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.

Author:

T. J. Carver

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 static java.util.Vector	matrices matrices
private AuthPopup	splashing
private SplashThread	splashThread

Constructor Summary

BuildProgramMenu(javax.swing.JPanel p1, ScrollPanel p2, javax.swing.JPanel pform, javax.swing.JScrollPane scrollProgForm, java.lang.String embossBin, java.lang.String[] envp, JembossParams mysettings, boolean withSoap, java.lang.String cwd, java.lang.String acdDirToParse, SetUpMenuBar mainMenu, javax.swing.JFrame f, java.awt.Dimension jform)

Method Summary

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

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

splashThread

private SplashThread splashThread

Constructor Detail

BuildProgramMenu

public BuildProgramMenu(javax.swing.JPanel p1,
                        ScrollPanel p2,
                        javax.swing.JPanel pform,
                        javax.swing.JScrollPane scrollProgForm,
                        java.lang.String embossBin,
                        java.lang.String[] envp,
                        JembossParams mysettings,
                        boolean withSoap,
                        java.lang.String cwd,
                        java.lang.String acdDirToParse,
                        SetUpMenuBar mainMenu,
                        javax.swing.JFrame f,
                        java.awt.Dimension jform)

Method Detail

getDatabaseList

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

List of available EMBOSS databases.

Returns:

String[] list of databases

getMatrices

public static java.util.Vector getMatrices()

getCodonUsage

public static java.util.Vector getCodonUsage()

getAcdText

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

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