From 6da644f98434d3eac8b4e19981754f6030a315a5 Mon Sep 17 00:00:00 2001 From: Samo Penic <samo.penic@gmail.com> Date: Wed, 27 Jun 2018 12:05:32 +0000 Subject: [PATCH] Resolving the issues with restoring vesicles from vtu and fixing the volume. Dump to vtu has been repaired. --- src/tape | 37 ++++++++++++++++++++++--------------- 1 files changed, 22 insertions(+), 15 deletions(-) diff --git a/src/tape b/src/tape index 206d649..978e3c9 100644 --- a/src/tape +++ b/src/tape @@ -14,7 +14,7 @@ # (pswitch=1: calc. p*dV energy contribution) 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 @@ -23,28 +23,35 @@ #Constant area constraint (0 disable constant area, 2 enable constant area with epsarea) constareaswitch=0 + +#Stretching +stretchswitch=1 +xkA0=1.0 + ####### 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=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 @@ -57,7 +64,7 @@ mcsweeps=200 #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 @@ -84,11 +91,11 @@ #cuda options??? -#NirGov branch only! #number of vertices with spontaneous curvature (integer) -number_of_vertices_with_c0=200 -#spontaneous curvature (float) -c0=2.0 -#energy of attraction of vertices with spontaneous curvature -w=1.0 - +number_of_vertices_with_c0=0 +#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 -- Gitblit v1.9.3