diff --git a/src/VirtualLeafpar.tmpl b/src/VirtualLeafpar.tmpl new file mode 100644 --- /dev/null +++ b/src/VirtualLeafpar.tmpl @@ -0,0 +1,126 @@ +title = Parameter values for The Virtual Leaf / title +label = Visualization / label +arrowcolor = white / string +arrowsize = 100 / double +textcolor = red / string +cellnumsize = 1 / int +nodenumsize = 1 / int +node_mag = 1.0 / double +outlinewidth = 1.0 / double +cell_outline_color = forestgreen / string +resize_stride = 10 / int +label = / label +label = Cell mechanics / label +T = 1.0 / double +lambda_length = 100. / double +lambda_celllength = 0. / double +target_length = 60. / double +cell_expansion_rate = 1. / double +cell_div_expansion_rate = 0. / double +auxin_dependent_growth = true / bool +ode_accuracy = 1e-4 / double +mc_stepsize = 0.4 / double +mc_cell_stepsize = 0.2 / double +energy_threshold = 1000. / double +bend_lambda = 0. / double +alignment_lambda = 0. / double +rel_cell_div_threshold = 2. / double +rel_perimeter_stiffness = 2 / double +collapse_node_threshold = 0.05 / double +morphogen_div_threshold = 0.2 / double +morphogen_expansion_threshold = 0.01 / double +copy_wall = true / bool +label = / label +label = Auxin transport and PIN1 dynamics / label +source = 0. / double +D = 0., 0.0, 0.0, 0., 0., 0., 0., 0., 0., 0., 0., 0., 0., 0., 0. / doublelist +initval = 0., 0., 0., 0., 0., 0., 0., 0., 0., 0., 0., 0., 0., 0., 0. / doublelist +k1 = 1. / double +k2 = 0.3 / double +r = 1. / double +kr = 1. / double +#k3 = 1 / double +#k4 = 0.3 / double +km = 1. / double +Pi_tot = 1. / double +transport = 0.036 / double +ka = 1 / double +# d = 1e-06 / double +# e = 0.01 / double +# f = 10 / double +pin_prod = 0.001 / double +pin_prod_in_epidermis = 0.1 / double +pin_breakdown = 0.001 / double +pin_breakdown_internal = 0.001 / double +aux1prod = 0.001 / double +aux1prodmeso = 0. / double +aux1decay = 0.001 / double +aux1decaymeso = 0.1 / double +aux1transport = 0.036 / double +aux_cons = 0. / double +aux_breakdown = 0. / double +kaux1 = 1 / double +kap = 1 / double +leaf_tip_source = 0.001 / double +sam_efflux = 0.0001 / double +sam_auxin = 10. / double +# gf_prod = 1e-3 / double +# gf_decay = 1e-3 / double +sam_auxin_breakdown = 0 / double +#label = / label +#label = miscellaneous / label +van3prod = 0.002 / double +van3autokat = 0.1 / double +van3sat = 10 / double +k2van3 = 0.3 / double +#glvprod = 0.0 / double +#glvbreakdown = 0. / double +label = / label +label = Integration parameters / label +dt = 0.1 / double +rd_dt = 1.0 / double +datadir = . / directory +movie = false / bool +nit = 100000 / int +maxt = 1000. / double +storage_stride = 10 / int +xml_storage_stride = 500 / int +rseed = -1 / int +#label = / label +#label = Parameters for new chemical / label +#glvproduction = 0. / double +#glvdecay = 0. / double +#glvdiffthreshold = 0. / double +label = / label +label = Meinhardt leaf venation model / label +constituous_expansion_limit = 16 / int +vessel_inh_level = 1 / double +vessel_expansion_rate = 0.25 / double +d = 0. / double +e = 0. / double +f = 0. / double +c = 0. / double +mu = 0. / double +nu = 0. / double +rho0 = 0. / double +rho1 = 0. / double +c0 = 0. / double +gamma = 0. / double +eps = 0. / double +label = / label +label = User-defined parameters / label +k = 0., 0.0, 0.0, 0., 0., 0., 0., 0., 0., 0., 0., 0., 0., 0., 0. / doublelist +i1 = 0 / int +i2 = 0 / int +i3 = 0 / int +i4 = 0 / int +i5 = 0 / int +s1 = / string +s2 = / string +s3 = / string +b1 = false / bool +b2 = false / bool +b3 = false / bool +b4 = false / bool +dir1 = . / directory +dir2 = . / directory