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Serialized Form

Package cct.amber

Class cct.amber.Amber9JobDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

jPanel1

javax.swing.JPanel jPanel1

amber9JobPanel1

Sander9JobPanel amber9JobPanel1

jButton1

javax.swing.JButton jButton1

jButton2

javax.swing.JButton jButton2

jButton3

javax.swing.JButton jButton3

Class cct.amber.AmberApplet extends java.applet.Applet implements Serializable

Serialized Fields

isStandalone

boolean isStandalone

borderLayout1

java.awt.BorderLayout borderLayout1

AmberSubmit

AmberSubmitDialog AmberSubmit

Class cct.amber.AmberSubmitDialog extends java.awt.Frame implements Serializable

Serialized Fields

mdin

java.lang.String mdin

prmtop

java.lang.String prmtop

inpcrd

java.lang.String inpcrd

mdin_dir

java.lang.String mdin_dir

prmtop_dir

java.lang.String prmtop_dir

inpcrd_dir

java.lang.String inpcrd_dir

numberOfAtoms

int numberOfAtoms

actionURL

java.lang.String actionURL

fileContent

java.awt.TextArea fileContent

sanderJC

Sander8JobControl sanderJC

resources

SanderJobControlDialog resources

eval

SanderResourcesEval eval

daddy

AmberApplet daddy

Class cct.amber.ReadPrmtopDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

helpButton

javax.swing.JButton helpButton

jLabel1

javax.swing.JLabel jLabel1

filesPanel

javax.swing.JPanel filesPanel

buttonsPanel

javax.swing.JPanel buttonsPanel

jLabel2

javax.swing.JLabel jLabel2

cancelButton

javax.swing.JButton cancelButton

loadButton

javax.swing.JButton loadButton

coordButton

javax.swing.JButton coordButton

browsePrmtopButton

javax.swing.JButton browsePrmtopButton

inpcrdTextField

javax.swing.JTextField inpcrdTextField

prmtopTextField

javax.swing.JTextField prmtopTextField

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

chooser

javax.swing.JFileChooser chooser

prmtop

AmberPrmtop prmtop

molecule

MoleculeInterface molecule

prefs

java.util.prefs.Preferences prefs

currentWorkingDirectory

java.io.File currentWorkingDirectory

OKPressed

boolean OKPressed

Class cct.amber.Sander8Frame extends javax.swing.JFrame implements Serializable

Serialized Fields

contentPane

javax.swing.JPanel contentPane

borderLayout1

java.awt.BorderLayout borderLayout1

jMenuBar1

javax.swing.JMenuBar jMenuBar1

jMenuFile

javax.swing.JMenu jMenuFile

jMenuFileExit

javax.swing.JMenuItem jMenuFileExit

jMenuHelp

javax.swing.JMenu jMenuHelp

jMenuHelpAbout

javax.swing.JMenuItem jMenuHelpAbout

jToolBar

javax.swing.JToolBar jToolBar

openFile_Button

javax.swing.JButton openFile_Button

newFile_Button

javax.swing.JButton newFile_Button

help_Button

javax.swing.JButton help_Button

image1

javax.swing.ImageIcon image1

image2

javax.swing.ImageIcon image2

saveFileImage

javax.swing.ImageIcon saveFileImage

image3

javax.swing.ImageIcon image3

jTabbedPane1

javax.swing.JTabbedPane jTabbedPane1

jobTypePanel

javax.swing.JPanel jobTypePanel

potentialFuncPanel

javax.swing.JPanel potentialFuncPanel

descriptionPane

javax.swing.JTextArea descriptionPane

descrPanel

javax.swing.JPanel descrPanel

borderLayout2

java.awt.BorderLayout borderLayout2

borderLayout3

java.awt.BorderLayout borderLayout3

s8jc

Sander8JobControl s8jc

cntrl

FortranNamelist cntrl

fileContent

java.lang.String fileContent

fileName

java.lang.String fileName

workingDirectory

java.lang.String workingDirectory

inputEditor

TextEditorFrame inputEditor

controlsTable

java.util.HashMap<K,V> controlsTable

comboBoxAdjusting

boolean comboBoxAdjusting

NTF_ComboBox

javax.swing.JComboBox NTF_ComboBox

NTB_ComboBox

javax.swing.JComboBox NTB_ComboBox

DIELC_TextField

javax.swing.JTextField DIELC_TextField

CUT_TextField

javax.swing.JTextField CUT_TextField

SCNB_TextField

javax.swing.JTextField SCNB_TextField

SCEE_TextField

javax.swing.JTextField SCEE_TextField

NSNB_TextField

javax.swing.JTextField NSNB_TextField

IPOL_ComboBox

javax.swing.JComboBox IPOL_ComboBox

GB_Panel

javax.swing.JPanel GB_Panel

PME_Panel

javax.swing.JPanel PME_Panel

jPanel1

javax.swing.JPanel jPanel1

borderLayout5

java.awt.BorderLayout borderLayout5

IMIN_ComboBox

javax.swing.JComboBox IMIN_ComboBox

ioPanel

javax.swing.JPanel ioPanel

outputPanel

javax.swing.JPanel outputPanel

inputPanel

javax.swing.JPanel inputPanel

borderLayout6

java.awt.BorderLayout borderLayout6

restrainPanel

javax.swing.JPanel restrainPanel

cardsPanel

javax.swing.JPanel cardsPanel

cardLayout1

java.awt.CardLayout cardLayout1

minCard

javax.swing.JPanel minCard

mdCard

javax.swing.JPanel mdCard

methodLabel

javax.swing.JLabel methodLabel

NTMIN_ComboBox

javax.swing.JComboBox NTMIN_ComboBox

maxIterLabel

javax.swing.JLabel maxIterLabel

MAXCYC_TextField

javax.swing.JTextField MAXCYC_TextField

dxLabel

javax.swing.JLabel dxLabel

switchLabel

javax.swing.JLabel switchLabel

covergLabel

javax.swing.JLabel covergLabel

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

NCYC_TextField

javax.swing.JTextField NCYC_TextField

DX0_TextField

javax.swing.JTextField DX0_TextField

DRMS_TextField

javax.swing.JTextField DRMS_TextField

gridBagLayout2

java.awt.GridBagLayout gridBagLayout2

IREST_ComboBox

javax.swing.JComboBox IREST_ComboBox

gridBagLayout3

java.awt.GridBagLayout gridBagLayout3

NSTLIM_Label

javax.swing.JLabel NSTLIM_Label

NSTLIM_TextField

javax.swing.JTextField NSTLIM_TextField

TEMP0_Label

javax.swing.JLabel TEMP0_Label

TEMP0_TextField

javax.swing.JTextField TEMP0_TextField

DT_Label

javax.swing.JLabel DT_Label

DT_TextField

javax.swing.JTextField DT_TextField

MolDynPanel

javax.swing.JPanel MolDynPanel

gridBagLayout4

java.awt.GridBagLayout gridBagLayout4

NSCM_Label

javax.swing.JLabel NSCM_Label

NSCM_TextField

javax.swing.JTextField NSCM_TextField

NRESPA_Label

javax.swing.JLabel NRESPA_Label

NRESPA_TextField

javax.swing.JTextField NRESPA_TextField

T_Label

javax.swing.JLabel T_Label

T_TextField

javax.swing.JTextField T_TextField

NTT_Label

javax.swing.JLabel NTT_Label

NTT_ComboBox

javax.swing.JComboBox NTT_ComboBox

TEMP0LES_Label

javax.swing.JLabel TEMP0LES_Label

TEMP0LES_TextField

javax.swing.JTextField TEMP0LES_TextField

TEMPI_Label

javax.swing.JLabel TEMPI_Label

TEMPI_TextField

javax.swing.JTextField TEMPI_TextField

IG_Label

javax.swing.JLabel IG_Label

IG_TextField

javax.swing.JTextField IG_TextField

TAUTP_Label

javax.swing.JLabel TAUTP_Label

TAUTP_TextField

javax.swing.JTextField TAUTP_TextField

GAMMA_LN_Label

javax.swing.JLabel GAMMA_LN_Label

GAMMA_LN_TextField

javax.swing.JTextField GAMMA_LN_TextField

VRAND_Label

javax.swing.JLabel VRAND_Label

VRAND_TextField

javax.swing.JTextField VRAND_TextField

VLIMIT_Label

javax.swing.JLabel VLIMIT_Label

VLIMIT_TextField

javax.swing.JTextField VLIMIT_TextField

TempControlPanel

javax.swing.JPanel TempControlPanel

gridBagLayout5

java.awt.GridBagLayout gridBagLayout5

NTP_Label

javax.swing.JLabel NTP_Label

NTP_ComboBox

javax.swing.JComboBox NTP_ComboBox

PRES0_Label

javax.swing.JLabel PRES0_Label

PRES0_TextField

javax.swing.JTextField PRES0_TextField

COMP_Label

javax.swing.JLabel COMP_Label

COMP_TextField

javax.swing.JTextField COMP_TextField

PressureControlPanel

javax.swing.JPanel PressureControlPanel

TAUP_Label

javax.swing.JLabel TAUP_Label

TAUP_TextField

javax.swing.JTextField TAUP_TextField

NSNB_Label

javax.swing.JLabel NSNB_Label

SCEE_Label

javax.swing.JLabel SCEE_Label

IPOL_Label

javax.swing.JLabel IPOL_Label

NTF_Label

javax.swing.JLabel NTF_Label

NTB_Label

javax.swing.JLabel NTB_Label

NTXO_Label

javax.swing.JLabel NTXO_Label

NTXO_ComboBox

javax.swing.JComboBox NTXO_ComboBox

NTPR_Label

javax.swing.JLabel NTPR_Label

NTPR_TextField

javax.swing.JTextField NTPR_TextField

NTX_Label

javax.swing.JLabel NTX_Label

NTX_ComboBox

javax.swing.JComboBox NTX_ComboBox

NTRX_Label

javax.swing.JLabel NTRX_Label

NTRX_ComboBox

javax.swing.JComboBox NTRX_ComboBox

NTAVE_Label

javax.swing.JLabel NTAVE_Label

NTAVE_TextField

javax.swing.JTextField NTAVE_TextField

NTWR_Label

javax.swing.JLabel NTWR_Label

NTWR_TextField

javax.swing.JTextField NTWR_TextField

IWRAP_Label

javax.swing.JLabel IWRAP_Label

IWRAP_ComboBox

javax.swing.JComboBox IWRAP_ComboBox

flowLayout2

java.awt.FlowLayout flowLayout2

NTWX_Label

javax.swing.JLabel NTWX_Label

NTWX_TextField

javax.swing.JTextField NTWX_TextField

NTWV_Label

javax.swing.JLabel NTWV_Label

NTWV_TextField

javax.swing.JTextField NTWV_TextField

NTWE_Label

javax.swing.JLabel NTWE_Label

NTWE_TextField

javax.swing.JTextField NTWE_TextField

IOUTFM_Label

javax.swing.JLabel IOUTFM_Label

IOUTFM_ComboBox

javax.swing.JComboBox IOUTFM_ComboBox

NTWPRT_Label

javax.swing.JLabel NTWPRT_Label

NTWPRT_TextField

javax.swing.JTextField NTWPRT_TextField

IDECOMP_Label

javax.swing.JLabel IDECOMP_Label

IDECOMP_ComboBox

javax.swing.JComboBox IDECOMP_ComboBox

IGB_ComboBox

javax.swing.JComboBox IGB_ComboBox

INTDIEL_Label

javax.swing.JLabel INTDIEL_Label

INTDIEL_TextField

javax.swing.JTextField INTDIEL_TextField

EXTDIEL_Label

javax.swing.JLabel EXTDIEL_Label

EXTDIEL_TextField

javax.swing.JTextField EXTDIEL_TextField

SALTCON_Label

javax.swing.JLabel SALTCON_Label

SALTCON_TextField

javax.swing.JTextField SALTCON_TextField

RGBMAX_Label

javax.swing.JLabel RGBMAX_Label

RGBMAX_TextField

javax.swing.JTextField RGBMAX_TextField

RBORNSTAT_Label

javax.swing.JLabel RBORNSTAT_Label

RBORNSTAT_ComboBox

javax.swing.JComboBox RBORNSTAT_ComboBox

OFFSET_Label

javax.swing.JLabel OFFSET_Label

OFFSET_TextField

javax.swing.JTextField OFFSET_TextField

GBSA_Label

javax.swing.JLabel GBSA_Label

GBSA_ComboBox

javax.swing.JComboBox GBSA_ComboBox

RDT_Label

javax.swing.JLabel RDT_Label

SURFTEN_Label

javax.swing.JLabel SURFTEN_Label

RDT_TextField

javax.swing.JTextField RDT_TextField

SURFTEN_TextField

javax.swing.JTextField SURFTEN_TextField

gridBagLayout7

java.awt.GridBagLayout gridBagLayout7

gridBagLayout8

java.awt.GridBagLayout gridBagLayout8

GB_Dummy_Label

javax.swing.JLabel GB_Dummy_Label

DIELC_Label

javax.swing.JLabel DIELC_Label

CUT_Label

javax.swing.JLabel CUT_Label

SCNB_Label

javax.swing.JLabel SCNB_Label

Edit_MenuItem

javax.swing.JMenuItem Edit_MenuItem

flowLayout3

java.awt.FlowLayout flowLayout3

NTR_Label

javax.swing.JLabel NTR_Label

NTR_ComboBox

javax.swing.JComboBox NTR_ComboBox

IBELLY_Label

javax.swing.JLabel IBELLY_Label

IBELLY_ComboBox

javax.swing.JComboBox IBELLY_ComboBox

BELLYMASK_Label

javax.swing.JLabel BELLYMASK_Label

RESTRAINTMASK_Label

javax.swing.JLabel RESTRAINTMASK_Label

RESTRAINT_WT_Label

javax.swing.JLabel RESTRAINT_WT_Label

BELLYMASK_TextField

javax.swing.JTextField BELLYMASK_TextField

RESTRAINTMASK_TextField

javax.swing.JTextField RESTRAINTMASK_TextField

RESTRAINT_WT_TextField

javax.swing.JTextField RESTRAINT_WT_TextField

FCAP_Label

javax.swing.JLabel FCAP_Label

IVCAP_Label

javax.swing.JLabel IVCAP_Label

IVCAP_ComboBox

javax.swing.JComboBox IVCAP_ComboBox

FCAP_TextField

javax.swing.JTextField FCAP_TextField

shakePanel

javax.swing.JPanel shakePanel

HWTNM2_Label

javax.swing.JLabel HWTNM2_Label

HWTNM1_Label

javax.swing.JLabel HWTNM1_Label

OWTNM_Label

javax.swing.JLabel OWTNM_Label

WATNAM_Label

javax.swing.JLabel WATNAM_Label

TOL_Label

javax.swing.JLabel TOL_Label

JFASTW_Label

javax.swing.JLabel JFASTW_Label

NTC_Label

javax.swing.JLabel NTC_Label

JFASTW_ComboBox

javax.swing.JComboBox JFASTW_ComboBox

NTC_ComboBox

javax.swing.JComboBox NTC_ComboBox

HWTNM2_TextField

javax.swing.JTextField HWTNM2_TextField

HWTNM1_TextField

javax.swing.JTextField HWTNM1_TextField

WATNAM_TextField

javax.swing.JTextField WATNAM_TextField

OWTNM_TextField

javax.swing.JTextField OWTNM_TextField

TOL_TextField

javax.swing.JTextField TOL_TextField

gridBagLayout6

java.awt.GridBagLayout gridBagLayout6

gridBagLayout9

java.awt.GridBagLayout gridBagLayout9

jLabel6

javax.swing.JLabel jLabel6

gridBagLayout10

java.awt.GridBagLayout gridBagLayout10

Dummy_MD_Label

javax.swing.JLabel Dummy_MD_Label

saveFile_Button

javax.swing.JButton saveFile_Button

jMenuItem1

javax.swing.JMenuItem jMenuItem1

jMenuItem2

javax.swing.JMenuItem jMenuItem2

Class cct.amber.Sander8Frame_AboutBox extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

