From e984829db39b2778e4f66c34524329ad09749c45 Mon Sep 17 00:00:00 2001
From: Samo Penic <samo.penic@gmail.com>
Date: Mon, 11 Jul 2016 19:29:21 +0000
Subject: [PATCH] Added possibility of internal pegs. It can break the system however

---
 src/tape |   26 ++++++++++++++++++--------
 1 files changed, 18 insertions(+), 8 deletions(-)

diff --git a/src/tape b/src/tape
index 023bc27..69fd056 100644
--- a/src/tape
+++ b/src/tape
@@ -14,33 +14,39 @@
 # (pswitch=1: calc. p*dV energy contribution)
 pswitch = 0
 # pressure difference: p_inside - p_outside (in units kT/l_min^3):
-pressure=0.0
+pressure=10.0
 
-#Constant volume constraint (0 disable constant volume, 1 enable)
+#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=0
 
 ####### Polymer (brush) definitions ###########
 # npoly is a number of polymers attached to npoly distinct vertices on vesicle
-npoly=0
+npoly=800
 # nmono is a number of monomers in each polymer
-nmono=10
+nmono=6
 # 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=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
 
 ####### Nucleus (inside the vesicle) ###########
 # Radius of an impenetrable hard sphere inside the vesicle
 R_nucleus=0
-
+R_nucleusX=0
+R_nucleusY=0
+R_nucleusZ=0
 #######  Cell definitions ############
 nxmax=60
 nymax=60
@@ -49,14 +55,18 @@
 
 ####### Program Control ############
 #how many MC sweeps between subsequent records of states to disk
-mcsweeps=2500
+#200000
+mcsweeps=200
 #how many initial mcsweeps*inititer MC sweeps before recording to disk?
+#2
 inititer=10
 #how many records do you want on the disk iteration are there in a run?
-iterations=50010
+#10000
+iterations=100
 
 
 ###### Spherical harmonics ###########
+# If 0 then spherical harmonics are not calculated at all.
 spherical_harmonics_coefficients=21
 
 #shut up if we are using cluster!!!

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