Serialized Form

Package databionics.esom.gui

Class databionics.esom.gui.AboutDialog extends javax.swing.JFrame implements Serializable

serialVersionUID: 1L

Serialized Fields

img

java.awt.Image img

background image

Class databionics.esom.gui.BottomBar extends javax.swing.JTabbedPane implements Serializable

serialVersionUID: 1L

Serialized Fields

application

Application application

Class databionics.esom.gui.MainFrame extends BaseMainFrame implements Serializable

serialVersionUID: 1L

Serialized Fields

application

Application application

renderer

Renderer renderer

mainMenu

MainMenu mainMenu

the main menu

renderPanel

RenderPanel renderPanel

the render Panel, holding the ImagePanel

bottomBar

BottomBar bottomBar

the bottom bar holding the informational tabs

scrollPane

javax.swing.JScrollPane scrollPane

the Java Swing ScrollPane

loader

ToolLoader loader

Class databionics.esom.gui.MainMenu extends javax.swing.JMenuBar implements Serializable

serialVersionUID: 1L

Serialized Fields

loader

ToolLoader loader

chkCascade

javax.swing.JCheckBox chkCascade

loadWTSAction

LoadWtsFileAction loadWTSAction

loadUMXAction

LoadUmxFileAction loadUMXAction

openUMXItem

javax.swing.JMenuItem openUMXItem

openWTSItem

javax.swing.JMenuItem openWTSItem

Class databionics.esom.gui.PicPanel extends javax.swing.JPanel implements Serializable

serialVersionUID: 1L

Serialized Fields

image

java.awt.image.BufferedImage image

image2

java.awt.Image image2

Class databionics.esom.gui.RenderPanel extends javax.swing.JComponent implements Serializable

serialVersionUID: 1L

Serialized Fields

application

Application application

renderer

Renderer renderer

the main renderer

picPanel

PicPanel picPanel

the picture panel holding the renderers image

ccPanel

ProtoPanel ccPanel

panel for classifying points

clareasPanel

ProtoPanel clareasPanel

panel for classifying areas

islandPanel

ProtoPanel islandPanel

selectionPanel

ProtoPanel selectionPanel

panel for selecting points

actPanel

ProtoPanel actPanel

pointer on actually used Panel

bmInfoPanel

ProtoPanel bmInfoPanel

panel showing info

dim

java.awt.Dimension dim

java dimension

compos

boolean compos

are Components shown rather than a single map?

savedTool

AbstractTool savedTool

If components are shown, the currently active tool has to be deactivated. It's stored here to be put back in place afterwards.

selectedTool

AbstractTool selectedTool

normCursor

java.awt.Cursor normCursor

addCursor

java.awt.Cursor addCursor

subCursor

java.awt.Cursor subCursor

loader

ToolLoader loader

Package databionics.esom.gui.util

Class databionics.esom.gui.util.ClassComboBox extends javax.swing.JComboBox implements Serializable

serialVersionUID: 1L

Class databionics.esom.gui.util.ClassNameDialog extends javax.swing.JDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

lblName

javax.swing.JLabel lblName

txtName

javax.swing.JTextField txtName

btnOK

javax.swing.JButton btnOK

cci

DataClass cci

Class databionics.esom.gui.util.ColorEditor extends javax.swing.AbstractCellEditor implements Serializable

serialVersionUID: 1L

Serialized Fields

currentColor

java.awt.Color currentColor

button

javax.swing.JButton button

colorChooser

javax.swing.JColorChooser colorChooser

dialog

javax.swing.JDialog dialog

Class databionics.esom.gui.util.ColorRenderer extends javax.swing.JLabel implements Serializable

serialVersionUID: 1L

Serialized Fields

unselectedBorder

javax.swing.border.Border unselectedBorder

selectedBorder

javax.swing.border.Border selectedBorder

isBordered

boolean isBordered

Class databionics.esom.gui.util.GradientComboBox extends javax.swing.JComboBox implements Serializable

serialVersionUID: 1L

Serialized Fields

colorTables

java.util.List<E> colorTables

list with all color tables

names

java.util.List<E> names

list with all color table names

Class databionics.esom.gui.util.MessagePanel extends javax.swing.JFrame implements Serializable

serialVersionUID: 1L

Serialized Fields

message

java.lang.String message

error message

type

java.lang.String type

kind of error

x

int x

y

int y

text

javax.swing.JTextField text

ok

javax.swing.JButton ok

buttons

javax.swing.JPanel buttons

imageLabel

javax.swing.JLabel imageLabel

Class databionics.esom.gui.util.RunDialog extends javax.swing.JFrame implements Serializable

serialVersionUID: 1L

Serialized Fields

tool

Tool tool

Tool to run with this dialog

job

Job job

Job created to run the tool

project

Project project

Project to update after job is done (optional)

logPanel

LogPanel logPanel

Panel to display messages in

components

java.util.Map<K,V> components

Job created to run the tool

startButton

javax.swing.JButton startButton

Buttons. Needed globally to enable/disable and for event handling

stopButton

javax.swing.JButton stopButton

resetButton

javax.swing.JButton resetButton

closeButton

javax.swing.JButton closeButton

callback

CallBack callback

loader

ToolLoader loader

Package databionics.esom.renderer.foreground

Class databionics.esom.renderer.foreground.ForegroundList extends java.util.ArrayList implements Serializable