panel2

javax.swing.JPanel panel2

insetsPanel1

javax.swing.JPanel insetsPanel1

insetsPanel2

javax.swing.JPanel insetsPanel2

insetsPanel3

javax.swing.JPanel insetsPanel3

button1

javax.swing.JButton button1

imageLabel

javax.swing.JLabel imageLabel

label1

javax.swing.JLabel label1

label2

javax.swing.JLabel label2

label3

javax.swing.JLabel label3

label4

javax.swing.JLabel label4

image1

javax.swing.ImageIcon image1

borderLayout1

java.awt.BorderLayout borderLayout1

borderLayout2

java.awt.BorderLayout borderLayout2

flowLayout1

java.awt.FlowLayout flowLayout1

gridLayout1

java.awt.GridLayout gridLayout1

product

java.lang.String product

version

java.lang.String version

copyright

java.lang.String copyright

comments

java.lang.String comments

Class cct.amber.Sander9Frame extends javax.swing.JFrame implements Serializable

Serialized Fields

contentPane

javax.swing.JPanel contentPane

borderLayout1

java.awt.BorderLayout borderLayout1

jMenuBar1

javax.swing.JMenuBar jMenuBar1

jMenuFile

javax.swing.JMenu jMenuFile

jMenuFileExit

javax.swing.JMenuItem jMenuFileExit

jMenuHelp

javax.swing.JMenu jMenuHelp

jMenuHelpAbout

javax.swing.JMenuItem jMenuHelpAbout

jToolBar

javax.swing.JToolBar jToolBar

openFile_Button

javax.swing.JButton openFile_Button

newFile_Button

javax.swing.JButton newFile_Button

help_Button

javax.swing.JButton help_Button

image1

javax.swing.ImageIcon image1

image2

javax.swing.ImageIcon image2

saveFileImage

javax.swing.ImageIcon saveFileImage

image3

javax.swing.ImageIcon image3

jTabbedPane1

javax.swing.JTabbedPane jTabbedPane1

jobTypePanel

javax.swing.JPanel jobTypePanel

potentialFuncPanel

javax.swing.JPanel potentialFuncPanel

descriptionPane

javax.swing.JTextArea descriptionPane

descrPanel

javax.swing.JPanel descrPanel

borderLayout2

java.awt.BorderLayout borderLayout2

borderLayout3

java.awt.BorderLayout borderLayout3

s8jc

Sander9JobControl s8jc

cntrl

FortranNamelist cntrl

fileContent

java.lang.String fileContent

fileName

java.lang.String fileName

workingDirectory

java.lang.String workingDirectory

inputEditor

TextEditorFrame inputEditor

controlsTable

java.util.HashMap<K,V> controlsTable

comboBoxAdjusting

boolean comboBoxAdjusting

NTF_ComboBox

javax.swing.JComboBox NTF_ComboBox

NTB_ComboBox

javax.swing.JComboBox NTB_ComboBox

DIELC_TextField

javax.swing.JTextField DIELC_TextField

CUT_TextField

javax.swing.JTextField CUT_TextField

SCNB_TextField

javax.swing.JTextField SCNB_TextField

SCEE_TextField

javax.swing.JTextField SCEE_TextField

NSNB_TextField

javax.swing.JTextField NSNB_TextField

IPOL_ComboBox

javax.swing.JComboBox IPOL_ComboBox

GB_Panel

javax.swing.JPanel GB_Panel

PME_Panel

javax.swing.JPanel PME_Panel

jPanel1

javax.swing.JPanel jPanel1

borderLayout5

java.awt.BorderLayout borderLayout5

IMIN_ComboBox

javax.swing.JComboBox IMIN_ComboBox

ioPanel

javax.swing.JPanel ioPanel

outputPanel

javax.swing.JPanel outputPanel

inputPanel

javax.swing.JPanel inputPanel

borderLayout6

java.awt.BorderLayout borderLayout6

restrainPanel

javax.swing.JPanel restrainPanel

cardsPanel

javax.swing.JPanel cardsPanel

cardLayout1

java.awt.CardLayout cardLayout1

minCard

javax.swing.JPanel minCard

mdCard

javax.swing.JPanel mdCard

methodLabel

javax.swing.JLabel methodLabel

NTMIN_ComboBox

javax.swing.JComboBox NTMIN_ComboBox

maxIterLabel

javax.swing.JLabel maxIterLabel

MAXCYC_TextField

javax.swing.JTextField MAXCYC_TextField

dxLabel

javax.swing.JLabel dxLabel

switchLabel

javax.swing.JLabel switchLabel

covergLabel

javax.swing.JLabel covergLabel

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

NCYC_TextField

javax.swing.JTextField NCYC_TextField

DX0_TextField

javax.swing.JTextField DX0_TextField

DRMS_TextField

javax.swing.JTextField DRMS_TextField

gridBagLayout2

java.awt.GridBagLayout gridBagLayout2

IREST_ComboBox

javax.swing.JComboBox IREST_ComboBox

gridBagLayout3

java.awt.GridBagLayout gridBagLayout3

NSTLIM_Label

javax.swing.JLabel NSTLIM_Label

NSTLIM_TextField

javax.swing.JTextField NSTLIM_TextField

TEMP0_Label

javax.swing.JLabel TEMP0_Label

TEMP0_TextField

javax.swing.JTextField TEMP0_TextField

DT_Label

javax.swing.JLabel DT_Label

DT_TextField

javax.swing.JTextField DT_TextField

MolDynPanel

javax.swing.JPanel MolDynPanel

gridBagLayout4

java.awt.GridBagLayout gridBagLayout4

NSCM_Label

javax.swing.JLabel NSCM_Label

NSCM_TextField

javax.swing.JTextField NSCM_TextField

NRESPA_Label

javax.swing.JLabel NRESPA_Label

NRESPA_TextField

javax.swing.JTextField NRESPA_TextField

T_Label

javax.swing.JLabel T_Label

T_TextField

javax.swing.JTextField T_TextField

NTT_Label

javax.swing.JLabel NTT_Label

NTT_ComboBox

javax.swing.JComboBox NTT_ComboBox

TEMP0LES_Label

javax.swing.JLabel TEMP0LES_Label

TEMP0LES_TextField

javax.swing.JTextField TEMP0LES_TextField

TEMPI_Label

javax.swing.JLabel TEMPI_Label

TEMPI_TextField

javax.swing.JTextField TEMPI_TextField

IG_Label

javax.swing.JLabel IG_Label

IG_TextField

javax.swing.JTextField IG_TextField

TAUTP_Label

javax.swing.JLabel TAUTP_Label

TAUTP_TextField

javax.swing.JTextField TAUTP_TextField

GAMMA_LN_Label

javax.swing.JLabel GAMMA_LN_Label

GAMMA_LN_TextField

javax.swing.JTextField GAMMA_LN_TextField

VRAND_Label

javax.swing.JLabel VRAND_Label

VRAND_TextField

javax.swing.JTextField VRAND_TextField

VLIMIT_Label

javax.swing.JLabel VLIMIT_Label

VLIMIT_TextField

javax.swing.JTextField VLIMIT_TextField

TempControlPanel

javax.swing.JPanel TempControlPanel

gridBagLayout5

java.awt.GridBagLayout gridBagLayout5

NTP_Label

javax.swing.JLabel NTP_Label

NTP_ComboBox

javax.swing.JComboBox NTP_ComboBox

PRES0_Label

javax.swing.JLabel PRES0_Label

PRES0_TextField

javax.swing.JTextField PRES0_TextField

COMP_Label

javax.swing.JLabel COMP_Label

COMP_TextField

javax.swing.JTextField COMP_TextField

PressureControlPanel

javax.swing.JPanel PressureControlPanel

TAUP_Label

javax.swing.JLabel TAUP_Label

TAUP_TextField

javax.swing.JTextField TAUP_TextField

NSNB_Label

javax.swing.JLabel NSNB_Label

SCEE_Label

javax.swing.JLabel SCEE_Label

IPOL_Label

javax.swing.JLabel IPOL_Label

NTF_Label

javax.swing.JLabel NTF_Label

NTB_Label

javax.swing.JLabel NTB_Label

NTXO_Label

javax.swing.JLabel NTXO_Label

NTXO_ComboBox

javax.swing.JComboBox NTXO_ComboBox

NTPR_Label

javax.swing.JLabel NTPR_Label

NTPR_TextField

javax.swing.JTextField NTPR_TextField

NTX_Label

javax.swing.JLabel NTX_Label

NTX_ComboBox

javax.swing.JComboBox NTX_ComboBox

NTRX_Label

javax.swing.JLabel NTRX_Label

NTRX_ComboBox

javax.swing.JComboBox NTRX_ComboBox

NTAVE_Label

javax.swing.JLabel NTAVE_Label

NTAVE_TextField

javax.swing.JTextField NTAVE_TextField

NTWR_Label

javax.swing.JLabel NTWR_Label

NTWR_TextField

javax.swing.JTextField NTWR_TextField

IWRAP_Label

javax.swing.JLabel IWRAP_Label

IWRAP_ComboBox

javax.swing.JComboBox IWRAP_ComboBox

flowLayout2

java.awt.FlowLayout flowLayout2

NTWX_Label

javax.swing.JLabel NTWX_Label

NTWX_TextField

javax.swing.JTextField NTWX_TextField

NTWV_Label

javax.swing.JLabel NTWV_Label

NTWV_TextField

javax.swing.JTextField NTWV_TextField

NTWE_Label

javax.swing.JLabel NTWE_Label

NTWE_TextField

javax.swing.JTextField NTWE_TextField

IOUTFM_Label

javax.swing.JLabel IOUTFM_Label

IOUTFM_ComboBox

javax.swing.JComboBox IOUTFM_ComboBox

NTWPRT_Label

javax.swing.JLabel NTWPRT_Label

NTWPRT_TextField

javax.swing.JTextField NTWPRT_TextField

IDECOMP_Label

javax.swing.JLabel IDECOMP_Label

IDECOMP_ComboBox

javax.swing.JComboBox IDECOMP_ComboBox

IGB_ComboBox

javax.swing.JComboBox IGB_ComboBox

INTDIEL_Label

javax.swing.JLabel INTDIEL_Label

INTDIEL_TextField

javax.swing.JTextField INTDIEL_TextField

EXTDIEL_Label

javax.swing.JLabel EXTDIEL_Label

EXTDIEL_TextField

javax.swing.JTextField EXTDIEL_TextField

SALTCON_Label

javax.swing.JLabel SALTCON_Label

SALTCON_TextField

javax.swing.JTextField SALTCON_TextField

RGBMAX_Label

javax.swing.JLabel RGBMAX_Label

RGBMAX_TextField

javax.swing.JTextField RGBMAX_TextField

RBORNSTAT_Label

javax.swing.JLabel RBORNSTAT_Label

RBORNSTAT_ComboBox

javax.swing.JComboBox RBORNSTAT_ComboBox

OFFSET_Label

javax.swing.JLabel OFFSET_Label

OFFSET_TextField

javax.swing.JTextField OFFSET_TextField

GBSA_Label

javax.swing.JLabel GBSA_Label

GBSA_ComboBox

javax.swing.JComboBox GBSA_ComboBox

RDT_Label

javax.swing.JLabel RDT_Label

SURFTEN_Label

javax.swing.JLabel SURFTEN_Label

RDT_TextField

javax.swing.JTextField RDT_TextField

SURFTEN_TextField

javax.swing.JTextField SURFTEN_TextField

gridBagLayout7

java.awt.GridBagLayout gridBagLayout7

gridBagLayout8

java.awt.GridBagLayout gridBagLayout8

GB_Dummy_Label

javax.swing.JLabel GB_Dummy_Label

DIELC_Label

javax.swing.JLabel DIELC_Label

CUT_Label

javax.swing.JLabel CUT_Label

SCNB_Label

javax.swing.JLabel SCNB_Label

Edit_MenuItem

javax.swing.JMenuItem Edit_MenuItem

flowLayout3

java.awt.FlowLayout flowLayout3

NTR_Label

javax.swing.JLabel NTR_Label

NTR_ComboBox

javax.swing.JComboBox NTR_ComboBox

IBELLY_Label

javax.swing.JLabel IBELLY_Label

IBELLY_ComboBox

javax.swing.JComboBox IBELLY_ComboBox

BELLYMASK_Label

javax.swing.JLabel BELLYMASK_Label

RESTRAINTMASK_Label

javax.swing.JLabel RESTRAINTMASK_Label

RESTRAINT_WT_Label

javax.swing.JLabel RESTRAINT_WT_Label

BELLYMASK_TextField

javax.swing.JTextField BELLYMASK_TextField

RESTRAINTMASK_TextField

javax.swing.JTextField RESTRAINTMASK_TextField

RESTRAINT_WT_TextField

javax.swing.JTextField RESTRAINT_WT_TextField

FCAP_Label

javax.swing.JLabel FCAP_Label

IVCAP_Label

javax.swing.JLabel IVCAP_Label

IVCAP_ComboBox

javax.swing.JComboBox IVCAP_ComboBox

FCAP_TextField

javax.swing.JTextField FCAP_TextField

shakePanel

javax.swing.JPanel shakePanel

HWTNM2_Label

javax.swing.JLabel HWTNM2_Label

HWTNM1_Label

javax.swing.JLabel HWTNM1_Label

OWTNM_Label

javax.swing.JLabel OWTNM_Label

WATNAM_Label

javax.swing.JLabel WATNAM_Label

TOL_Label

javax.swing.JLabel TOL_Label

JFASTW_Label

javax.swing.JLabel JFASTW_Label

NTC_Label

javax.swing.JLabel NTC_Label

JFASTW_ComboBox

javax.swing.JComboBox JFASTW_ComboBox

NTC_ComboBox

javax.swing.JComboBox NTC_ComboBox

HWTNM2_TextField

javax.swing.JTextField HWTNM2_TextField

HWTNM1_TextField

javax.swing.JTextField HWTNM1_TextField

WATNAM_TextField

javax.swing.JTextField WATNAM_TextField

OWTNM_TextField

javax.swing.JTextField OWTNM_TextField

TOL_TextField

javax.swing.JTextField TOL_TextField

gridBagLayout6

java.awt.GridBagLayout gridBagLayout6

gridBagLayout9

java.awt.GridBagLayout gridBagLayout9

jLabel6

javax.swing.JLabel jLabel6

gridBagLayout10

java.awt.GridBagLayout gridBagLayout10

Dummy_MD_Label

javax.swing.JLabel Dummy_MD_Label

saveFile_Button

javax.swing.JButton saveFile_Button

jMenuItem1

javax.swing.JMenuItem jMenuItem1

jMenuItem2

javax.swing.JMenuItem jMenuItem2

Class cct.amber.Sander9Frame_AboutBox extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

