#!/bin/bash

if [ -z "$1" ]; then
	echo "specify a directory ..."
	exit
fi

if [ -z "$2" ]; then
	type="default"
else
	type=$2
fi

if [ -z "$3" ]; then
	trg="video"
else
	trg="video.*"
fi

if [ "$type" != "disp" ]; then

for i in $1/$trg; do

	if [ -f $i/stdvis ]; then
		echo "$i already visualized ..."
		continue
	else
		touch $i/stdvis
	fi

# first unit cell in each direction without rotation
if [ "$type" = "default" -o "$type" = "1" ]; then
echo "type: 1 no rotation"
./visualize -w 640 -h 480 -d $i \
	-nll -0.20 -0.20 -0.50 -fur 1.20 1.20 1.20 \
	-b 0.0 0.0 0.0 1.0 1.0 1.0 \
	-c 0.8 -1.7 0.9 -L 0.5 -1.0 0.5 \
	-r 0.6 -A 1 217 1.9
fi

# first unit cell in each direction without rotation displaying mirrored atoms
if [ "$type" = "1m" ]; then
echo "type: 1 no rotation, mirrored"
./visualize -w 640 -h 480 -d $i \
	-nll -0.20 -0.20 -0.20 -fur 1.20 1.20 1.20 \
	-b 0.0 0.0 0.0 1.0 1.0 1.0 \
	-c 0.3 -1.7 0.9 -L 0.5 -1.0 0.5 \
	-r 0.6 -m 3.0 0.0 0.0 0.0 3.0 0.0 0.0 0.0 3.0 \
	-A 1 216 2.6
	#-A 1 217 2.6
	#-c 0.8 -1.7 0.9 -L 0.5 -1.0 0.5 \
fi

# defect combination view 1
if [ "$type" = "dc1" ]; then
echo "type: defect combination 1, mirrored"
./visualize -w 640 -h 480 -d $i \
	-nll -0.20 -0.20 -0.80 -fur 1.20 1.20 1.20 \
	-b 0.0 0.0 0.0 1.0 1.0 1.0 \
	-c 0.3 -1.7 0.9 -L 0.5 -1.0 0.5 \
	-r 0.6 -m 3.0 0.0 0.0 0.0 3.0 0.0 0.0 0.0 3.0 \
	-A 2 217 218 2.6
fi

# first unit cell in each direction without rotation displaying mirrored atoms
if [ "$type" = "x1y1z13" ]; then
echo "type: x1y1z13, mirrored"
./visualize -w 640 -h 480 -d $i \
	-nll -0.20 -0.20 -1.20 -fur 1.20 1.20 1.20 \
	-b 0.0 0.0 0.0 1.0 1.0 1.0 \
	-c 0.3 -1.7 0.4 -L 0.5 -1.0 0 \
	-r 0.6 -m 3.0 0.0 0.0 0.0 3.0 0.0 0.0 0.0 3.0 \
	-A 1 217 2.6
	#-A 2 109 217 2.6
fi

# first unit cell in each direction without rotation displaying mirrored atoms
if [ "$type" = "1m2" ]; then
echo "type: 1 no rotation, mirrored, displaying bonds of the 2 C atoms"
./visualize -w 640 -h 480 -d $i \
	-nll -0.20 -0.20 -0.20 -fur 1.20 1.20 1.20 \
	-b 0.0 0.0 0.0 1.0 1.0 1.0 \
	-c 0.8 -1.7 0.9 -L 0.5 -1.0 0.5 \
	-r 0.6 -m 3.0 0.0 0.0 0.0 3.0 0.0 0.0 0.0 3.0 \
	-A 2 217 218 2.6
fi

if [ "$type" = "1m2dv" ]; then
echo "type: 1 no rotation, mirrored, displaying bonds of db and vac"
./visualize -w 640 -h 480 -d $i \
	-nll -0.20 -0.20 -0.20 -fur 1.20 1.20 1.20 \
	-b 0.0 0.0 0.0 1.0 1.0 1.0 \
	-c 0.8 -1.7 0.9 -L 0.5 -1.0 0.5 \
	-r 0.6 -m 3.0 0.0 0.0 0.0 3.0 0.0 0.0 0.0 3.0 \
	-A 2 215 216 2.6
fi

