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handle an empty colormap element for substrate in svg #393

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handle an empty colormap element for substrate in svg #393

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8 changes: 8 additions & 0 deletions modules/PhysiCell_pathology.cpp
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Original file line number Diff line number Diff line change
Expand Up @@ -789,6 +789,14 @@ void setup_svg_substrate_colormap(std::vector<std::string> &colormap)
std::string map_name = PhysiCell_settings.svg_substrate_colormap;
int name_length = map_name.size();
bool is_reversed = false;
if (name_length < 2)
{
std::cout << "WARNING: colormap name " << map_name << " is too short. Using default 'YlOrRd' colormap." << std::endl
<< " Check your save//SVG//plot_substrate//colormap element in your configuration file." << std::endl;
map_name = "YlOrRd";
name_length = map_name.size();
PhysiCell_settings.svg_substrate_colormap = map_name;
}
if (map_name.substr(name_length-2,2)=="_r")
{
map_name = map_name.substr(0,name_length-2);
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