panel2

javax.swing.JPanel panel2

insetsPanel1

javax.swing.JPanel insetsPanel1

insetsPanel2

javax.swing.JPanel insetsPanel2

insetsPanel3

javax.swing.JPanel insetsPanel3

button1

javax.swing.JButton button1

imageLabel

javax.swing.JLabel imageLabel

label1

javax.swing.JLabel label1

label2

javax.swing.JLabel label2

label3

javax.swing.JLabel label3

label4

javax.swing.JLabel label4

image1

javax.swing.ImageIcon image1

borderLayout1

java.awt.BorderLayout borderLayout1

borderLayout2

java.awt.BorderLayout borderLayout2

flowLayout1

java.awt.FlowLayout flowLayout1

gridLayout1

java.awt.GridLayout gridLayout1

product

java.lang.String product

version

java.lang.String version

copyright

java.lang.String copyright

comments

java.lang.String comments

Class cct.amber.Sander9JobPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

directoriesPanel

javax.swing.JPanel directoriesPanel

outputPanel

javax.swing.JPanel outputPanel

inputPanel

javax.swing.JPanel inputPanel

remoteDirLabel

javax.swing.JLabel remoteDirLabel

remoteDirTextField

javax.swing.JTextField remoteDirTextField

scriptButton

javax.swing.JButton scriptButton

localDirLabel

javax.swing.JLabel localDirLabel

jobNameLabel

javax.swing.JLabel jobNameLabel

jobNameTextField

javax.swing.JTextField jobNameTextField

localDirTextField

javax.swing.JTextField localDirTextField

scriptLabel

javax.swing.JLabel scriptLabel

scriptTextField

javax.swing.JTextField scriptTextField

jButton2

javax.swing.JButton jButton2

localDirButton

javax.swing.JButton localDirButton

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

prmtopLabel

javax.swing.JLabel prmtopLabel

mdinTextField

javax.swing.JTextField mdinTextField

mdinCheckBox

javax.swing.JCheckBox mdinCheckBox

mdinButton

javax.swing.JButton mdinButton

mdinLabel

javax.swing.JLabel mdinLabel

evbinLabel

javax.swing.JLabel evbinLabel

cpinLabel

javax.swing.JLabel cpinLabel

inpdipLabel

javax.swing.JLabel inpdipLabel

inptrajLabel

javax.swing.JLabel inptrajLabel

refcLabel

javax.swing.JLabel refcLabel

inpcrdLabel

javax.swing.JLabel inpcrdLabel

evbinTextField

javax.swing.JTextField evbinTextField

cpinTextField

javax.swing.JTextField cpinTextField

inpdipTextField

javax.swing.JTextField inpdipTextField

inptrajTextField

javax.swing.JTextField inptrajTextField

refcTextField

javax.swing.JTextField refcTextField

inpcrdTextField

javax.swing.JTextField inpcrdTextField

prmtopTextField

javax.swing.JTextField prmtopTextField

evbinCheckBox

javax.swing.JCheckBox evbinCheckBox

cpinCheckBox

javax.swing.JCheckBox cpinCheckBox

inpdipCheckBox

javax.swing.JCheckBox inpdipCheckBox

inptrajCheckBox

javax.swing.JCheckBox inptrajCheckBox

refcCheckBox

javax.swing.JCheckBox refcCheckBox

inpcrdCheckBox

javax.swing.JCheckBox inpcrdCheckBox

prmtopCheckBox

javax.swing.JCheckBox prmtopCheckBox

evbinButton

javax.swing.JButton evbinButton

cpinButton

javax.swing.JButton cpinButton

inpdipButton

javax.swing.JButton inpdipButton

inptrajButton

javax.swing.JButton inptrajButton

refcButton

javax.swing.JButton refcButton

inpcrdButton

javax.swing.JButton inpcrdButton

prmtopButton

javax.swing.JButton prmtopButton

gridBagLayout2

java.awt.GridBagLayout gridBagLayout2

jLabel1

javax.swing.JLabel jLabel1

jTextField1

javax.swing.JTextField jTextField1

jCheckBox1

javax.swing.JCheckBox jCheckBox1

jLabel2

javax.swing.JLabel jLabel2

jLabel3

javax.swing.JLabel jLabel3

jLabel4

javax.swing.JLabel jLabel4

mdvelLabel

javax.swing.JLabel mdvelLabel

mdoutLabel

javax.swing.JLabel mdoutLabel

mdcrdLabel

javax.swing.JLabel mdcrdLabel

mdinfoLabel

javax.swing.JLabel mdinfoLabel

jTextField2

javax.swing.JTextField jTextField2

jTextField3

javax.swing.JTextField jTextField3

mdcrdTextField

javax.swing.JTextField mdcrdTextField

jTextField5

javax.swing.JTextField jTextField5

mdvelTextField

javax.swing.JTextField mdvelTextField

mdinfoTextField

javax.swing.JTextField mdinfoTextField

mdoutTextField

javax.swing.JTextField mdoutTextField

jCheckBox2

javax.swing.JCheckBox jCheckBox2

jCheckBox3

javax.swing.JCheckBox jCheckBox3

jCheckBox4

javax.swing.JCheckBox jCheckBox4

mdvelCheckBox

javax.swing.JCheckBox mdvelCheckBox

mdcrdCheckBox

javax.swing.JCheckBox mdcrdCheckBox

mdinfoCheckBox

javax.swing.JCheckBox mdinfoCheckBox

mdoutCheckBox

javax.swing.JCheckBox mdoutCheckBox

jPanel1

javax.swing.JPanel jPanel1

borderLayout2

java.awt.BorderLayout borderLayout2

gridBagLayout3

java.awt.GridBagLayout gridBagLayout3

jTabbedPane1

javax.swing.JTabbedPane jTabbedPane1

Class cct.amber.SanderJobControlDialog extends java.awt.Dialog implements Serializable

Serialized Fields

natoms

java.awt.TextField natoms

nsteps

java.awt.TextField nsteps

cutoff

java.awt.TextField cutoff

memory_req

java.awt.TextField memory_req

time_req

java.awt.TextField time_req

daddy

AmberSubmitDialog daddy

Class cct.amber.TextEditorFrame extends javax.swing.JFrame implements Serializable

Serialized Fields

contentPane

javax.swing.JPanel contentPane

jMenuBar1

javax.swing.JMenuBar jMenuBar1

jEditorPane1

javax.swing.JEditorPane jEditorPane1

jMenu1

javax.swing.JMenu jMenu1

jMenuItem1

javax.swing.JMenuItem jMenuItem1

jMenuItem2

javax.swing.JMenuItem jMenuItem2

fileName

java.lang.String fileName

workingDirectory

java.lang.String workingDirectory

borderLayout1

java.awt.BorderLayout borderLayout1

editedText

java.lang.String editedText

Parent

SanderInputParserInterface Parent

jScrollPane1

javax.swing.JScrollPane jScrollPane1

Package cct.applets

Class cct.applets.viewer extends java.applet.Applet implements Serializable

Serialized Fields

isStandalone

boolean isStandalone

borderLayout1

java.awt.BorderLayout borderLayout1

msg

java.lang.String msg

mouseX

int mouseX

mouseY

int mouseY

movX

int movX

movY

int movY

tempInt

int tempInt

canvas3D

javax.media.j3d.Canvas3D canvas3D

canvas

Java3dUniverse canvas

Numbers

java.awt.Button Numbers

Package cct.awtdialogs

Class cct.awtdialogs.AddNewMethodDialog extends java.awt.Dialog implements Serializable

Serialized Fields

final_name

java.awt.TextField final_name

name

java.awt.TextField name

custom_basis

java.awt.TextField custom_basis

Notes

java.awt.TextArea Notes

method

java.awt.Choice method

basisSets

java.awt.Choice basisSets

Exp

java.awt.Checkbox Exp

fixedBasis

java.awt.Checkbox fixedBasis

EffectiveCorepot

java.awt.Checkbox EffectiveCorepot

isDFT

java.awt.Checkbox isDFT

database

new_SQLChemistryDatabase database

OK_pressed

boolean OK_pressed

addedSuccessfully

boolean addedSuccessfully

Class cct.awtdialogs.AddNewMoleculeDialog extends java.awt.Dialog implements Serializable

Serialized Fields

aliases

java.awt.TextArea aliases

notes

java.awt.TextArea notes

keywords

java.awt.TextArea keywords

isModel

java.awt.Checkbox isModel

Charge

java.awt.Choice Charge

Mult

java.awt.Choice Mult

name

java.awt.Label name

OK_pressed

boolean OK_pressed

Class cct.awtdialogs.AddNewStructureDialog extends java.awt.Dialog implements Serializable

Serialized Fields

name

java.awt.TextField name

notes

java.awt.TextArea notes

method

java.awt.Choice method

database

new_SQLChemistryDatabase database

addMethod

AddNewMethodDialog addMethod

OK_pressed

boolean OK_pressed

Class cct.awtdialogs.AtomLabelsDialog extends java.awt.Dialog implements Serializable

Serialized Fields

Properties

java.awt.List Properties

OK

java.awt.Button OK

Cancel

java.awt.Button Cancel

OKpressed

boolean OKpressed

Class cct.awtdialogs.AtomTypeDialog extends java.awt.Dialog implements Serializable

Serialized Fields

atomName

java.awt.TextField atomName

bLength

java.awt.TextField bLength

elements

java.awt.Choice elements

hybrid

java.awt.Choice hybrid

bondLength

java.awt.Choice bondLength

drawBond

java.awt.Checkbox drawBond

useBondLength

java.awt.Checkbox useBondLength

OK

java.awt.Button OK

Cancel

java.awt.Button Cancel

OKpressed

boolean OKpressed

Class cct.awtdialogs.ConnectSQLServer extends java.awt.Dialog implements Serializable

Serialized Fields

host

java.awt.TextField host

user

java.awt.TextField user

pass

java.awt.TextField pass

port

java.awt.TextField port

database

java.awt.TextField database

db_type

java.awt.TextField db_type

OKpressed

boolean OKpressed

Class cct.awtdialogs.GaussianCalcSetupDialog extends java.awt.Dialog implements Serializable

Serialized Fields

JobType

java.awt.Choice JobType

Method

java.awt.Choice Method

Charge

java.awt.Choice Charge

Spin

java.awt.Choice Spin

BasisSet

java.awt.Choice BasisSet

drawBond

java.awt.Checkbox drawBond

OK

boolean OK

Class cct.awtdialogs.GeometrySelectDialog extends java.awt.Dialog implements Serializable

Serialized Fields

list

java.awt.List list

daddy

Java3dUniverse daddy

Class cct.awtdialogs.MessageWindow extends java.awt.Dialog implements Serializable

Serialized Fields

OK

java.awt.Button OK

Class cct.awtdialogs.SelectMethodDialog extends java.awt.Dialog implements Serializable

Serialized Fields

Methods

java.awt.List Methods

basisSets

java.awt.List basisSets

SelectedMethod

int SelectedMethod

OK_pressed

boolean OK_pressed

Class cct.awtdialogs.SimpleAtomSelectionDialog extends java.awt.Dialog implements Serializable

Serialized Fields

daddy

Java3dUniverse daddy

message

java.awt.Label message

OK

java.awt.Button OK

Cancel

java.awt.Button Cancel

OKpressed

boolean OKpressed

Class cct.awtdialogs.SingleChoiceDialog extends java.awt.Dialog implements Serializable

Serialized Fields

OKpressed

boolean OKpressed

choice

java.awt.Choice choice

OK

java.awt.Button OK

Cancel

java.awt.Button Cancel

Class cct.awtdialogs.TextEntryDialog extends java.awt.Dialog implements Serializable

Serialized Fields

name

java.awt.TextField name

nameEntered

boolean nameEntered

Class cct.awtdialogs.YesNoDialog extends java.awt.Dialog implements Serializable

Serialized Fields

name

java.awt.TextField name

pressedYes

boolean pressedYes

Package cct.chart

Class cct.chart.ChartFrame extends javax.swing.JFrame implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

buttonPanel

javax.swing.JPanel buttonPanel

ok

javax.swing.JButton ok

cancel

javax.swing.JButton cancel

jFreeChartPanel1

JFreeChartPanel jFreeChartPanel1

java3dUniverse

Java3dUniverse java3dUniverse

structureManagerInterface

StructureManagerInterface structureManagerInterface

Package cct.chart.jfreechart

Class cct.chart.jfreechart.JFreeChartPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

colors

java.awt.Color[] colors

minStep

int minStep

maxStep

int maxStep

stepStep

int stepStep

Step

int Step

borderLayout1

java.awt.BorderLayout borderLayout1

chartTitle

java.lang.String chartTitle

xAxisTitle

java.lang.String xAxisTitle

yAxisTitle

java.lang.String yAxisTitle

chartPanel

org.jfree.chart.ChartPanel chartPanel

xySeriesCollection

org.jfree.data.xy.XYSeriesCollection xySeriesCollection

dataSets

java.util.ArrayList<E> dataSets

yMin

double yMin

yMax

double yMax

span

double span

xMin

double xMin

xMax

double xMax

tablePanel

javax.swing.JPanel tablePanel

jScrollPane1

javax.swing.JScrollPane jScrollPane1

chartTableModel

JFreeChartPanel.ChartTableModel chartTableModel

borderLayout2

java.awt.BorderLayout borderLayout2

indexFind

java.util.ArrayList<E> indexFind

mainChartPanel

javax.swing.JPanel mainChartPanel

borderLayout3

java.awt.BorderLayout borderLayout3

animationChartPanel

javax.swing.JPanel animationChartPanel

chartSlider

javax.swing.JSlider chartSlider

borderLayout4

java.awt.BorderLayout borderLayout4

chart

org.jfree.chart.JFreeChart chart

animationControlPanel

javax.swing.JPanel animationControlPanel

jPanel1

javax.swing.JPanel jPanel1

stepBackButton

javax.swing.JButton stepBackButton

playBackButton

javax.swing.JButton playBackButton

pauseButton

javax.swing.JButton pauseButton

playButton

javax.swing.JButton playButton

stepForwardButton

javax.swing.JButton stepForwardButton

borderLayout5

java.awt.BorderLayout borderLayout5

mediaBeginningImage

javax.swing.ImageIcon mediaBeginningImage

mediaEndImage

javax.swing.ImageIcon mediaEndImage

mediaPauseImage

javax.swing.ImageIcon mediaPauseImage

mediaPlayImage

javax.swing.ImageIcon mediaPlayImage

mediaPlayBackImage

javax.swing.ImageIcon mediaPlayBackImage

mediaStepBackImage

javax.swing.ImageIcon mediaStepBackImage

mediaStepForwardImage

javax.swing.ImageIcon mediaStepForwardImage

goToEndButton

javax.swing.JButton goToEndButton

goToBeginningButton

javax.swing.JButton goToBeginningButton

delay

int delay

framesPerSeconds

int framesPerSeconds

stepModel

javax.swing.SpinnerModel stepModel

fpsModel

javax.swing.SpinnerModel fpsModel

currentIndex

int currentIndex

selectedStructure

int selectedStructure

animationInProgress

boolean animationInProgress

animDirection

int animDirection

timer

javax.swing.Timer timer

animationMode

int animationMode

structureManagerInterface

StructureManagerInterface structureManagerInterface

jPanel2

javax.swing.JPanel jPanel2

jLabel1

javax.swing.JLabel jLabel1

stepSpinner

javax.swing.JSpinner stepSpinner

jLabel2

javax.swing.JLabel jLabel2

fpsSpinner

javax.swing.JSpinner fpsSpinner

animationComboBox

javax.swing.JComboBox animationComboBox

Package cct.database

Class cct.database.ChemistryDatabaseDialog extends java.awt.Dialog implements Serializable

Serialized Fields

Molecules

java.awt.List Molecules

Structures

java.awt.List Structures

parent

Java3dUniverse parent

name

java.awt.TextField name

formula

java.awt.TextField formula

aliases

java.awt.TextField aliases

sql_data

SQLChemistryDatabase sql_data

SelectedMolecule

int SelectedMolecule

allMolecules

java.util.ArrayList<E> allMolecules

allStructures

java.util.ArrayList<E> allStructures

oldName

java.lang.String oldName

error

boolean error

Class cct.database.new_ChemistryDatabaseDialog extends java.awt.Dialog implements Serializable