# three unit cells in each direction without rotation
if [ "$type" = "3" ]; then
echo "type: 3 no rotation"
./visualize -w 640 -h 480 -d $i \
	-nll -0.20 -0.20 -0.20 -fur 3.20 3.20 3.20 \
	-b 0.0 0.0 0.0 3.0 3.0 3.0 \
	-c 2.3 -3.7 2.4 -L 1.5 -1.0 1.5 \
	-r 0.6 -A 1 217 2.6
fi

# unti cell 3,0,2
if [ "$type" = "3x2z" ]; then
echo "type: 3x2z no rotation"
./visualize -w 640 -h 480 -d $i \
	-nll 1.8 -0.2 0.8 -fur 3.20 1.20 2.20 \
	-b 2.0 0.0 1.0 3.0 1.0 2.0 \
	-c 2.3 -3.7 2.4 -L 1.5 -1.0 1.5 \
	-r 0.6
fi

# first unit cell rotated by 45 degrees about z-axis
if [ "$type" = "1r" ]; then
echo "type: 1 rotated"
./visualize -w 640 -h 480 -d $i \
	-nll -0.20 -0.70 -0.20 -fur 2.00 0.70 1.20 \
	-c -0.5 -1.5 0.9 -L 1.0 0.0 0.5 \
	-r 0.6
	#-b 0.0 0.0 0.0 0.0 0.0 1.0 \
fi

# first unit cell rotated by 45 degrees displaying mirrored atoms
if [ "$type" = "1rm" ]; then
echo "type: 1 rotated, mirrored"
./visualize -w 640 -h 480 -d $i \
	-nll -0.20 -0.20 -0.50 -fur 1.20 1.20 1.20 \
	-b 0.0 0.0 0.0 1.0 1.0 1.0 \
	-c 0.8 -1.7 0.9 -L 0.5 -1.0 0.5 \
	-r 0.6 -m 2.0 -2.0 0.0 2.0 2.0 0.0 0.0 0.0 3.0 \
	-A 1 193 1.9
fi

# three unit cells (rotated) in each direction displaying mirrored atoms
if [ "$type" = "3rm" ]; then
echo "type: 3 roted, mirrored"
./visualize -w 640 -h 480 -d $i \
	-nll -0.20 -0.20 -0.20 -fur 3.20 3.20 3.20 \
	-b 0.0 0.0 0.0 3.0 3.0 3.0 \
	-c 1.3 -3.7 2.4 -L 1.5 -1.0 1.5 \
	-r 0.6 -m 2.0 -2.0 0.0 2.0 2.0 0.0 0.0 0.0 3.0
fi

# x: 2,3 y 3 z 1,2
if [ "$type" = "x123y3z123" ]; then
echo "type: x: 1,2,3 y 3 z 1,2,3"
./visualize -w 640 -h 480 -d $i \
	-nll -0.20 1.80 -0.20 -fur 3.20 3.20 3.20 \
	-b 1.0 2.0 1.0 2.0 3.0 2.0 \
	-c 1.8 -1.7 2.2 -L 1.6 2.5 1.7 \
	-r 0.6 -A 1 217 2.6 \
        -m 3.0 0.0 0.0 0.0 3.0 0.0 0.0 0.0 3.0
fi

./ppm2avi $i

done

else

# 100 db in type 1 sc (insdide sc)
for i in $1/video/atomic_conf_*.xyz; do
	displace=`echo $i | awk -F_ '{ print $7 }' | sed 's/\.xyz//'`
	echo "$i $displace ..."
./visualize -w 640 -h 480 -d $i \
	-nll -0.20 -0.20 -0.50 -fur 1.20 1.20 1.20 \
	-b 0.0 0.0 0.0 1.0 1.0 1.0 \
	-c 0.8 -1.7 0.9 -L 0.5 -1.0 0.5 \
	-r 0.6 -B 0.1 -D $displace -m 2.0 -2.0 0.0 2.0 2.0 0.0 0.0 0.0 3.0
done

fi

#mplayer $1/video/md.avi