yukimya

#!/bin/sh
#gnuplot -e "plot.gn"
mkdir tmp
gnuplot DisMatPlot.gn
ffmpeg -i "tmp/dd."%d".dis.jpeg" "tmp/dd.dis.movie.mpeg"
ffmpeg -i "tmp/dd."%d".dif.jpeg" "tmp/dd.dif.movie.mpeg"

yukimya

# This is for calcDisMatPlot.py
# create jpeg file
# written by Naoyuki Miyashita 09/07/2014
# GPL v3

se pm3d at b
unse surface
se view 0,0
se size 0.7,1.0
unse key

yukimya

# GPL v 3.0 
# script name: setupDisMat.py
# written by Naoyuki Miyashita on 09/07/2014 
# Naoyuki Miyashita (c) 2014
#
#-----------------------------------
# Use lProam, pylab, numpy
#-----------------------------------
# ussage:
# python calcDisMat.py 4 input.pdb input.dcd "name CA" output

yukimya

#!/bin/sh
# GPL v. 3
# Program mkMu: 06mkAllEqu.sh
# 
#
# written by Naoyuki Miyashita 7/22/2014
inputPrefix="04_ddng"
inpPrefix="06.eq"
outPrefix="07.eq"

yukimya

#!/bin/sh
# GPL v. 3
# Program mkMu: 06mkAllEqu.sh
# 
#
# written by Naoyuki Miyashita 7/22/2014
inputPrefix="04_ddng"
inpPrefix="05.min"
outPrefix="06.eq"

yukimya

#!/bin/sh
# GPL v. 3
# Program mkMu: 05mkVacMini.sh
# 
#
# written by Naoyuki Miyashita 7/22/2014
inputPrefix="04_ddng"
outPrefix="05.min"

Temp=310

yukimya

#!/bin/sh
# GPL v. 3
# Program mkMu: 04addWaterION.sh
# 
#
# written by Naoyuki Miyashita 7/22/2014

#INPUT
inputPrefix="01_dd"
inpdcd="03.min/r.03.min.dcd"

yukimya

#!/bin/sh
# GPL v. 3
# Program mkMu: 03mkVacMini2.sh
# 
#
# written by Naoyuki Miyashita 7/22/2014
inputPrefix="01_dd"
inpPrefix="02.min"
outPrefix="03.min"

yukimya

#!/bin/sh
# GPL v. 3
# Program mkMu: 02mkVacMini.sh
# 
#
# written by Naoyuki Miyashita 7/22/2014
inputPrefix="01_dd"
outPrefix="02.min"

Temp=310

yukimya

#!/bin/sh
# GPL v. 3
# Program mkMu: 01mkVacPSF.sh
# 
# This program uses: lProam.py, getSegment.py
#
# written by Naoyuki Miyashita 7/22/2014


# Input