Serialized Fields

Molecules

java.awt.List Molecules

Structures

java.awt.List Structures

Methods

java.awt.List Methods

BasisSets

java.awt.List BasisSets

target

Java3dUniverse target

name

java.awt.TextField name

formula

java.awt.TextField formula

aliases

java.awt.TextField aliases

sql_data

new_SQLChemistryDatabase sql_data

SelectedMolecule

int SelectedMolecule

allMolecules

java.util.ArrayList<E> allMolecules

allStructures

java.util.ArrayList<E> allStructures

structuresIndex

java.util.ArrayList<E> structuresIndex

allMethods

java.util.ArrayList<E> allMethods

allBasisSets

java.util.ArrayList<E> allBasisSets

oldName

java.lang.String oldName

error

boolean error

Package cct.dialogs

Class cct.dialogs.AddMoleculeDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

jPanel1

javax.swing.JPanel jPanel1

jPanel2

javax.swing.JPanel jPanel2

cancelButton

javax.swing.JButton cancelButton

jButton2

javax.swing.JButton jButton2

overwriteRadioButton

javax.swing.JRadioButton overwriteRadioButton

borderLayout2

java.awt.BorderLayout borderLayout2

newWinRadioButton

javax.swing.JRadioButton newWinRadioButton

mergeRadioButton

javax.swing.JRadioButton mergeRadioButton

buttonGroup1

javax.swing.ButtonGroup buttonGroup1

cond

int cond

Class cct.dialogs.AnimationPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

minStep

int minStep

maxStep

int maxStep

stepStep

int stepStep

Step

int Step

animDirection

int animDirection

framesPerSeconds

int framesPerSeconds

delay

int delay

animationMode

int animationMode

timer

javax.swing.Timer timer

animationInProgress

boolean animationInProgress

structureManagerInterface

StructureManagerInterface structureManagerInterface

stepModel

javax.swing.SpinnerModel stepModel

fpsModel

javax.swing.SpinnerModel fpsModel

borderLayout1

java.awt.BorderLayout borderLayout1

jPanel1

javax.swing.JPanel jPanel1

startMediaButton

javax.swing.JButton startMediaButton

stepSpinner

javax.swing.JSpinner stepSpinner

sliderPanel

javax.swing.JPanel sliderPanel

maxLabel

javax.swing.JLabel maxLabel

currentFrameTextField

javax.swing.JTextField currentFrameTextField

mediaBeginningImage

javax.swing.ImageIcon mediaBeginningImage

mediaEndImage

javax.swing.ImageIcon mediaEndImage

mediaPauseImage

javax.swing.ImageIcon mediaPauseImage

mediaPlayImage

javax.swing.ImageIcon mediaPlayImage

mediaPlayBackImage

javax.swing.ImageIcon mediaPlayBackImage

mediaStepBackImage

javax.swing.ImageIcon mediaStepBackImage

mediaStepForwardImage

javax.swing.ImageIcon mediaStepForwardImage

mediaEndButton

javax.swing.JButton mediaEndButton

trajSlider

javax.swing.JSlider trajSlider

pauseButton

javax.swing.JButton pauseButton

playBackButton

javax.swing.JButton playBackButton

playButton

javax.swing.JButton playButton

minLabel

javax.swing.JLabel minLabel

jLabel3

javax.swing.JLabel jLabel3

stepBackButton

javax.swing.JButton stepBackButton

stepForwardButton

javax.swing.JButton stepForwardButton

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

jPanel2

javax.swing.JPanel jPanel2

gridBagLayout2

java.awt.GridBagLayout gridBagLayout2

jLabel4

javax.swing.JLabel jLabel4

fpsSpinner

javax.swing.JSpinner fpsSpinner

jPanel3

javax.swing.JPanel jPanel3

jPanel4

javax.swing.JPanel jPanel4

borderLayout2

java.awt.BorderLayout borderLayout2

animationComboBox

javax.swing.JComboBox animationComboBox

Class cct.dialogs.Frame1 extends javax.swing.JFrame implements Serializable

Serialized Fields

contentPane

javax.swing.JPanel contentPane

borderLayout1

java.awt.BorderLayout borderLayout1

jMenuBar1

javax.swing.JMenuBar jMenuBar1

jMenuFile

javax.swing.JMenu jMenuFile

jMenuFileExit

javax.swing.JMenuItem jMenuFileExit

jMenuHelp

javax.swing.JMenu jMenuHelp

jMenuHelpAbout

javax.swing.JMenuItem jMenuHelpAbout

jToolBar

javax.swing.JToolBar jToolBar

jButton1

javax.swing.JButton jButton1

jButton2

javax.swing.JButton jButton2

helpButton

javax.swing.JButton helpButton

image2

javax.swing.ImageIcon image2

image3

javax.swing.ImageIcon image3

addAtomImage

javax.swing.ImageIcon addAtomImage

cutImage

javax.swing.ImageIcon cutImage

hummerImage

javax.swing.ImageIcon hummerImage

statusBar

javax.swing.JLabel statusBar

mainToolBar

javax.swing.JToolBar mainToolBar

editToolBar

javax.swing.JToolBar editToolBar

jButton4

javax.swing.JButton jButton4

jButton5

javax.swing.JButton jButton5

jButton6

javax.swing.JButton jButton6

openAs

javax.swing.JMenu openAs

canvas3D

javax.media.j3d.Canvas3D canvas3D

java3dUniverse

Java3dUniverse java3dUniverse

editMenu

javax.swing.JMenu editMenu

viewMenu

javax.swing.JMenu viewMenu

databaseMenu

javax.swing.JMenu databaseMenu

saveAsMenu

javax.swing.JMenu saveAsMenu

gjfMenuItem

javax.swing.JMenuItem gjfMenuItem

helpPanel1

HelpPanel helpPanel1

gaussOutMenuItem

javax.swing.JMenuItem gaussOutMenuItem

openPDBMenuItem

javax.swing.JMenuItem openPDBMenuItem

openMol2MenuItem

javax.swing.JMenuItem openMol2MenuItem

saveGJFMenuItem

javax.swing.JMenuItem saveGJFMenuItem

savePDBMenuItem

javax.swing.JMenuItem savePDBMenuItem

saveMol2MenuItem

javax.swing.JMenuItem saveMol2MenuItem

Class cct.dialogs.Frame1_AboutBox extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

panel2

javax.swing.JPanel panel2

insetsPanel1

javax.swing.JPanel insetsPanel1

insetsPanel2

javax.swing.JPanel insetsPanel2

insetsPanel3

javax.swing.JPanel insetsPanel3

button1

javax.swing.JButton button1

imageLabel

javax.swing.JLabel imageLabel

label1

javax.swing.JLabel label1

label2

javax.swing.JLabel label2

label3

javax.swing.JLabel label3

label4

javax.swing.JLabel label4

image1

javax.swing.ImageIcon image1

borderLayout1

java.awt.BorderLayout borderLayout1

borderLayout2

java.awt.BorderLayout borderLayout2

flowLayout1

java.awt.FlowLayout flowLayout1

gridLayout1

java.awt.GridLayout gridLayout1

product

java.lang.String product

version

java.lang.String version

copyright

java.lang.String copyright

comments

java.lang.String comments

Class cct.dialogs.J3DTabbedWorld extends javax.swing.JTabbedPane implements Serializable

Serialized Fields

mode

int mode

windows

java.util.HashMap<K,V> windows

addMoleculeDialog

AddMoleculeDialog addMoleculeDialog

java3dUniverse

Java3dUniverse java3dUniverse

Class cct.dialogs.JAddFragmentDialog extends javax.swing.JFrame implements Serializable

Serialized Fields

java3d

Java3dUniverse java3d

parent

Java3dUniverse parent

jScrollPane1

javax.swing.JScrollPane jScrollPane1

jPanel1

javax.swing.JPanel jPanel1

borderLayout1

java.awt.BorderLayout borderLayout1

finishButton

javax.swing.JButton finishButton

addFragButton

javax.swing.JButton addFragButton

helpButton

javax.swing.JButton helpButton

fragmentsTree

javax.swing.JTree fragmentsTree

referenceTable

java.util.HashMap<K,V> referenceTable

jPanel2

javax.swing.JPanel jPanel2

jPanel3

javax.swing.JPanel jPanel3

elementsButton

javax.swing.JButton elementsButton

basicButton

javax.swing.JButton basicButton

ringButton

javax.swing.JButton ringButton

borderLayout2

java.awt.BorderLayout borderLayout2

Class cct.dialogs.JAddMoleculeDialog extends javax.swing.JFrame implements Serializable

Serialized Fields

controlsPanel

javax.swing.JPanel controlsPanel

helpButton

javax.swing.JButton helpButton

cancelButton

javax.swing.JButton cancelButton

okButton

javax.swing.JButton okButton

java3d

Java3dUniverse java3d

parent

Java3dUniverse parent

borderLayout1

java.awt.BorderLayout borderLayout1

jPanel1

javax.swing.JPanel jPanel1

jPanel2

javax.swing.JPanel jPanel2

jPanel3

javax.swing.JPanel jPanel3

jLabel1

javax.swing.JLabel jLabel1

jCheckBox1

javax.swing.JCheckBox jCheckBox1

jTextField1

javax.swing.JTextField jTextField1

jComboBox1

javax.swing.JComboBox jComboBox1

flowLayout1

java.awt.FlowLayout flowLayout1

flowLayout2

java.awt.FlowLayout flowLayout2

jLabel2

javax.swing.JLabel jLabel2

Class cct.dialogs.JAtomSelectionDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

Invert

javax.swing.JButton Invert

Clear

javax.swing.JButton Clear

All

javax.swing.JButton All

Undo

javax.swing.JButton Undo

quickSelPanel

javax.swing.JPanel quickSelPanel

atomTypes

javax.swing.JButton atomTypes

monomer

javax.swing.JButton monomer

Sphere

javax.swing.JButton Sphere

Substructure

javax.swing.JButton Substructure

Sets

javax.swing.JButton Sets

specialPanel

javax.swing.JPanel specialPanel

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

typeMonomer

javax.swing.JRadioButton typeMonomer

typeMolecule

javax.swing.JRadioButton typeMolecule

typeAtom

javax.swing.JRadioButton typeAtom

selTypePanel

javax.swing.JPanel selTypePanel

buttonGroup1

javax.swing.ButtonGroup buttonGroup1

gridLayout1

java.awt.GridLayout gridLayout1

Union

javax.swing.JRadioButton Union

Difference

javax.swing.JRadioButton Difference

Intersection

javax.swing.JRadioButton Intersection

selRulePanel

javax.swing.JPanel selRulePanel

gridLayout2

java.awt.GridLayout gridLayout2

buttonGroup2

javax.swing.ButtonGroup buttonGroup2

P1

javax.swing.JPanel P1

gridLayout3

java.awt.GridLayout gridLayout3

P2

javax.swing.JPanel P2

borderLayout2

java.awt.BorderLayout borderLayout2

P3

javax.swing.JPanel P3

borderLayout3

java.awt.BorderLayout borderLayout3

jCheckBox1

javax.swing.JCheckBox jCheckBox1

jLabel1

javax.swing.JLabel jLabel1

jTextField1

javax.swing.JTextField jTextField1

infoPanel

javax.swing.JPanel infoPanel

buttonPanel

javax.swing.JPanel buttonPanel

Cancel

javax.swing.JButton Cancel

OK

javax.swing.JButton OK

Help

javax.swing.JButton Help

daddy

MolecularEditor daddy

parentFrame

java.awt.Frame parentFrame

jSelectAtomTypesDialog

JSelectAtomTypesDialog jSelectAtomTypesDialog

jSelectMonomersDialog

JSelectMonomersDialog jSelectMonomersDialog

jSelectSubstructureDialog

JSelectSubstructureDialog jSelectSubstructureDialog

Class cct.dialogs.JAtomSelectionPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

jSelectionRulePanel1

JSelectionRulePanel jSelectionRulePanel1

jQuickSelectionPanel1

JQuickSelectionPanel jQuickSelectionPanel1

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

jSpecialSelectionPanel1

JSpecialSelectionPanel jSpecialSelectionPanel1

jSelectionTypePanel1

JSelectionTypePanel jSelectionTypePanel1

Controls

java.util.HashMap<K,V> Controls

Class cct.dialogs.JAtomTypeDialog extends javax.swing.JFrame implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

lastSelected

int[] lastSelected

elementMapping

java.util.LinkedHashMap<K,V> elementMapping

elementButtons

java.util.LinkedHashMap<K,V> elementButtons

daddy

Java3dUniverse daddy

OKpressed

boolean OKpressed

OK

javax.swing.JButton OK

Cancel

javax.swing.JButton Cancel

Help

javax.swing.JButton Help

selectedElement

int selectedElement

currentElement

java.lang.String currentElement

selectedElem

javax.swing.JLabel selectedElem

atomName

javax.swing.JTextField atomName

drawBond

javax.swing.JCheckBox drawBond

userDefBondLength

javax.swing.JCheckBox userDefBondLength

covalentBondLength

javax.swing.JCheckBox covalentBondLength

predefBondLength

javax.swing.JCheckBox predefBondLength

bondLength

javax.swing.JComboBox bondLength

elButt

java.util.ArrayList<E> elButt

oldColor

java.awt.Color oldColor

pressedColor

java.awt.Color pressedColor

javax.swing.JButton Previous

atomTypesPanel

javax.swing.JPanel atomTypesPanel

type_1_Button

javax.swing.JButton type_1_Button

type_2_Button

javax.swing.JButton type_2_Button

type_3_Button

javax.swing.JButton type_3_Button

type_4_Button

javax.swing.JButton type_4_Button

type_5_Button

javax.swing.JButton type_5_Button

type_6_Button

javax.swing.JButton type_6_Button

type_7_Button

javax.swing.JButton type_7_Button

flowLayout1

java.awt.FlowLayout flowLayout1

jMenuBar1

javax.swing.JMenuBar jMenuBar1

fontMenu

javax.swing.JMenu fontMenu

increaseFont

javax.swing.JMenuItem increaseFont

decreaseFont

javax.swing.JMenuItem decreaseFont

presentationMenu

javax.swing.JMenu presentationMenu

asTable

javax.swing.JMenuItem asTable

asCombobox

javax.swing.JMenuItem asCombobox

ePanel

JElementsPanel ePanel

atomTypesButtons

java.util.ArrayList<E> atomTypesButtons

defaultAtomTypeColor

java.awt.Color defaultAtomTypeColor

selectedAtomTypeColor

java.awt.Color selectedAtomTypeColor

buttonGroup1

javax.swing.ButtonGroup buttonGroup1

Class cct.dialogs.JAtomTypesPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

buttons

java.util.ArrayList<E> buttons

activeButtons

int activeButtons

listener

java.awt.event.ActionListener listener

flowLayout1

java.awt.FlowLayout flowLayout1

Class cct.dialogs.JChoiceDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

OKpressed

boolean OKpressed

itemList

javax.swing.JComboBox itemList

panel1

javax.swing.JPanel panel1

panel2

javax.swing.JPanel panel2

panel3

javax.swing.JPanel panel3

mainPanel

javax.swing.JPanel mainPanel

OK

javax.swing.JButton OK

Cancel

javax.swing.JButton Cancel

borderLayout1

java.awt.BorderLayout borderLayout1

flowLayout1

java.awt.FlowLayout flowLayout1

flowLayout2

java.awt.FlowLayout flowLayout2

flowLayout3

java.awt.FlowLayout flowLayout3

gridLayout1

java.awt.GridLayout gridLayout1

Class cct.dialogs.JEditorFrame extends javax.swing.JFrame implements Serializable

