Daniel Bergman
Daniel Bergman
To me, there appears to be an implied relationship between `is_Dirichlet`, `dirichlet_activation_vector`, and `dirichlet_activation_vectors`. It seems `dirichlet_activation_vectors` is an $n_\text{voxels}\times n_\text{substrates}$ array and the others are (supposed to be) the...
This adds a new member function to the Parameters class. It is called `find_variable_index`. This function behaves exactly like the already-existing `Parameters.find_index` except it will return -1 when the input...
Fix bug in creating legend. Nuclear coloring in the legend had swapped the roles of stroke and fill.
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...
# 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...
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...
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...
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...
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...
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...