model_file_name = "simple-L2-render-local.xml" #model_file_name = "simple-L2-render-local-L3V1.xml" model_file = Path( pkg_resources.resource_filename("libsbml_draw", "model/data/" + model_file_name)) sl = SBMLlayout(str(model_file)) sl._describeModel() sl.drawNetwork() sl.setCompartmentEdgeColor("vol1", "#0000ff") sl.setCompartmentFillColor("vol1", "#ff000010") sl.setCompartmentLineWidth("vol1", 5) assert sl.getCompartmentEdgeColor("vol1") == "#0000ffff" assert sl.getCompartmentFillColor("vol1") == "#ff000010" assert sl.getCompartmentLineWidth("vol1") == 5 sl.drawNetwork("simple_render_local.png") sl.writeSBMLFile("simple_render_local_out.xml") slr = SBMLlayout("simple_render_local_out.xml") slr.drawNetwork() model_file_name = "simple-L2-render-global.xml" #model_file_name = "simple-L2-render-global-L3V1.xml"
SBO term unexpected warning. Where does it come from Gradient colours are cool. Would like to see them. Font size should scale with scaling factor ''' layout = SBMLlayout('Kholodenko2000.xml') # print(layout.getNumberOfRoles()) layout.regenerateLayout() [layout.setCompartmentEdgeColor(i, 'grey') for i in layout.getCompartmentIds()] [layout.setNodeEdgeWidth(i, 10) for i in layout.getNodeIds()] [layout.setNodeFontSize(i, 40) for i in layout.getNodeIds()] [layout.setCompartmentLineWidth(i, 25) for i in layout.getCompartmentIds()] # [layout.setReactionEdgeColor(i, edge_color='black') for i in layout.getReactionIds()] [layout.setReactionCurveWidth(i, 10) for i in layout.getReactionIds()] [layout.setArrowheadScale(i, 50) for i in range(layout.getNumberOfRoles())] # [layout.setNodeColor(i, 'white') for i in layout.getNodeIds()] # [layout.setNodeEdgeColor(i, 'black') for i in layout.getNodeIds()] layout.drawNetwork('Kholodenko2000Layout.png', scaling_factor=1.5) # layout.regenerateLayout() # layout.regenerateLayout() # layout.regenerateLayout() # layout.regenerateLayout() # layout.regenerateLayout() # layout.drawNetwork('compartment_network.png') # # layout.writeSBMLFile('2CompartmentModelWithLayout.xml')