Serialized Fields

useTabbedPane

boolean useTabbedPane

addMoleculeDialog

AddMoleculeDialog addMoleculeDialog

j3dTabbedWorld

J3DTabbedWorld j3dTabbedWorld

contentPane

javax.swing.JPanel contentPane

borderLayout1

java.awt.BorderLayout borderLayout1

jMenuBar1

javax.swing.JMenuBar jMenuBar1

jMenuFile

javax.swing.JMenu jMenuFile

jMenuGrid

javax.swing.JMenu jMenuGrid

loadObjectMenu

javax.swing.JMenu loadObjectMenu

jSubmenuFileOpen

javax.swing.JMenu jSubmenuFileOpen

jSubmenuFileSave

javax.swing.JMenu jSubmenuFileSave

jSubmenuImageSave

javax.swing.JMenu jSubmenuImageSave

jSubmenuRenderStyle

javax.swing.JMenu jSubmenuRenderStyle

jSubmenuScriptSubmit

javax.swing.JMenu jSubmenuScriptSubmit

jSubmenuMoleculeSubmit

javax.swing.JMenu jSubmenuMoleculeSubmit

gaussianMenu

javax.swing.JMenu gaussianMenu

mopacMenu

javax.swing.JMenu mopacMenu

jMenuFileExit

javax.swing.JMenuItem jMenuFileExit

jMenuSFTBrowser

javax.swing.JMenuItem jMenuSFTBrowser

jMenuSetMolName

javax.swing.JMenuItem jMenuSetMolName

jMenuOpenMolecule

javax.swing.JMenuItem jMenuOpenMolecule

postSuggestionMenuItem

javax.swing.JMenuItem postSuggestionMenuItem

postBugMenuItem

javax.swing.JMenuItem postBugMenuItem

jMenuEdit

javax.swing.JMenu jMenuEdit

jMenuView

javax.swing.JMenu jMenuView

jMenuCalculate

javax.swing.JMenu jMenuCalculate

jMenuDatabase

javax.swing.JMenu jMenuDatabase

jMenuSetup

javax.swing.JMenu jMenuSetup

jMenuHelp

javax.swing.JMenu jMenuHelp

jSubmenuModify

javax.swing.JMenu jSubmenuModify

jSubmenuSolvate

javax.swing.JMenu jSubmenuSolvate

submenuLoadRemote

javax.swing.JMenu submenuLoadRemote

jSubmenuClipboard

javax.swing.JMenu jSubmenuClipboard

submenuLoadRemotecl

javax.swing.JMenu submenuLoadRemotecl

jSubmenuAdd

javax.swing.JMenu jSubmenuAdd

jMenuAnalyze

javax.swing.JMenu jMenuAnalyze

jMenuHelpAbout

javax.swing.JMenuItem jMenuHelpAbout

jMenuHelpLicense

javax.swing.JMenuItem jMenuHelpLicense

jExecuteScript

javax.swing.JMenuItem jExecuteScript

jSubmenuAtomColorScheme

javax.swing.JMenu jSubmenuAtomColorScheme

jSubmenuLookAndFeel

javax.swing.JMenu jSubmenuLookAndFeel

jMenuEraseMolecule

javax.swing.JMenuItem jMenuEraseMolecule

jMenuGuessAtomTypes

javax.swing.JMenuItem jMenuGuessAtomTypes

jMenuModifyBond

javax.swing.JMenuItem jMenuModifyBond

jMenuModifyAngle

javax.swing.JMenuItem jMenuModifyAngle

jMenuModifyTorsion

javax.swing.JMenuItem jMenuModifyTorsion

recalculateConnectivity

javax.swing.JMenuItem recalculateConnectivity

crystalEditor

javax.swing.JMenuItem crystalEditor

crystalEditorDialog

javax.swing.JFrame crystalEditorDialog

manageObjects

javax.swing.JMenuItem manageObjects

gopDialog

GraphicsObjectPropertiesFrame gopDialog

shadowSFTPManager

ShadowSFTPManager shadowSFTPManager

saveXYZDialog

SaveXYZDialog saveXYZDialog

jMenuCenterMolecule

javax.swing.JMenuItem jMenuCenterMolecule

jMenuDisplayAtoms

javax.swing.JMenuItem jMenuDisplayAtoms

jMenuUndisplayAtoms

javax.swing.JMenuItem jMenuUndisplayAtoms

jMenuLabelAtoms

javax.swing.JMenuItem jMenuLabelAtoms

jMenuUnlabelAtoms

javax.swing.JMenuItem jMenuUnlabelAtoms

jMenuAtomLabelsSize

javax.swing.JMenuItem jMenuAtomLabelsSize

jMenuAtomLabelsColor

javax.swing.JMenuItem jMenuAtomLabelsColor

errLog

javax.swing.JMenuItem errLog

jMenuCalcEnergy

javax.swing.JMenuItem jMenuCalcEnergy

jMenuMinEnergy2

javax.swing.JMenuItem jMenuMinEnergy2

jMenuMinEnergy

javax.swing.JMenuItem jMenuMinEnergy

fetchStructure

javax.swing.JMenuItem fetchStructure

jMenuDBLogin

javax.swing.JMenuItem jMenuDBLogin

jMenuDBLogout

javax.swing.JMenuItem jMenuDBLogout

submitGaussianJob

javax.swing.JMenuItem submitGaussianJob

systemInfo

javax.swing.JMenuItem systemInfo

jBackgroundColor

javax.swing.JMenuItem jBackgroundColor

projectionMode

javax.swing.JMenu projectionMode

loadGaussianCube

javax.swing.JMenuItem loadGaussianCube

manageGaussianCubes

javax.swing.JMenuItem manageGaussianCubes

gaussianCubes

java.util.ArrayList<E> gaussianCubes

manageCubesDialog

ManageCubesFrame manageCubesDialog

jMenuItemHelp

javax.swing.JMenuItem jMenuItemHelp

mainToolbar

javax.swing.JToolBar mainToolbar

jFileToolBar

javax.swing.JToolBar jFileToolBar

jEditToolBar

javax.swing.JToolBar jEditToolBar

jDBToolBar

javax.swing.JToolBar jDBToolBar

openFileButton

javax.swing.JButton openFileButton

deleteMoleculeButton

javax.swing.JButton deleteMoleculeButton

jButton3

javax.swing.JButton jButton3

trackingHelpButton

javax.swing.JButton trackingHelpButton

modifyBondsButton

javax.swing.JButton modifyBondsButton

modifyAnglesButton

javax.swing.JButton modifyAnglesButton

modifyDihedralsButton

javax.swing.JButton modifyDihedralsButton

vibrationalAnalysis

javax.swing.JMenuItem vibrationalAnalysis

trajectoryAnalysis

javax.swing.JMenuItem trajectoryAnalysis

trajectoryAnalysisDialog

TrajectoryAnalysisDialog trajectoryAnalysisDialog

saveSiestaInputDialog

SaveSiestaInputDialog saveSiestaInputDialog

editAndSaveCoordDialog

EditAndSaveCoordDialog editAndSaveCoordDialog

editAndPasteCoordFrame

EditAndPasteCoordFrame editAndPasteCoordFrame

cutImage

javax.swing.ImageIcon cutImage

openFileImage

javax.swing.ImageIcon openFileImage

saveFileImage

javax.swing.ImageIcon saveFileImage

imageIcon

javax.swing.ImageIcon imageIcon

docInto

javax.swing.ImageIcon docInto

docOut

javax.swing.ImageIcon docOut

errorImage

javax.swing.ImageIcon errorImage

javaFile

javax.swing.ImageIcon javaFile

documentInfo

javax.swing.ImageIcon documentInfo

tableImage

javax.swing.ImageIcon tableImage

image2

javax.swing.ImageIcon image2

image3

javax.swing.ImageIcon image3

exitImage

javax.swing.ImageIcon exitImage

docPulseImage

javax.swing.ImageIcon docPulseImage

adfImage

javax.swing.ImageIcon adfImage

siestaImage

javax.swing.ImageIcon siestaImage

documentGear

javax.swing.ImageIcon documentGear

documentWarningImage

javax.swing.ImageIcon documentWarningImage

submitImage

javax.swing.ImageIcon submitImage

serverToClientImage

javax.swing.ImageIcon serverToClientImage

povrayImage

javax.swing.ImageIcon povrayImage

dbImage

javax.swing.ImageIcon dbImage

gaussianImage

javax.swing.ImageIcon gaussianImage

gulpImage

javax.swing.ImageIcon gulpImage

mdlImage

javax.swing.ImageIcon mdlImage

gearImage

javax.swing.ImageIcon gearImage

componentImage

javax.swing.ImageIcon componentImage

mopacImage

javax.swing.ImageIcon mopacImage

qchemImage

javax.swing.ImageIcon qchemImage

gromacsImage

javax.swing.ImageIcon gromacsImage

vaspImage

javax.swing.ImageIcon vaspImage

moleculeImage

javax.swing.ImageIcon moleculeImage

addFragmentImage

javax.swing.ImageIcon addFragmentImage

submitToGrid_32x32

javax.swing.ImageIcon submitToGrid_32x32

modifyImage

javax.swing.ImageIcon modifyImage

atomImage

javax.swing.ImageIcon atomImage

bondImage

javax.swing.ImageIcon bondImage

angleImage

javax.swing.ImageIcon angleImage

dihedralImage

javax.swing.ImageIcon dihedralImage

wrenchImage

javax.swing.ImageIcon wrenchImage

notImplementedSign

javax.swing.ImageIcon notImplementedSign

jAddAtoms

javax.swing.JButton jAddAtoms

jAddFragments

javax.swing.JButton jAddFragments

jAddMoleculeButton

javax.swing.JButton jAddMoleculeButton

jAddMolecule

javax.swing.JMenuItem jAddMolecule

jAddFragment

javax.swing.JMenuItem jAddFragment

addAtomsImage

javax.swing.ImageIcon addAtomsImage

getHelpOn

javax.swing.ImageIcon getHelpOn

tetra

javax.swing.ImageIcon tetra

jDeleteAtoms

javax.swing.JButton jDeleteAtoms

jModifyAtoms

javax.swing.JButton jModifyAtoms

jDBLogin

javax.swing.JButton jDBLogin

statusBar

javax.swing.JLabel statusBar

vcFrame

VibrationsControlFrame vcFrame

ftpChoosers

java.util.HashMap<K,V> ftpChoosers

sftpChoosers

java.util.HashMap<K,V> sftpChoosers

remoteFileFormats

java.util.HashMap<K,V> remoteFileFormats

gaussianFileChooserDialog

FileChooserDialog gaussianFileChooserDialog

strerrLogPanel

LogPanel strerrLogPanel

storeStderr

java.io.PrintStream storeStderr

redirectStderr

boolean redirectStderr

sander8InputEditor

Sander8Frame sander8InputEditor

pdbFormFrame

PDBFormFrame pdbFormFrame

prmtopDialog

ReadPrmtopDialog prmtopDialog

vaspDialog

ReadPoscarDialog vaspDialog

mimimizeStructure

MinimizeStructure mimimizeStructure

backgroundMinimizer

BackgroundMinimizer backgroundMinimizer

postSuggestionDialog

PostMessageDialog postSuggestionDialog

postABugDialog

PostMessageDialog postABugDialog

sftpChooserDialog

SFTPFileChooserDialog sftpChooserDialog

prefs

java.util.prefs.Preferences prefs

currentWorkingDirectory

java.io.File currentWorkingDirectory

helper

HelperInterface helper

clobalChooser

javax.swing.JFileChooser clobalChooser

thisFrame

javax.swing.JFrame thisFrame

commandProcessor

CommandProcessor commandProcessor

memoryMonitorFrame

MemoryMonitorFrame memoryMonitorFrame

java3dUniverse

Java3dUniverse java3dUniverse

secondJ3D

Java3dUniverse secondJ3D

thirdJ3D

Java3dUniverse thirdJ3D

jAddMoleculeDialog

JAddMoleculeDialog jAddMoleculeDialog

jAddFragmentDialog

JAddFragmentDialog jAddFragmentDialog

moleculeSelectorDialog

MoleculeSelectorDialog moleculeSelectorDialog

jSetupEnergyDialog

JSetupEnergyDialog jSetupEnergyDialog

saveG03GJFDialog

SaveG03GJFDialog saveG03GJFDialog

gaussianInputEditorFrame

GaussianInputEditorFrame gaussianInputEditorFrame

fragDic

java.net.URL fragDic

processEditMenu

JEditorFrame.JEditorFrame_jMenuFileEdit_ActionAdapter processEditMenu

processViewMenu

JEditorFrame.JEditorFrame_jMenuView_ActionAdapter processViewMenu

processAnalyzeMenu

JEditorFrame.JEditorFrame_jMenuAnalyze_ActionAdapter processAnalyzeMenu

processDBMenu

JEditorFrame.JEditorFrame_jMenuDB_ActionAdapter processDBMenu

jScrollBar1

javax.swing.JScrollBar jScrollBar1

jScrollBar2

javax.swing.JScrollBar jScrollBar2

lowerPanel

javax.swing.JPanel lowerPanel

borderLayout2

java.awt.BorderLayout borderLayout2

dad

java.awt.Component dad

dadFrame

javax.swing.JFrame dadFrame

Class cct.dialogs.JEditorFrame_AboutBox extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

panel2

javax.swing.JPanel panel2

insetsPanel1

javax.swing.JPanel insetsPanel1

insetsPanel2

javax.swing.JPanel insetsPanel2

insetsPanel3

javax.swing.JPanel insetsPanel3

button1

javax.swing.JButton button1

imageLabel

javax.swing.JLabel imageLabel

label1

javax.swing.JLabel label1

label2

javax.swing.JLabel label2

label3

javax.swing.JLabel label3

label4

javax.swing.JLabel label4

image1

javax.swing.ImageIcon image1

borderLayout1

java.awt.BorderLayout borderLayout1

borderLayout2

java.awt.BorderLayout borderLayout2

flowLayout1

java.awt.FlowLayout flowLayout1

gridLayout1

java.awt.GridLayout gridLayout1

product

java.lang.String product

version

java.lang.String version

copyright

java.lang.String copyright

comments

java.lang.String comments

Version

java.lang.String Version

Build

java.lang.String Build

Class cct.dialogs.JElementsPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