Serialized Fields

renderPosition

int renderPosition

One of the constants RENDER_POSTTILE,RENDER_MASK or RENDER_PRETILE from ForegroundRenderer.java.

bmSize

int bmSize

Size in grid-neurons for the smallest bm.

Package databionics.esom.tool

Class databionics.esom.tool.AbstractToolTable extends javax.swing.JTable implements Serializable

Serialized Fields

tool

AbstractTool tool

p

java.awt.Point p

row

int row

Class databionics.esom.tool.BottomTab extends javax.swing.JComponent implements Serializable

serialVersionUID: 1L

Serialized Fields

log

org.apache.log4j.Logger log

dataTable

javax.swing.JTable dataTable

scrollPane

javax.swing.JScrollPane scrollPane

scrollPane2

javax.swing.JScrollPane scrollPane2

toolBar

javax.swing.JToolBar toolBar

tool

AbstractTool tool

metaPanel

javax.swing.JPanel metaPanel

Class databionics.esom.tool.ProtoPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

isCreating

boolean isCreating

doubleActPoly

DoublePolygon doubleActPoly

actPoly

java.awt.Polygon actPoly

x

int x

y

int y

w

int w

h

int h

renderer

Renderer renderer

renderPanel

RenderPanel renderPanel

add

boolean add

substract

boolean substract

tool

AbstractTool tool

matrix

cern.colt.matrix.DoubleMatrix2D matrix

Package databionics.esom.tool.bminfo

Class databionics.esom.tool.bminfo.BMInfoPanel extends ProtoPanel implements Serializable

serialVersionUID: 1L

Serialized Fields

xscaledbms

cern.colt.list.IntArrayList xscaledbms

yscaledbms

cern.colt.list.IntArrayList yscaledbms

tool

BMInfoTool tool

text

java.lang.String text

index

int index

count

int count

xCoor

int xCoor

yCoor

int yCoor

g

java.awt.Graphics g

draw

boolean draw

oldtext

java.lang.String oldtext

Package databionics.esom.tool.classmask

Class databionics.esom.tool.classmask.ClassmaskCreatorPanel extends ProtoPanel implements Serializable

serialVersionUID: 1L

Serialized Fields

selection

boolean[][] selection

Class databionics.esom.tool.classmask.ClassmaskTable extends AbstractToolTable implements Serializable

serialVersionUID: 1L

Serialized Fields

currentClass

DataClass currentClass

Class databionics.esom.tool.classmask.ClassmaskTableModel extends javax.swing.table.AbstractTableModel implements Serializable

serialVersionUID: 1L

Serialized Fields

tool

AbstractTool tool

Package databionics.esom.tool.component

Class databionics.esom.tool.component.ComponentTable extends AbstractToolTable implements Serializable

serialVersionUID: 1L

Serialized Fields

renderer

Renderer renderer

the main Renderer

Class databionics.esom.tool.component.ComponentTableModel extends javax.swing.table.AbstractTableModel implements Serializable

serialVersionUID: 1L

Serialized Fields

tool

AbstractTool tool

this tool

Package databionics.esom.tool.data

Class databionics.esom.tool.data.DataTable extends AbstractToolTable implements Serializable

serialVersionUID: 1L

Class databionics.esom.tool.data.DataTableModel extends javax.swing.table.AbstractTableModel implements Serializable

serialVersionUID: 1L

Serialized Fields

lrn

LrnFile lrn

renderer

Renderer renderer

dataclassTool

DataclassTool dataclassTool

tool

AbstractTool tool

Class databionics.esom.tool.data.SelectedDataTableModel extends javax.swing.table.AbstractTableModel implements Serializable

