminary, but I thought I would send a PR to start discussing it. I tried to find a way for users to avoid compilation, and to...

vincent-noel

- Update of the libMaBoSS installation script : Using latest MaBoSS, now in the PhysiBoSS folder. - Introduced steepness : A parameter controlling the hill coefficient used in the smoothed...

vincent-noel

The legend of the substrate was added everytime, even when the substrate plotting was disabled in the XML. This PR fixes it.

vincent-noel

Support for exporting the list of spring attachments was lacking : here is the implementation.

vincent-noel