Buttons

java.util.ArrayList<E> Buttons

buttonStore

java.util.ArrayList<E> buttonStore

elementsCombobox

javax.swing.JComboBox elementsCombobox

selectedButton

javax.swing.JButton selectedButton

tablePanel

javax.swing.JPanel tablePanel

comboboxPanel

javax.swing.JPanel comboboxPanel

Class cct.dialogs.JModifyAngleDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

mainPanel

javax.swing.JPanel mainPanel

DisplPanel

javax.swing.JPanel DisplPanel

Atom_1

javax.swing.JPanel Atom_1

Atom_3

javax.swing.JPanel Atom_3

Atom_2

javax.swing.JPanel Atom_2

border1

javax.swing.border.Border border1

border2

javax.swing.border.Border border2

buttonGroup1

javax.swing.ButtonGroup buttonGroup1

buttonGroup2

javax.swing.ButtonGroup buttonGroup2

buttonGroup3

javax.swing.ButtonGroup buttonGroup3

Fixed_1

javax.swing.JRadioButton Fixed_1

Rotate_atom_1

javax.swing.JRadioButton Rotate_atom_1

Translate_group_1

javax.swing.JRadioButton Translate_group_1

Rotate_group_1

javax.swing.JRadioButton Rotate_group_1

Translate_group_2

javax.swing.JRadioButton Translate_group_2

Translate_atom_2

javax.swing.JRadioButton Translate_atom_2

Fixed_2

javax.swing.JRadioButton Fixed_2

Rotate_group_3

javax.swing.JRadioButton Rotate_group_3

Translate_group_3

javax.swing.JRadioButton Translate_group_3

Rotate_atom_3

javax.swing.JRadioButton Rotate_atom_3

Fixed_3

javax.swing.JRadioButton Fixed_3

gridLayout1

java.awt.GridLayout gridLayout1

InfoPanel

javax.swing.JPanel InfoPanel

maxAngle

javax.swing.JLabel maxAngle

minAngle

javax.swing.JLabel minAngle

currentAngle

javax.swing.JTextField currentAngle

jLabel1

javax.swing.JLabel jLabel1

jLabel2

javax.swing.JLabel jLabel2

changeAnglePanel

javax.swing.JPanel changeAnglePanel

changeAngle

javax.swing.JSlider changeAngle

Labels

java.util.HashMap<K,V> Labels

anglePanel

javax.swing.JPanel anglePanel

daddy

MolecularEditor daddy

oldAngle

float oldAngle

maxAngleValue

float maxAngleValue

setOnlySlider

boolean setOnlySlider

buttonPanel

javax.swing.JPanel buttonPanel

flowLayout1

java.awt.FlowLayout flowLayout1

Finish

javax.swing.JButton Finish

instantView

javax.swing.JCheckBox instantView

undoLastSelection

javax.swing.JButton undoLastSelection

Ok

javax.swing.JButton Ok

Reset

javax.swing.JButton Reset

borderLayout1

java.awt.BorderLayout borderLayout1

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

gridBagLayout2

java.awt.GridBagLayout gridBagLayout2

gridBagLayout3

java.awt.GridBagLayout gridBagLayout3

gridBagLayout4

java.awt.GridBagLayout gridBagLayout4

borderLayout2

java.awt.BorderLayout borderLayout2

gridBagLayout5

java.awt.GridBagLayout gridBagLayout5

helpButton

javax.swing.JButton helpButton

Class cct.dialogs.JModifyAtomDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

renderer

GraphicsRendererInterface renderer

originalElement

int originalElement

originalRadius

float originalRadius

originalLabel

java.lang.String originalLabel

originalAtomType

java.lang.String originalAtomType

originalRed

int originalRed

originalGreen

int originalGreen

originalBlue

int originalBlue

originalAtomTypes

java.util.LinkedHashMap<K,V> originalAtomTypes

P

javax.swing.JPanel P

OK

javax.swing.JButton OK

Cancel

javax.swing.JButton Cancel

Reset

javax.swing.JButton Reset

buttons

java.util.ArrayList<E> buttons

internalUpdate

boolean internalUpdate

daddy

java.lang.Object daddy

oldElement

int oldElement

current_color

java.awt.Color current_color

jModifyAtomPanel1

JModifyAtomPanel jModifyAtomPanel1

jAtomTypesPanel1

JAtomTypesPanel jAtomTypesPanel1

atomTypesPanel

javax.swing.JPanel atomTypesPanel

type_1_Button

javax.swing.JButton type_1_Button

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

borderLayout1

java.awt.BorderLayout borderLayout1

flowLayout1

java.awt.FlowLayout flowLayout1

type_2_Button

javax.swing.JButton type_2_Button

type_3_Button

javax.swing.JButton type_3_Button

type_4_Button

javax.swing.JButton type_4_Button

type_5_Button

javax.swing.JButton type_5_Button

type_6_Button

javax.swing.JButton type_6_Button

type_7_Button

javax.swing.JButton type_7_Button

helpButton

javax.swing.JButton helpButton

Class cct.dialogs.JModifyAtomPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

renderer

GraphicsRendererInterface renderer

colorBuffer

java.awt.Color colorBuffer

jPanel1

javax.swing.JPanel jPanel1

jLabel1

javax.swing.JLabel jLabel1

Element

javax.swing.JComboBox Element

jLabel2

javax.swing.JLabel jLabel2

Label

javax.swing.JTextField Label

flowLayout1

java.awt.FlowLayout flowLayout1

jPanel2

javax.swing.JPanel jPanel2

Zcoord

javax.swing.JTextField Zcoord

Z

javax.swing.JLabel Z

flowLayout2

java.awt.FlowLayout flowLayout2

Ycoord

javax.swing.JTextField Ycoord

Xcoord

javax.swing.JTextField Xcoord

Y

javax.swing.JLabel Y

X

javax.swing.JLabel X

jPanel3

javax.swing.JPanel jPanel3

flowLayout3

java.awt.FlowLayout flowLayout3

jLabel3

javax.swing.JLabel jLabel3

jLabel4

javax.swing.JLabel jLabel4

jLabel5

javax.swing.JLabel jLabel5

Choose_color

javax.swing.JButton Choose_color

jLabel6

javax.swing.JLabel jLabel6

Radius

javax.swing.JSpinner Radius

Red

javax.swing.JSpinner Red

Green

javax.swing.JSpinner Green

Blue

javax.swing.JSpinner Blue

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

Class cct.dialogs.JModifyBondDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

mainPanel

javax.swing.JPanel mainPanel

Displ_panel

javax.swing.JPanel Displ_panel

Atom_1

javax.swing.ButtonGroup Atom_1

Fixed_1

javax.swing.JRadioButton Fixed_1

translateAtom_1

javax.swing.JRadioButton translateAtom_1

translateGroup_1

javax.swing.JRadioButton translateGroup_1

Atom_2

javax.swing.ButtonGroup Atom_2

translateGroup_2

javax.swing.JRadioButton translateGroup_2

Fixed_2

javax.swing.JRadioButton Fixed_2

translateAtom_2

javax.swing.JRadioButton translateAtom_2

Displace_1

javax.swing.JPanel Displace_1

Displace_2

javax.swing.JPanel Displace_2

changeBondPanel

javax.swing.JPanel changeBondPanel

bondLengthSlider

javax.swing.JSlider bondLengthSlider

bondInfoPanel

javax.swing.JPanel bondInfoPanel

minBond

javax.swing.JLabel minBond

maxBond

javax.swing.JLabel maxBond

currentBondLength

javax.swing.JTextField currentBondLength

gridLayout1

java.awt.GridLayout gridLayout1

jLabel1

javax.swing.JLabel jLabel1

jLabel2

javax.swing.JLabel jLabel2

bondPanel

javax.swing.JPanel bondPanel

borderLayout1

java.awt.BorderLayout borderLayout1

buttonsPanel

javax.swing.JPanel buttonsPanel

Cancel

javax.swing.JButton Cancel

Help

javax.swing.JButton Help

Ok

javax.swing.JButton Ok

drawBond

javax.swing.JCheckBox drawBond

daddy

MolecularEditor daddy

bondMin

float bondMin

bondMax

float bondMax

currentBond

float currentBond

setSlideOnly

boolean setSlideOnly

oldBondLength

float oldBondLength

oldDrawBond

boolean oldDrawBond

checkboxesPanel

javax.swing.JPanel checkboxesPanel

instantView

javax.swing.JCheckBox instantView

gridLayout2

java.awt.GridLayout gridLayout2

undoLastSelection

javax.swing.JButton undoLastSelection

Reset

javax.swing.JButton Reset

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

gridBagLayout2

java.awt.GridBagLayout gridBagLayout2

borderLayout2

java.awt.BorderLayout borderLayout2

borderLayout3

java.awt.BorderLayout borderLayout3

gridBagLayout3

java.awt.GridBagLayout gridBagLayout3

Class cct.dialogs.JModifyTorsionDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

mainPanel

javax.swing.JPanel mainPanel

borderLayout1

java.awt.BorderLayout borderLayout1

displPanel

javax.swing.JPanel displPanel

jAtom_1

javax.swing.JPanel jAtom_1

Atom_2

javax.swing.JPanel Atom_2

buttonGroup1

javax.swing.ButtonGroup buttonGroup1

buttonGroup2

javax.swing.ButtonGroup buttonGroup2

Fixed_1

javax.swing.JRadioButton Fixed_1

rotateAtom_1

javax.swing.JRadioButton rotateAtom_1

rotateGroup_1

javax.swing.JRadioButton rotateGroup_1

rotateAtom_4

javax.swing.JRadioButton rotateAtom_4

rotateGroup_4

javax.swing.JRadioButton rotateGroup_4

Fixed_4

javax.swing.JRadioButton Fixed_4

borderLayout2

java.awt.BorderLayout borderLayout2

gridLayout1

java.awt.GridLayout gridLayout1

borderLayout3

java.awt.BorderLayout borderLayout3

buttonPanel

javax.swing.JPanel buttonPanel

Reset

javax.swing.JButton Reset

Undo

javax.swing.JButton Undo

Finish

javax.swing.JButton Finish

OK_button

javax.swing.JButton OK_button

centralPanel

javax.swing.JPanel centralPanel

instantView

javax.swing.JCheckBox instantView

sliderPanel

javax.swing.JPanel sliderPanel

changeAngle

javax.swing.JSlider changeAngle

viewPanel

javax.swing.JPanel viewPanel

valuesPanel

javax.swing.JPanel valuesPanel

gridLayout2

java.awt.GridLayout gridLayout2

flowLayout1

java.awt.FlowLayout flowLayout1

gridLayout3

java.awt.GridLayout gridLayout3

jLabel1

javax.swing.JLabel jLabel1

jLabel2

javax.swing.JLabel jLabel2

jLabel3

javax.swing.JLabel jLabel3

jLabel4

javax.swing.JLabel jLabel4

angleValue

javax.swing.JTextField angleValue

gridLayout4

java.awt.GridLayout gridLayout4

jPanel1

javax.swing.JPanel jPanel1

borderLayout4

java.awt.BorderLayout borderLayout4

daddy

MolecularEditor daddy

oldAngle

float oldAngle

setOnlySlider

boolean setOnlySlider

helpButton

javax.swing.JButton helpButton

Class cct.dialogs.JQuickSelectionPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

Invert

javax.swing.JButton Invert

Undo

javax.swing.JButton Undo

Clear

javax.swing.JButton Clear

All

javax.swing.JButton All

gridLayout1

java.awt.GridLayout gridLayout1

border1

javax.swing.border.Border border1

border2

javax.swing.border.Border border2

Controls

java.util.HashMap<K,V> Controls

Class cct.dialogs.JSelectAtomTypesDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

mainPanel

javax.swing.JPanel mainPanel

borderLayout1

java.awt.BorderLayout borderLayout1

Elements

javax.swing.JList Elements

atomNames

javax.swing.JList atomNames

buttonPanel

javax.swing.JPanel buttonPanel

OK

javax.swing.JButton OK

Cancel

javax.swing.JButton Cancel

Help

javax.swing.JButton Help

P1

javax.swing.JPanel P1

okPressed

boolean okPressed

gridLayout1

java.awt.GridLayout gridLayout1

jScrollPane1

javax.swing.JScrollPane jScrollPane1

jScrollPane2

javax.swing.JScrollPane jScrollPane2

Class cct.dialogs.JSelectionRulePanel extends javax.swing.JPanel implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

buttonGroup1

javax.swing.ButtonGroup buttonGroup1

Difference

javax.swing.JRadioButton Difference

Intersection

javax.swing.JRadioButton Intersection

Union

javax.swing.JRadioButton Union

border1

javax.swing.border.Border border1

border2

javax.swing.border.Border border2

Controls

java.util.HashMap<K,V> Controls

Class cct.dialogs.JSelectionTypePanel extends javax.swing.JPanel implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

buttonGroup1

javax.swing.ButtonGroup buttonGroup1

Atom

javax.swing.JRadioButton Atom

Monomer

javax.swing.JRadioButton Monomer

Molecule

javax.swing.JRadioButton Molecule

border1

javax.swing.border.Border border1

border2

javax.swing.border.Border border2

Controls

java.util.HashMap<K,V> Controls

border3

javax.swing.border.Border border3

border4

javax.swing.border.Border border4

Class cct.dialogs.JSelectMonomersDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

mainPanel

javax.swing.JPanel mainPanel

borderLayout1

java.awt.BorderLayout borderLayout1

buttonsPanel

javax.swing.JPanel buttonsPanel

Help

javax.swing.JButton Help

Cancel

javax.swing.JButton Cancel

OK

javax.swing.JButton OK

Monomers

javax.swing.JList Monomers

okPressed

boolean okPressed

owner

java.awt.Frame owner

jScrollPane1

javax.swing.JScrollPane jScrollPane1

Class cct.dialogs.JSelectSubstructureDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

mainPanel

javax.swing.JPanel mainPanel

borderLayout1

java.awt.BorderLayout borderLayout1

jScrollPane1

javax.swing.JScrollPane jScrollPane1

buttonPanel

javax.swing.JPanel buttonPanel

Cancel

javax.swing.JButton Cancel

OK

javax.swing.JButton OK

Help

javax.swing.JButton Help

Substructure

javax.swing.JList Substructure

okPressed

boolean okPressed

owner

java.awt.Frame owner

Class cct.dialogs.JSelectTreeDialog extends javax.swing.JFrame implements Serializable

Serialized Fields

parent

TreeSelectorInterface parent

jScrollPane1

javax.swing.JScrollPane jScrollPane1

jPanel1

javax.swing.JPanel jPanel1

borderLayout1

java.awt.BorderLayout borderLayout1

finishButton

javax.swing.JButton finishButton

addFragButton

javax.swing.JButton addFragButton

helpButton

javax.swing.JButton helpButton

fragmentsTree

javax.swing.JTree fragmentsTree

referenceTable

java.util.HashMap<K,V> referenceTable

rootNodeName

java.lang.String rootNodeName

Class cct.dialogs.JSimpleAtomSelectionDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

message

javax.swing.JLabel message

OK

javax.swing.JButton OK

Cancel

javax.swing.JButton Cancel

OKpressed

boolean OKpressed

daddy

java.lang.Object daddy

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

Class cct.dialogs.JSolvateShellDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

OK_pressed

boolean OK_pressed

openFile

OpenFile openFile

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

solventPanel

javax.swing.JPanel solventPanel

paramPanel

javax.swing.JPanel paramPanel

buttonPanel

javax.swing.JPanel buttonPanel

jButton1

javax.swing.JButton jButton1

jButton2

javax.swing.JButton jButton2

SolvateButton

javax.swing.JButton SolvateButton

jTextField1

javax.swing.JTextField jTextField1

jLabel1

javax.swing.JLabel jLabel1

flowLayout1

java.awt.FlowLayout flowLayout1

jLabel2

javax.swing.JLabel jLabel2

jTextField2

javax.swing.JTextField jTextField2

jLabel3

javax.swing.JLabel jLabel3

jLabel4

javax.swing.JLabel jLabel4

browseButton

javax.swing.JButton browseButton

jComboBox1

javax.swing.JComboBox jComboBox1

predefinedRadioButton

javax.swing.JRadioButton predefinedRadioButton

userDefinedRadioButton

javax.swing.JRadioButton userDefinedRadioButton

buttonGroup1

javax.swing.ButtonGroup buttonGroup1

fileTextField

javax.swing.JTextField fileTextField

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

customObjects

java.lang.Object[] customObjects

Class cct.dialogs.JSpecialSelectionPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