serialVersionUID: 1L

Serialized Fields

lrn

LrnFile lrn

the underlying data

selectedLrn

LrnFile selectedLrn

the underlying data

idxs

cern.colt.list.IntArrayList idxs

the selected Indexes

data

cern.colt.matrix.DoubleMatrix2D data

DoubleMatrix2D with selected rows of lrnFile

selectedClasses

cern.colt.list.IntArrayList selectedClasses

IntArrayList with selected classes

selectedKeys

cern.colt.list.IntArrayList selectedKeys

IntArray with selected keys

dataclassTool

DataclassTool dataclassTool

the renderer

tool

AbstractTool tool

Class databionics.esom.tool.data.SelectionPanel extends ProtoPanel implements Serializable

serialVersionUID: 1L

Serialized Fields

xc

int[] xc

yc

int[] yc

idxs

cern.colt.list.IntArrayList idxs

Package databionics.esom.tool.dataclass

Class databionics.esom.tool.dataclass.DataclassCreatorPanel extends ProtoPanel implements Serializable

serialVersionUID: 1L

Serialized Fields

bestMatches

BMFile bestMatches

idxs

cern.colt.list.IntArrayList idxs

currentClass

int currentClass

Class databionics.esom.tool.dataclass.DataclassTable extends AbstractToolTable implements Serializable

serialVersionUID: 1L

Class databionics.esom.tool.dataclass.DataclassTableModel extends javax.swing.table.AbstractTableModel implements Serializable

serialVersionUID: 1L

Serialized Fields

tool

AbstractTool tool

Package databionics.esom.tool.info

Class databionics.esom.tool.info.InfoToolTable extends AbstractToolTable implements Serializable

serialVersionUID: 1L

Class databionics.esom.tool.info.InfoToolTableModel extends javax.swing.table.AbstractTableModel implements Serializable

serialVersionUID: 1L

Serialized Fields

tool

AbstractTool tool

renderer

Renderer renderer

Package databionics.esom.tool.island

Class databionics.esom.tool.island.IslandCreatorPanel extends ProtoPanel implements Serializable

serialVersionUID: 1L

Class databionics.esom.tool.island.IslandTable extends AbstractToolTable implements Serializable

serialVersionUID: 1L

Class databionics.esom.tool.island.IslandTableModel extends javax.swing.table.AbstractTableModel implements Serializable

serialVersionUID: 1L

Serialized Fields

tool

AbstractTool tool

Package databionics.esom.tool.legend

Class databionics.esom.tool.legend.ColorLegend extends LegendRenderer implements Serializable

serialVersionUID: 1L

Serialized Fields

map

ColorMapping map

The Color Mapping

legend

Legend legend

Panel where the image is shown

Class databionics.esom.tool.legend.HeightsLegend extends LegendRenderer implements Serializable

serialVersionUID: 1L

Serialized Fields

map

ColorMapping map

binSize

int binSize

out

boolean out

statistic

cern.colt.matrix.DoubleMatrix1D statistic

legend

Legend legend

Class databionics.esom.tool.legend.Legend extends javax.swing.JPanel implements Serializable

serialVersionUID: 1L

Serialized Fields

steps

int steps

renderer

Renderer renderer

rendererList

java.util.Vector<E> rendererList

lRenderer

LegendRenderer lRenderer

cRenderer

LegendRenderer cRenderer

pRenderer

LegendRenderer pRenderer

image

java.awt.image.BufferedImage image

actView

int actView

popMenu

javax.swing.JPopupMenu popMenu

popup menu

itmSaveLegend

javax.swing.JMenuItem itmSaveLegend

Class databionics.esom.tool.legend.LegendRenderer extends javax.swing.JPanel implements Serializable

Serialized Fields

renderer

Renderer renderer

rendererTools

RendererTools rendererTools

grid

RectangularGrid grid

data

LrnFile data

bestmatches

BMFile bestmatches

heights

cern.colt.matrix.DoubleMatrix2D heights

density

cern.colt.matrix.DoubleMatrix2D density

colorStat

ColorStatistics colorStat

colorSteps

int colorSteps

Class databionics.esom.tool.legend.PictureLegend extends LegendRenderer implements Serializable

serialVersionUID: 1L

Serialized Fields

map

ColorMapping map

The Color Mapping

method

java.lang.String method

x

int x

Package databionics.esom.tool.slideshow

Class databionics.esom.tool.slideshow.PngPrefixQuestion extends javax.swing.JDialog implements Serializable

serialVersionUID: 1L

Serialized Fields

text

javax.swing.JTextField text

the text field

comboBox

javax.swing.JComboBox comboBox

the combo box

ok

javax.swing.JButton ok

the button for excepting

cancel

javax.swing.JButton cancel

the button for canceling

loader

ToolLoader loader

the global tool loader

Class databionics.esom.tool.slideshow.SlideShow extends java.awt.Frame implements Serializable

