Garlic Tutorial

Script 1 (atoms.script) - Drawing styles for atoms

This script shows the available drawing styles for atoms. Note that nothing is visible for style "0" (row one, column one)! The file trp.pdb is required as input. You can mark, copy and paste this script to your local host (create the file atoms.script). Or, click here to download the script.

Type the following command at garlic prompt:

exe atoms.script

The sample image is at the bottom of this page.

# Show all drawing styles used to draw atoms. Bonds are hidden!
# This script requires garlic version 1.2 or later!

# Atom style 0:
load trp.pdb
pos -24 -15 0
ato 0
bon 0
tag "0"

# Now inform user that refreshing is off:
title 1 50 50 "Please be patient ..."

# Switch refreshing off:
refresh off

# Atom style 1:
load trp.pdb
pos -12 -15 0
ato 1
bon 0
tag "1"

# Atom style 2:
load trp.pdb
pos 0 -15 0
ato 2
bon 0
tag "2"

# Atom style 3:
load trp.pdb
pos 12 -15 0
ato 3
bon 0
tag "3"

# Atom style 4:
load trp.pdb
pos 24 -15 0
ato 4
bon 0
tag "4"

# Atom style 5:
load trp.pdb
pos -24 -5 0
ato 5
bon 0
tag "5"

# Atom style 6:
load trp.pdb
pos -12 -5 0
ato 6
bon 0
tag "6"

# Atom style 7:
load trp.pdb
pos 0 -5 0
ato 7
bon 0
tag "7"

# Atom style bal:
load trp.pdb
pos 12 -5 0
ato bal
bon 0
tag "bal (ball)"

# Atom style ba2:
load trp.pdb
pos 24 -5 0
ato ba2
bon 0
tag "ba2"

#Atom style small:
load trp.pdb
pos -24 5 0
ato sma
bon 0
tag "sma (small)"

# Atom style sm2:
load trp.pdb
pos -12 5 0
ato sm2
bon 0
tag "sm2"

# Atom style covalent:
load trp.pdb
pos 0 5 0
ato cov
bon 0
tag "cov (covalent)"

#Atom style co2:
load trp.pdb
pos 12 5 0
ato co2
bon 0
tag "co2"

#Atom style spacefill:
load trp.pdb
pos -24 15 0
ato spa 
bon 0
tag "spa (spacefill)"

#Atom style sp2:
load trp.pdb
pos -12 15 0
ato sp2
bon 0
tag "sp2"

#Atom style big:
load trp.pdb
pos 0 15 0
ato big
bon 0
tag "big"

#Atom style bi2:
load trp.pdb
pos 12 15 0
ato bi2
bon 0
tag "bi2"

# Hide the title:
title 1 off

# Switch refreshing on:
refresh