Sets

javax.swing.JButton Sets

substructure

javax.swing.JButton substructure

monomer_types

javax.swing.JButton monomer_types

Sphere_selection

javax.swing.JButton Sphere_selection

atom_types

javax.swing.JButton atom_types

Controls

java.util.HashMap<K,V> Controls

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

Class cct.dialogs.JThreeButtonsPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

flowLayout1

java.awt.FlowLayout flowLayout1

OK

javax.swing.JButton OK

Cancel

javax.swing.JButton Cancel

Help

javax.swing.JButton Help

Class cct.dialogs.MoleculeSelectorDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

java3d

Java3dUniverse java3d

parent

MoleculeRendererInterface parent

molecules

java.util.LinkedHashMap<K,V> molecules

referenceTable

java.util.HashMap<K,V> referenceTable

topName

java.lang.String topName

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

jSplitPane1

javax.swing.JSplitPane jSplitPane1

borderLayout2

java.awt.BorderLayout borderLayout2

cancelButton

javax.swing.JButton cancelButton

jPanel1

javax.swing.JPanel jPanel1

loadButton

javax.swing.JButton loadButton

jScrollPane1

javax.swing.JScrollPane jScrollPane1

moleculeTree

javax.swing.JTree moleculeTree

Class cct.dialogs.SaveXYZDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

okPressed

boolean okPressed

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

atomTypesPanel

javax.swing.JPanel atomTypesPanel

jPanel2

javax.swing.JPanel jPanel2

unitsPanel

javax.swing.JPanel unitsPanel

atomsButtonGroup

javax.swing.ButtonGroup atomsButtonGroup

numberRadioButton

javax.swing.JRadioButton numberRadioButton

flowLayout1

java.awt.FlowLayout flowLayout1

symbolRadioButton

javax.swing.JRadioButton symbolRadioButton

unitsButtonGroup

javax.swing.ButtonGroup unitsButtonGroup

angstromRadioButton

javax.swing.JRadioButton angstromRadioButton

flowLayout2

java.awt.FlowLayout flowLayout2

bohrRadioButton

javax.swing.JRadioButton bohrRadioButton

cancelButton

javax.swing.JButton cancelButton

okButton

javax.swing.JButton okButton

Class cct.dialogs.SelectPropShowDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

jobSummaryCheckBox

javax.swing.JCheckBox jobSummaryCheckBox

jPanel1

javax.swing.JPanel jPanel1

borderLayout2

java.awt.BorderLayout borderLayout2

mdCheckBox

javax.swing.JCheckBox mdCheckBox

borderLayout3

java.awt.BorderLayout borderLayout3

vibrationsPanel

javax.swing.JPanel vibrationsPanel

vcdCheckBox

javax.swing.JCheckBox vcdCheckBox

uDepolCheckBox

javax.swing.JCheckBox uDepolCheckBox

pDepolCheckBox

javax.swing.JCheckBox pDepolCheckBox

ramanCheckBox

javax.swing.JCheckBox ramanCheckBox

infraredCheckBox

javax.swing.JCheckBox infraredCheckBox

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

buttonsPanel

javax.swing.JPanel buttonsPanel

cancelButton

javax.swing.JButton cancelButton

okButton

javax.swing.JButton okButton

refTable

java.util.HashMap<K,V> refTable

freq

java.util.ArrayList<E> freq

okPressed

boolean okPressed

Class cct.dialogs.TrajectoriesManagerPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

jPanel1

javax.swing.JPanel jPanel1

jPanel2

javax.swing.JPanel jPanel2

jScrollPane1

javax.swing.JScrollPane jScrollPane1

trajList

javax.swing.JList trajList

loadButton

javax.swing.JButton loadButton

deleteButton

javax.swing.JButton deleteButton

helpButton

javax.swing.JButton helpButton

fileChooser

javax.swing.JFileChooser fileChooser

prefs

java.util.prefs.Preferences prefs

currentWorkingDirectory

java.io.File currentWorkingDirectory

structureManager

StructureManager structureManager

validFormats

java.util.HashMap<K,V> validFormats

loadedTrajectories

java.util.LinkedHashMap<K,V> loadedTrajectories

trajectoryClientInterface

TrajectoryClientInterface trajectoryClientInterface

delAllButton

javax.swing.JButton delAllButton

Class cct.dialogs.TrajectoryAnalysisDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

mainTabbedPane

javax.swing.JTabbedPane mainTabbedPane

mainPanel

javax.swing.JPanel mainPanel

borderLayout2

java.awt.BorderLayout borderLayout2

trajectoriesManagerPanel

TrajectoriesManagerPanel trajectoriesManagerPanel

animationPanel1

AnimationPanel animationPanel1

buttonPanel

javax.swing.JPanel buttonPanel

hideButton

javax.swing.JButton hideButton

border1

javax.swing.border.Border border1

border2

javax.swing.border.Border border2

border3

javax.swing.border.Border border3

border4

javax.swing.border.Border border4

Coordinates

float[][] Coordinates

java3dUniverse

Java3dUniverse java3dUniverse

Class cct.dialogs.ViewPeriodicImagePanel extends javax.swing.JPanel implements Serializable

Serialized Fields

minusMin

int minusMin

plusMin

int plusMin

max

int max

step

int step

initMinusValue

int initMinusValue

initPlusValue

int initPlusValue

minusModel_1

javax.swing.SpinnerModel minusModel_1

minusModel_2

javax.swing.SpinnerModel minusModel_2

minusModel_3

javax.swing.SpinnerModel minusModel_3

plusModel_1

javax.swing.SpinnerModel plusModel_1

plusModel_2

javax.swing.SpinnerModel plusModel_2

plusModel_3

javax.swing.SpinnerModel plusModel_3

borderLayout1

java.awt.BorderLayout borderLayout1

cellReplicationPanel

javax.swing.JPanel cellReplicationPanel

buttonPanel

javax.swing.JPanel buttonPanel

abcPanel

javax.swing.JPanel abcPanel

borderLayout2

java.awt.BorderLayout borderLayout2

jLabel1

javax.swing.JLabel jLabel1

cSpinner

javax.swing.JSpinner cSpinner

jLabel2

javax.swing.JLabel jLabel2

jLabel3

javax.swing.JLabel jLabel3

jLabel4

javax.swing.JLabel jLabel4

jLabel5

javax.swing.JLabel jLabel5

cMinusSpinner

javax.swing.JSpinner cMinusSpinner

bSpinner

javax.swing.JSpinner bSpinner

bMinusSpinner

javax.swing.JSpinner bMinusSpinner

aSpinner

javax.swing.JSpinner aSpinner

aMinusSpinner

javax.swing.JSpinner aMinusSpinner

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

resetButton

javax.swing.JButton resetButton

makeSupercellButton

javax.swing.JButton makeSupercellButton

cellViewManager

CellViewManagerInterface cellViewManager

Package cct.gaussian

Class cct.gaussian.GaussianMolecule extends java.util.ArrayList implements Serializable

Serialized Fields

jobType

int jobType

Charge

int Charge

Multiplicity

int Multiplicity

chargeAndMultiplicity

int[] chargeAndMultiplicity

LinkZeroCommands

java.util.ArrayList<E> LinkZeroCommands

LinkZeroObjects

java.util.HashMap<K,V> LinkZeroObjects

routeSection

GaussianKeywords routeSection

titleSection

java.util.ArrayList<E> titleSection

chargeSection

java.util.ArrayList<E> chargeSection

moleculeSpecsSection

java.util.ArrayList<E> moleculeSpecsSection

cartesians

java.util.ArrayList<E> cartesians

Parameters

java.util.HashMap<K,V> Parameters

Class cct.gaussian.SelectPropShowDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

Package cct.gaussian.ui

Class cct.gaussian.ui.GaussianInputEditorFrame extends javax.swing.JFrame implements Serializable

Serialized Fields

prefs

java.util.prefs.Preferences prefs

fontSelector

FontSelectorDialog fontSelector

gjfParser

GJFParserInterface gjfParser

numberOfEntries

int numberOfEntries

count

int count

additionalEntries

java.util.ArrayList<E> additionalEntries

entryLabels

java.util.ArrayList<E> entryLabels

fileName

java.lang.String fileName

workingDirectory

java.lang.String workingDirectory

protocol

java.lang.String protocol

images16x16Path

java.lang.String images16x16Path

images32x32Path

java.lang.String images32x32Path

size

int size

style

int style

fontName

java.lang.String fontName

newFont

java.awt.Font newFont

contentPane

javax.swing.JPanel contentPane

borderLayout1

java.awt.BorderLayout borderLayout1

jMenuBar1

javax.swing.JMenuBar jMenuBar1

jMenuFile

javax.swing.JMenu jMenuFile

jMenuFileExit

javax.swing.JMenuItem jMenuFileExit

jMenuHelp

javax.swing.JMenu jMenuHelp

jMenuHelpAbout

javax.swing.JMenuItem jMenuHelpAbout

jToolBar

javax.swing.JToolBar jToolBar

openFileButton

javax.swing.JButton openFileButton

resetButton

javax.swing.JButton resetButton

jButton3

javax.swing.JButton jButton3

image1

javax.swing.ImageIcon image1

image2

javax.swing.ImageIcon image2

image3

javax.swing.ImageIcon image3

statusBar

javax.swing.JLabel statusBar

simpleG03EditorPanel1

SimpleG03EditorPanel simpleG03EditorPanel1

mainPanel

javax.swing.JPanel mainPanel

goStepsPanel

javax.swing.JPanel goStepsPanel

previousStepButton

javax.swing.JButton previousStepButton

nextStepButton

javax.swing.JButton nextStepButton

borderLayout2

java.awt.BorderLayout borderLayout2

arrowUp

javax.swing.ImageIcon arrowUp

arrowUpFaded

javax.swing.ImageIcon arrowUpFaded

arrowDown

javax.swing.ImageIcon arrowDown

arrowDownFaded

javax.swing.ImageIcon arrowDownFaded

deleteStep

javax.swing.ImageIcon deleteStep

insertNewStep

javax.swing.ImageIcon insertNewStep

openFile

javax.swing.ImageIcon openFile

saveFile

javax.swing.ImageIcon saveFile

saveStepInFile

javax.swing.ImageIcon saveStepInFile

okReturnBack

javax.swing.ImageIcon okReturnBack

gridBagLayout4

java.awt.GridBagLayout gridBagLayout4

cardPanel

javax.swing.JPanel cardPanel

topPanel

javax.swing.JPanel topPanel

cardLayout1

java.awt.CardLayout cardLayout1

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

jLabel1

javax.swing.JLabel jLabel1

stepsComboBox

javax.swing.JComboBox stepsComboBox

flowLayout2

java.awt.FlowLayout flowLayout2

deleteEntryButton

javax.swing.JButton deleteEntryButton

insertEntryButton

javax.swing.JButton insertEntryButton

jLabel2

javax.swing.JLabel jLabel2

jMenuItem1

javax.swing.JMenuItem jMenuItem1

jLabel3

javax.swing.JLabel jLabel3

fileComboBox

javax.swing.JComboBox fileComboBox

openSelectedFileButton

javax.swing.JButton openSelectedFileButton

saveFileButton

javax.swing.JButton saveFileButton

saveStepButton

javax.swing.JButton saveStepButton

returnBackButton

javax.swing.JButton returnBackButton

viewMenu

javax.swing.JMenu viewMenu

increaseMenuItem

javax.swing.JMenuItem increaseMenuItem

decreaseMenuItem

javax.swing.JMenuItem decreaseMenuItem

jMenuItem4

javax.swing.JMenuItem jMenuItem4

Class cct.gaussian.ui.GaussianInputEditorFrame_AboutBox extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

panel2

javax.swing.JPanel panel2

insetsPanel1

javax.swing.JPanel insetsPanel1

insetsPanel2

javax.swing.JPanel insetsPanel2

insetsPanel3

javax.swing.JPanel insetsPanel3

button1

javax.swing.JButton button1

imageLabel

javax.swing.JLabel imageLabel

label1

javax.swing.JLabel label1

label2

javax.swing.JLabel label2

label3

javax.swing.JLabel label3

label4

javax.swing.JLabel label4

image1

javax.swing.ImageIcon image1

borderLayout1

java.awt.BorderLayout borderLayout1

borderLayout2

java.awt.BorderLayout borderLayout2

flowLayout1

java.awt.FlowLayout flowLayout1

gridLayout1

java.awt.GridLayout gridLayout1

product

java.lang.String product

version

java.lang.String version

copyright

java.lang.String copyright

comments

java.lang.String comments

jLabel1

javax.swing.JLabel jLabel1

Class cct.gaussian.ui.Link0Panel extends javax.swing.JScrollPane implements Serializable

Serialized Fields

jTextArea1

javax.swing.JTextArea jTextArea1

newInput

boolean newInput

Class cct.gaussian.ui.ManageCubesFrame extends javax.swing.JFrame implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

jPanel1

javax.swing.JPanel jPanel1

jPanel2

javax.swing.JPanel jPanel2

cubeList

javax.swing.JList cubeList

borderLayout2

java.awt.BorderLayout borderLayout2

jPanel3

javax.swing.JPanel jPanel3

flowLayout1

java.awt.FlowLayout flowLayout1

jPanel4

javax.swing.JPanel jPanel4

borderLayout3

java.awt.BorderLayout borderLayout3

hideButton

javax.swing.JButton hideButton

jPanel5

javax.swing.JPanel jPanel5

loadButton

javax.swing.JButton loadButton

deleteButton

javax.swing.JButton deleteButton

saveButton

javax.swing.JButton saveButton

isosurfaceButton

javax.swing.JButton isosurfaceButton

Cubes

java.util.ArrayList<E> Cubes

info

java.util.ArrayList<E> info

java3dUniverse

Java3dUniverse java3dUniverse

jLabel3

javax.swing.JLabel jLabel3

isovalue

float isovalue

isovalueFormat

java.text.NumberFormat isovalueFormat

isovalueFormattedTextField

javax.swing.JFormattedTextField isovalueFormattedTextField

useReverseCheckBox

javax.swing.JCheckBox useReverseCheckBox

jScrollPane1

javax.swing.JScrollPane jScrollPane1

helpButton

javax.swing.JButton helpButton

mappedSurfaceButton

javax.swing.JButton mappedSurfaceButton

surfaceButtonsPanel

javax.swing.JPanel surfaceButtonsPanel

Class cct.gaussian.ui.MoleculeSpecsPanel extends javax.swing.JScrollPane implements Serializable

Serialized Fields

newInput

boolean newInput

jTextArea1

javax.swing.JTextArea jTextArea1

Class cct.gaussian.ui.RouteSectionPanel extends javax.swing.JScrollPane implements Serializable

Serialized Fields

newInput

boolean newInput

jTextArea1

javax.swing.JTextArea jTextArea1

Class cct.gaussian.ui.SaveG03GJFDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

OK_pressed

boolean OK_pressed

gjfParser

GJFParserInterface gjfParser

simpleG03EditorPanel1

SimpleG03EditorPanel simpleG03EditorPanel1

fileChooser

FileChooserDialog fileChooser

workingDirectory

java.lang.String workingDirectory

helpButton

javax.swing.JButton helpButton

buttonPanel

javax.swing.JPanel buttonPanel

cancelButton

javax.swing.JButton cancelButton

saveButton

javax.swing.JButton saveButton

Class cct.gaussian.ui.SimpleG03EditorPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

link0Panel1

Link0Panel link0Panel1

routeSectionPanel1

RouteSectionPanel routeSectionPanel1

moleculeSpecsPanel1

MoleculeSpecsPanel moleculeSpecsPanel1

jLabel1

javax.swing.JLabel jLabel1

jTextField1

javax.swing.JTextField jTextField1

lowerPanel

javax.swing.JPanel lowerPanel

centralPanel

javax.swing.JPanel centralPanel

titleSectionPanel1

TitleSectionPanel titleSectionPanel1

gridBagLayout2

java.awt.GridBagLayout gridBagLayout2

gridBagLayout3

java.awt.GridBagLayout gridBagLayout3

border1

javax.swing.border.Border border1

border2

javax.swing.border.Border border2

fieldsEdited

boolean fieldsEdited

gjfParser

GJFParserInterface gjfParser

borderLayout1

java.awt.BorderLayout borderLayout1

validateGeomButton

javax.swing.JButton validateGeomButton

Class cct.gaussian.ui.TitleSectionPanel extends javax.swing.JScrollPane implements Serializable

Serialized Fields

jTextArea1

javax.swing.JTextArea jTextArea1

Package cct.grid

Class cct.grid.CheckPoint extends java.util.HashMap implements Serializable

Serialized Fields

resourcesUsed

java.util.HashMap<K,V> resourcesUsed

outputFilesStatusUpdated

boolean outputFilesStatusUpdated

Message

java.lang.String Message

Class cct.grid.JobDescription extends java.util.HashMap implements Serializable

Class cct.grid.MalformedCheckPointException extends java.lang.Exception implements Serializable