serialVersionUID: 1L

Serialized Fields

log

org.apache.log4j.Logger log

PLAY_BACK

int PLAY_BACK

PLAY_FOR

int PLAY_FOR

tool

SlideshowTool tool

imagePanel

PicPanel imagePanel

centerPanel

RenderPanel centerPanel

renderer

Renderer renderer

toolbar

javax.swing.JToolBar toolbar

south

javax.swing.JPanel south

stepForward

javax.swing.JButton stepForward

forward

javax.swing.JButton forward

stepBackward

javax.swing.JButton stepBackward

backward

javax.swing.JButton backward

stop

javax.swing.JButton stop

first

javax.swing.JButton first

sldSpeed

javax.swing.JSlider sldSpeed

pnlSpeed

javax.swing.JPanel pnlSpeed

lblSpeed

javax.swing.JLabel lblSpeed

lblSpeedSteps

javax.swing.JLabel lblSpeedSteps

exit

ExitSlideShowAction exit

method

int method

speed

int speed

thread

PlayThread thread

position

int position

stopped

boolean stopped

Class databionics.esom.tool.slideshow.SlideShowInfoTable extends AbstractToolTable implements Serializable

serialVersionUID: 1L

Class databionics.esom.tool.slideshow.SlideShowInfoTableModel extends javax.swing.table.AbstractTableModel implements Serializable

serialVersionUID: 1L

Serialized Fields

tool

AbstractTool tool

renderer

Renderer renderer

Package databionics.gui

Class databionics.gui.BaseMainFrame extends javax.swing.JFrame implements Serializable

serialVersionUID: 1L

Class databionics.gui.LogPanel extends javax.swing.JPanel implements Serializable

serialVersionUID: 1L

Serialized Fields

logger

org.apache.log4j.Logger logger

logger to add appender to

appender

org.apache.log4j.WriterAppender appender

appender to add to logger

textArea

javax.swing.JTextArea textArea

text area for messages

scrollPane

javax.swing.JScrollPane scrollPane

scrolling around messages

showProgress

boolean showProgress

flag whether to show progress bar

progressBar

javax.swing.JProgressBar progressBar

progress bar below messages

progressPattern

java.util.regex.Pattern progressPattern

regular expression for parsing progress

progressMatcher

java.util.regex.Matcher progressMatcher

regular expression matcher for parsing progress

Class databionics.gui.LogPanel.ClearAction extends javax.swing.AbstractAction implements Serializable

Serialized Fields

text

javax.swing.JTextArea text

Class databionics.gui.RunDialog extends javax.swing.JFrame implements Serializable

serialVersionUID: 1L

Serialized Fields

callback

CallBack callback

Callback for actions when job is done

tool

Tool tool

Tool to run with this dialog

job

Job job

Job created to run the tool

project

Project project

Project to update after job is done (optional)

logPanel

LogPanel logPanel

Panel to display messages in

components

java.util.Map<K,V> components

Job created to run the tool

watch

java.lang.Thread watch

Thread for the buttons

startButton

javax.swing.JButton startButton

Buttons. Needed globally to enable/disable and for event handling

stopButton

javax.swing.JButton stopButton

resetButton

javax.swing.JButton resetButton

closeButton

javax.swing.JButton closeButton

Package databionics.modules

Class databionics.modules.GreaterThanMaxException extends java.lang.Exception implements Serializable

serialVersionUID: 1L

Class databionics.modules.LessThanMinException extends java.lang.Exception implements Serializable

serialVersionUID: 1L

Class databionics.modules.Modules extends java.util.LinkedList implements Serializable

serialVersionUID: 1L

Package databionics.project

Class databionics.project.FileSlot extends java.util.LinkedList implements Serializable

serialVersionUID: 1L

Serialized Fields

type

FileType type

this slot contains filenames of this type

file

BaseFile file

the data of the first file in this slot

autoload

boolean autoload

automatically load file when name is set

max

int max

maximum size of history

Class databionics.project.Project extends java.util.ArrayList implements Serializable

serialVersionUID: 1L

Serialized Fields

name

java.lang.String name

name of the project

description

java.lang.String description

description of the project

history

java.util.List<E> history

list with finished and active jobs

changeListeners

java.util.List<E> changeListeners

List with all classes, which are informed when the files in this project have changed

clean

boolean clean

flag for a new project - to ask for a name when saving

saved

boolean saved

flag whether anything has changed since the last saving

modules

Modules modules

list of modules with tools needed for loading

Package databionics.text

Class databionics.text.StringCounter extends java.util.HashMap implements Serializable

serialVersionUID: 1L

Class databionics.text.StringList extends java.util.LinkedList implements Serializable

serialVersionUID: 1L

Package databionics.util

Class databionics.util.IntegerList extends java.util.LinkedList implements Serializable