Serialized Form
distance
java.lang.Object[][] distance
count
int count
names
java.lang.String[] names
html
javax.swing.JEditorPane html
frame
javax.swing.JFrame frame
path
java.lang.String path
characters
java.lang.Object[][] characters
numOfSites
int numOfSites
distance
java.lang.Object[][] distance
dis
double[][] dis
count
int count
- The number of species
names
java.lang.String[] names
- The names of the species
numOfSubstitutions
int[][] numOfSubstitutions
infoSites
java.util.Vector infoSites
interNodes
java.util.Vector interNodes
random_site
int random_site
total
int total
algorithm
Algorithm algorithm
nodes
Node[] nodes
numOfNodes
int numOfNodes
count
int count
colCount
int colCount
answer
double answer
answer_row
int answer_row
answer_col
int answer_col
random_i
int random_i
random_j
int random_j
distance
java.lang.Object[][] distance
- The distance matrix in the distance based algorithms
names
java.lang.String[] names
- The the names of the species
allNumOfSubs
int[] allNumOfSubs
dis
java.lang.Double[][] dis
pDistTable
MyJTable pDistTable
pTransDistTable
MyJTable pTransDistTable
treeDisplay
TreeDisplay treeDisplay
inputTable
MyJTable inputTable
interTable
MyJTable interTable
okButton
javax.swing.JButton okButton
settingButton
javax.swing.JButton settingButton
randomButton
javax.swing.JButton randomButton
resetButton
javax.swing.JButton resetButton
runButton
javax.swing.JButton runButton
traceButton
javax.swing.JButton traceButton
treeLabel
javax.swing.JLabel treeLabel
infoArea
javax.swing.JTextArea infoArea
hSB
javax.swing.JScrollBar hSB
vSB
javax.swing.JScrollBar vSB
leftPanel
javax.swing.JPanel leftPanel
algorithm
Algorithm algorithm
treeDisplay
TreeDisplay treeDisplay
algorithmType
int algorithmType
begin_name
char begin_name
count
int count
numOfSites
int numOfSites
names
java.lang.String[] names
first
boolean first
saveInput
boolean saveInput
popUpQues
boolean popUpQues
previousFrame
PreviousFrame previousFrame
settingDialog
javax.swing.JDialog settingDialog
countField
javax.swing.JTextField countField
sitesField
javax.swing.JTextField sitesField
namesArea
javax.swing.JTextField namesArea
acceptButton
javax.swing.JButton acceptButton
file
javax.swing.JMenu file
open
javax.swing.JMenuItem open
exit
javax.swing.JMenuItem exit
algorithms
javax.swing.JMenu algorithms
menuItemsAlgorithms
java.lang.String[] menuItemsAlgorithms
algorithmTypes
int[] algorithmTypes
options
javax.swing.JMenu options
saveInput
javax.swing.JCheckBoxMenuItem saveInput
popUpQuestions
javax.swing.JCheckBoxMenuItem popUpQuestions
zoomIn
javax.swing.JMenu zoomIn
menuItemsIn
java.lang.String[] menuItemsIn
ratiosIn
double[] ratiosIn
zoomOut
javax.swing.JMenu zoomOut
menuItemsOut
java.lang.String[] menuItemsOut
ratiosOut
double[] ratiosOut
help
javax.swing.JMenu help
help_general
javax.swing.JMenuItem help_general
help_algorithms
javax.swing.JMenuItem help_algorithms
help_glossary
javax.swing.JMenuItem help_glossary
about
javax.swing.JMenuItem about
controls
PTCControls controls
algorithmType
int algorithmType
dir
java.lang.String dir
zoomInWarningFlag
boolean zoomInWarningFlag
zoomOutWarningFlag
boolean zoomOutWarningFlag
count
int count
names
java.lang.String[] names
transDistance
java.lang.Object[][] transDistance
answer
double answer
answer_row
int answer_row
answer_col
int answer_col
begin
boolean begin
maxLength
double maxLength
minLength
double minLength
maxSeqWidth
int maxSeqWidth
unit_x
int unit_x
unit_y
int unit_y
init_x
int init_x
init_y
int init_y
radius
int radius
rect_width
int rect_width
size
int size
maxName
java.lang.String maxName
type
int type
numOfNodesLeft
int numOfNodesLeft
numOfLeaves
int numOfLeaves
height
double height
sumOfSquares
double sumOfSquares
flagString
java.lang.String flagString
numOfSubstitutions
int numOfSubstitutions
display
boolean display
roots
java.util.Vector roots
algorithm
Algorithm algorithm