From 267cf14b1ced6fce480e4292131a987a1802e28a Mon Sep 17 00:00:00 2001 From: Samo Penic <samo.penic@gmail.com> Date: Sun, 23 Sep 2018 08:32:24 +0000 Subject: [PATCH] Confinement planes, not debugged --- src/tape | 46 ++++++++++++++++++++++++++++++++++------------ 1 files changed, 34 insertions(+), 12 deletions(-) diff --git a/src/tape b/src/tape index dc425e4..8e4cc9a 100644 --- a/src/tape +++ b/src/tape @@ -12,39 +12,41 @@ # Pressure calculations # (pswitch=1: calc. p*dV energy contribution) -pswitch = 1 +pswitch = 0 # pressure difference: p_inside - p_outside (in units kT/l_min^3): -pressure=-10.0 +pressure=10.0 #Constant volume constraint (0 disable constant volume, 1 enable wiht additional vertex move, 2 enable with epsvol) constvolswitch=0 constvolprecision=1e-14 #Constant area constraint (0 disable constant area, 2 enable constant area with epsarea) -constareaswitch=2 +constareaswitch=0 ####### Polymer (brush) definitions ########### # npoly is a number of polymers attached to npoly distinct vertices on vesicle -npoly=3 +npoly=0 # nmono is a number of monomers in each polymer nmono=10 # Spring constant between monomers of the polymer k_spring=800 +#set to 1 if half of the polymeres are inside the vesicle +internal_poly=1 ####### Filament (inside the vesicle) definitions ########### # nfil is a number of filaments inside the vesicle -nfil=2 +nfil=0 # nfono is a number of monomers in each filament -nfono=300 +nfono=3 # Persistence lenght of the filaments (in units l_min) -xi=0 +xi=100 ####### Nucleus (inside the vesicle) ########### # Radius of an impenetrable hard sphere inside the vesicle R_nucleus=0 -R_nucleusX=6.0 -R_nucleusY=12.0 -R_nucleusZ=6.0 +R_nucleusX=0 +R_nucleusY=0 +R_nucleusZ=0 ####### Cell definitions ############ nxmax=60 nymax=60 @@ -54,10 +56,10 @@ ####### Program Control ############ #how many MC sweeps between subsequent records of states to disk #200000 -mcsweeps=200 +mcsweeps=2000 #how many initial mcsweeps*inititer MC sweeps before recording to disk? #2 -inititer=0 +inititer=1 #how many records do you want on the disk iteration are there in a run? #10000 iterations=100 @@ -69,6 +71,8 @@ #shut up if we are using cluster!!! quiet=false + + #what type of multiprocessing? (*none, smp, cluster, distributed, cuda, auto) #currently only none makes sense. @@ -80,3 +84,21 @@ #max number of processes in distributed (voluntary) environment distributed_processes=50 #cuda options??? + + +#number of vertices with spontaneous curvature (integer) +number_of_vertices_with_c0=100 +#c0/2 is spontaneous curvature. c0 is used as (c1+c1-c0)^2 in energy term (float) +c0=0.5 +#energy of attraction of vertices with spontaneous curvature (float, positive value for attraction) +w=10.0 +#direct force on vesicles with spontaneous curvature (float) +F=2.0 + + +#plane confinement +plane_confinement_switch=1 +#final plane distance (float in lmin) +plane_d=10.0 +#plane to vesicle repulsion force while closing +plane_F=10 -- Gitblit v1.9.3