org.emboss.jemboss.gui
Class BuildProgramMenu

java.lang.Object
  org.emboss.jemboss.gui.BuildProgramMenu

public class BuildProgramMenu

extends java.lang.Object

BuildProgramMenu class construct the program menus.

Field Summary

private java.util.Hashtable	acdStore acd files cache
private static java.util.Vector	codons codons usage tables
private static java.lang.String[]	db database names
private java.lang.String[]	envp environment vars
private static java.util.Vector	matrices matrices
private AuthPopup	splashing login window
private SplashThread	splashThread thread for progress monitor on the login window

Constructor Summary

BuildProgramMenu(javax.swing.JPanel p1, ScrollPanel p2, javax.swing.JPanel pform, javax.swing.JScrollPane scrollProgForm, JembossParams mysettings, boolean withSoap, SetUpMenuBar mainMenu, javax.swing.JFrame f, java.awt.Dimension jform)

Method Summary

private java.lang.String	getAcdText(java.lang.String applName, JembossParams mysettings, boolean withSoap) Get the contents of an ACD file in the form of a String
static java.util.Vector	getCodonUsage() Contains all codon usage tables
protected static java.lang.String[]	getDatabaseList() List of available EMBOSS databases
static java.util.Vector	getMatrices() Contains all scoring matrix files

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Field Detail

db

private static java.lang.String[] db

database names

matrices

private static java.util.Vector matrices

matrices

codons

private static java.util.Vector codons

codons usage tables

acdStore

private java.util.Hashtable acdStore

acd files cache

splashing

private AuthPopup splashing

login window

splashThread

private SplashThread splashThread

thread for progress monitor on the login window

envp

private java.lang.String[] envp

environment vars

Constructor Detail

BuildProgramMenu

public BuildProgramMenu(javax.swing.JPanel p1,
                        ScrollPanel p2,
                        javax.swing.JPanel pform,
                        javax.swing.JScrollPane scrollProgForm,
                        JembossParams mysettings,
                        boolean withSoap,
                        SetUpMenuBar mainMenu,
                        javax.swing.JFrame f,
                        java.awt.Dimension jform)

Parameters:

p1 - menu pane

p2 - form pane

pform - pane containing emboss form and job manager

scrollProgForm - EMBOSS form scroll pane

mysettings - Jemboss settings

withSoap - true if using SOAP server

mainMenu - Jemboss main menu bar

f - Jemboss frame

jform - form pane dimension

Method Detail

getDatabaseList

protected static java.lang.String[] getDatabaseList()

List of available EMBOSS databases

Returns:

list of databases

getMatrices

public static java.util.Vector getMatrices()

Contains all scoring matrix files

getCodonUsage

public static java.util.Vector getCodonUsage()

Contains all codon usage tables

getAcdText

private java.lang.String getAcdText(java.lang.String applName,
                                    JembossParams mysettings,
                                    boolean withSoap)

Get the contents of an ACD file in the form of a String

Parameters:

applName - application name

mysettings - jemboss properties

withSoap - true if in client-server mode

Returns:

String representation of the ACD