Class cct.grid.TaskProviderPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

providerComboBox

javax.swing.JComboBox providerComboBox

providerPanel

javax.swing.JPanel providerPanel

jPanel2

javax.swing.JPanel jPanel2

flowLayout1

java.awt.FlowLayout flowLayout1

providerLabel

javax.swing.JLabel providerLabel

cardLayout1

java.awt.CardLayout cardLayout1

Package cct.grid.ui

Class cct.grid.ui.EditScriptDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

prefs

java.util.prefs.Preferences prefs

fontSelector

FontSelectorDialog fontSelector

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

jPanel1

javax.swing.JPanel jPanel1

jScrollPane1

javax.swing.JScrollPane jScrollPane1

scriptTextArea

javax.swing.JTextArea scriptTextArea

cancelButton

javax.swing.JButton cancelButton

submitButton

javax.swing.JButton submitButton

submitPressed

boolean submitPressed

Class cct.grid.ui.JobStatusDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

mainPanel

javax.swing.JPanel mainPanel

borderLayout1

java.awt.BorderLayout borderLayout1

jobStatusPanel1

JobStatusPanel jobStatusPanel1

jPanel1

javax.swing.JPanel jPanel1

updateButton

javax.swing.JButton updateButton

hideButton

javax.swing.JButton hideButton

queryIsDone

boolean queryIsDone

taskType

int taskType

jobStatusInterface

JobStatusInterface jobStatusInterface

removeButton

javax.swing.JButton removeButton

killButton

javax.swing.JButton killButton

HelpButton

javax.swing.JButton HelpButton

downloadButton

javax.swing.JButton downloadButton

Class cct.grid.ui.JobStatusPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

jScrollPane1

javax.swing.JScrollPane jScrollPane1

dataSource

JobStatusTableModel dataSource

jsi

JobStatusInterface jsi

popupTimer

javax.swing.Timer popupTimer

factory

javax.swing.PopupFactory factory

popup

javax.swing.Popup popup

mousePoint

java.awt.Point mousePoint

fileViewer

FileViewerInterface fileViewer

popupMenu

javax.swing.JPopupMenu popupMenu

popupListener

cct.grid.ui.JobStatusPanel.PopupListener popupListener

currentCheckPoint

CheckPoint currentCheckPoint

popupPanel

JobStatusPopupPanel popupPanel

jobStatusTable

javax.swing.JTable jobStatusTable

DEBUG

boolean DEBUG

jLabel1

javax.swing.JLabel jLabel1

Class cct.grid.ui.JobStatusPopupPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

jLabel1

javax.swing.JLabel jLabel1

jobNameLabel

javax.swing.JLabel jobNameLabel

jLabel3

javax.swing.JLabel jLabel3

hostLabel

javax.swing.JLabel hostLabel

jLabel5

javax.swing.JLabel jLabel5

taskProviderLabel

javax.swing.JLabel taskProviderLabel

jLabel7

javax.swing.JLabel jLabel7

softLabel

javax.swing.JLabel softLabel

jLabel9

javax.swing.JLabel jLabel9

submitTimeLabel

javax.swing.JLabel submitTimeLabel

gridLayout1

java.awt.GridLayout gridLayout1

jLabel2

javax.swing.JLabel jLabel2

localDirLabel

javax.swing.JLabel localDirLabel

jLabel4

javax.swing.JLabel jLabel4

remoteDirLabel

javax.swing.JLabel remoteDirLabel

jLabel8

javax.swing.JLabel jLabel8

executableLabel

javax.swing.JLabel executableLabel

outputFilesLabel

javax.swing.JLabel outputFilesLabel

resourcesUsedLabel

javax.swing.JLabel resourcesUsedLabel

emptyLabel

javax.swing.JLabel emptyLabel

emptyLabel2

javax.swing.JLabel emptyLabel2

labelStore

java.util.ArrayList<E> labelStore

resourcesLabelStore

java.util.ArrayList<E> resourcesLabelStore

Class cct.grid.ui.JobStatusTableModel extends javax.swing.table.AbstractTableModel implements Serializable

Serialized Fields

columnNames

java.lang.String[] columnNames

DEBUG

boolean DEBUG

data

java.lang.Object[][] data

jobStatusInterface

JobStatusInterface jobStatusInterface

Class cct.grid.ui.NoSchedulerPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

Resources

ResourcesProviderInterface Resources

Class cct.grid.ui.PBS_Panel extends javax.swing.JPanel implements Serializable

Serialized Fields

prefs

java.util.prefs.Preferences prefs

memoryLabel

javax.swing.JLabel memoryLabel

timeLabel

javax.swing.JLabel timeLabel

queueLabel

javax.swing.JLabel queueLabel

jobfsLabel

javax.swing.JLabel jobfsLabel

softLabel

javax.swing.JLabel softLabel

projectLabel

javax.swing.JLabel projectLabel

cpuLabel

javax.swing.JLabel cpuLabel

ProjectTextField

javax.swing.JTextField ProjectTextField

QueueTextField

javax.swing.JTextField QueueTextField

TimeTextField

javax.swing.JTextField TimeTextField

MemoryTextField

javax.swing.JTextField MemoryTextField

JobfsTextField

javax.swing.JTextField JobfsTextField

SoftwareTextField

javax.swing.JTextField SoftwareTextField

CPUTextField

javax.swing.JTextField CPUTextField

extCheckBox

javax.swing.JCheckBox extCheckBox

jPanel1

javax.swing.JPanel jPanel1

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

borderLayout1

java.awt.BorderLayout borderLayout1

Class cct.grid.ui.PBSPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

resourcesProvider

ResourcesProviderInterface resourcesProvider

clientProgram

ClientProgramInterface clientProgram

prefs

java.util.prefs.Preferences prefs

queueLabel

javax.swing.JLabel queueLabel

jobfsLabel

javax.swing.JLabel jobfsLabel

softLabel

javax.swing.JLabel softLabel

projectLabel

javax.swing.JLabel projectLabel

ProjectTextField

javax.swing.JTextField ProjectTextField

QueueTextField

javax.swing.JTextField QueueTextField

JobfsTextField

javax.swing.JTextField JobfsTextField

SoftwareTextField

javax.swing.JTextField SoftwareTextField

extCheckBox

javax.swing.JCheckBox extCheckBox

jPanel1

javax.swing.JPanel jPanel1

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

borderLayout1

java.awt.BorderLayout borderLayout1

jTabbedPane1

javax.swing.JTabbedPane jTabbedPane1

jPanel2

javax.swing.JPanel jPanel2

extensionsPanel

javax.swing.JPanel extensionsPanel

flowLayout1

java.awt.FlowLayout flowLayout1

Class cct.grid.ui.ProgressDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

jProgressBar1

javax.swing.JProgressBar jProgressBar1

jobTypeLabel

javax.swing.JLabel jobTypeLabel

cancelButton

javax.swing.JButton cancelButton

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

Class cct.grid.ui.ResourcesPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

flowLayout1

java.awt.FlowLayout flowLayout1

jLabel1

javax.swing.JLabel jLabel1

cpuTextField

javax.swing.JTextField cpuTextField

jLabel2

javax.swing.JLabel jLabel2

jLabel3

javax.swing.JLabel jLabel3

memoryTextField

javax.swing.JTextField memoryTextField

timeTextField

javax.swing.JTextField timeTextField

memoryComboBox

javax.swing.JComboBox memoryComboBox

timeComboBox

javax.swing.JComboBox timeComboBox

Class cct.grid.ui.SubmitTaskDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

MainPanel

javax.swing.JPanel MainPanel

borderLayout1

java.awt.BorderLayout borderLayout1

ClientProgram

ClientProgramInterface ClientProgram

ButtonPanel

javax.swing.JPanel ButtonPanel

Cancel_Button

javax.swing.JButton Cancel_Button

Submit_Button

javax.swing.JButton Submit_Button

providerComboBox

javax.swing.JComboBox providerComboBox

providerPanel

javax.swing.JPanel providerPanel

flowLayout1

java.awt.FlowLayout flowLayout1

providerLabel

javax.swing.JLabel providerLabel

progressDialog

ProgressDialog progressDialog

taskType

int taskType

allProviders

java.util.LinkedHashMap<K,V> allProviders

allSchedulers

java.util.LinkedHashMap<K,V> allSchedulers

jobOutput

JobOutputInterface jobOutput

cardPanel

javax.swing.JPanel cardPanel

schedulerCardPanel

javax.swing.JPanel schedulerCardPanel

comboPanel

javax.swing.JPanel comboPanel

flowLayout2

java.awt.FlowLayout flowLayout2

borderLayout2

java.awt.BorderLayout borderLayout2

cardLayout1

java.awt.CardLayout cardLayout1

cardLayout2

java.awt.CardLayout cardLayout2

schedulerLabel

javax.swing.JLabel schedulerLabel

schedulerComboBox

javax.swing.JComboBox schedulerComboBox

resourcesPanel

ResourcesPanel resourcesPanel

topPanel

javax.swing.JPanel topPanel

borderLayout3

java.awt.BorderLayout borderLayout3

border1

javax.swing.border.Border border1

border2

javax.swing.border.Border border2

submitWithEditButton

javax.swing.JButton submitWithEditButton

editScriptDialog

EditScriptDialog editScriptDialog

Package cct.grid.ui.gaussian

Class cct.grid.ui.gaussian.SubmitGaussianDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

MainPanel

javax.swing.JPanel MainPanel

borderLayout1

java.awt.BorderLayout borderLayout1

submitGaussianPanel1

SubmitGaussianPanel submitGaussianPanel1

pBS_Panel1

PBS_Panel pBS_Panel1

ButtonPanel

javax.swing.JPanel ButtonPanel

Cancel_Button

javax.swing.JButton Cancel_Button

Submit_Button

javax.swing.JButton Submit_Button

providerComboBox

javax.swing.JComboBox providerComboBox

providerPanel

javax.swing.JPanel providerPanel

flowLayout1

java.awt.FlowLayout flowLayout1

providerLabel

javax.swing.JLabel providerLabel

progressDialog

ProgressDialog progressDialog

taskType

int taskType

allProviders

java.util.LinkedHashMap<K,V> allProviders

jobOutput

JobOutputInterface jobOutput

getProxy_Button

javax.swing.JButton getProxy_Button

cardPanel

javax.swing.JPanel cardPanel

comboPanel

javax.swing.JPanel comboPanel

flowLayout2

java.awt.FlowLayout flowLayout2

borderLayout2

java.awt.BorderLayout borderLayout2

cardLayout1

java.awt.CardLayout cardLayout1

schedulerLabel

javax.swing.JLabel schedulerLabel

schedulerComboBox

javax.swing.JComboBox schedulerComboBox

resourcesPanel1

ResourcesPanel resourcesPanel1

topPanel

javax.swing.JPanel topPanel

borderLayout3

java.awt.BorderLayout borderLayout3

Class cct.grid.ui.gaussian.SubmitGaussianDialogNew extends javax.swing.JDialog implements Serializable

Serialized Fields

MainPanel

javax.swing.JPanel MainPanel

borderLayout1

java.awt.BorderLayout borderLayout1

submitGaussianPanel

SubmitGaussianPanel submitGaussianPanel

ButtonPanel

javax.swing.JPanel ButtonPanel

Cancel_Button

javax.swing.JButton Cancel_Button

Submit_Button

javax.swing.JButton Submit_Button

providerComboBox

javax.swing.JComboBox providerComboBox

providerPanel

javax.swing.JPanel providerPanel

flowLayout1

java.awt.FlowLayout flowLayout1

providerLabel

javax.swing.JLabel providerLabel

progressDialog

ProgressDialog progressDialog

taskType

int taskType

allProviders

java.util.LinkedHashMap<K,V> allProviders

jobOutput

JobOutputInterface jobOutput

cardPanel

javax.swing.JPanel cardPanel

comboPanel

javax.swing.JPanel comboPanel

flowLayout2

java.awt.FlowLayout flowLayout2

borderLayout2

java.awt.BorderLayout borderLayout2

cardLayout1

java.awt.CardLayout cardLayout1

schedulerLabel

javax.swing.JLabel schedulerLabel

schedulerComboBox

javax.swing.JComboBox schedulerComboBox

resourcesPanel

ResourcesPanel resourcesPanel

topPanel

javax.swing.JPanel topPanel

borderLayout3

java.awt.BorderLayout borderLayout3

pbsPanel

PBSPanel pbsPanel

border1

javax.swing.border.Border border1

border2

javax.swing.border.Border border2

submitWithEditButton

javax.swing.JButton submitWithEditButton

editScriptDialog

EditScriptDialog editScriptDialog

Class cct.grid.ui.gaussian.SubmitGaussianDialogVERYOLD extends java.lang.Object implements Serializable

Class cct.grid.ui.gaussian.SubmitGaussianFrame extends javax.swing.JFrame implements Serializable

Serialized Fields

contentPane

javax.swing.JPanel contentPane

borderLayout1

java.awt.BorderLayout borderLayout1

jMenuBar1

javax.swing.JMenuBar jMenuBar1

jMenuFile

javax.swing.JMenu jMenuFile

jMenuFileExit

javax.swing.JMenuItem jMenuFileExit

jMenuHelp

javax.swing.JMenu jMenuHelp

jMenuHelpAbout

javax.swing.JMenuItem jMenuHelpAbout

jToolBar

javax.swing.JToolBar jToolBar

jButton1

javax.swing.JButton jButton1

jButton2

javax.swing.JButton jButton2

jButton3

javax.swing.JButton jButton3

image1

javax.swing.ImageIcon image1

image2

javax.swing.ImageIcon image2

image3

javax.swing.ImageIcon image3

statusBar

javax.swing.JLabel statusBar

mainPanel

javax.swing.JPanel mainPanel

borderLayout2

java.awt.BorderLayout borderLayout2

submitGaussPanel1

SubmitGaussPanel submitGaussPanel1

jPanel1

javax.swing.JPanel jPanel1

submitButton

javax.swing.JButton submitButton

Class cct.grid.ui.gaussian.SubmitGaussianFrame_AboutBox extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

panel2

javax.swing.JPanel panel2

insetsPanel1

javax.swing.JPanel insetsPanel1

insetsPanel2

javax.swing.JPanel insetsPanel2

insetsPanel3

javax.swing.JPanel insetsPanel3

button1

javax.swing.JButton button1

imageLabel

javax.swing.JLabel imageLabel

label1

javax.swing.JLabel label1

label2

javax.swing.JLabel label2

label3

javax.swing.JLabel label3

label4

javax.swing.JLabel label4

image1

javax.swing.ImageIcon image1

borderLayout1

java.awt.BorderLayout borderLayout1

borderLayout2

java.awt.BorderLayout borderLayout2

flowLayout1

java.awt.FlowLayout flowLayout1

gridLayout1

java.awt.GridLayout gridLayout1

product

java.lang.String product

version

java.lang.String version

copyright

java.lang.String copyright

comments

java.lang.String comments

jLabel1

javax.swing.JLabel jLabel1

Class cct.grid.ui.gaussian.SubmitGaussianPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

gaussianInputParser

Gaussian gaussianInputParser

remoteFileChooser

FileChooserInterface remoteFileChooser

remoteDirectory

java.lang.String remoteDirectory

prefs

java.util.prefs.Preferences prefs

scriptEditorFrame

cct.grid.ui.gaussian.SubmitGaussianPanel.ScriptEditorFrame scriptEditorFrame

Resources

ResourcesProviderInterface Resources

Provider

GridProviderInterface Provider

ScriptLabel

javax.swing.JLabel ScriptLabel

ScriptTextField

javax.swing.JTextField ScriptTextField

InputCheckBox

javax.swing.JCheckBox InputCheckBox

inputButton

javax.swing.JButton inputButton

remoteDirButton

javax.swing.JButton remoteDirButton

executableButton

javax.swing.JButton executableButton

localDirButton

javax.swing.JButton localDirButton

editScriptButton

javax.swing.JButton editScriptButton

RemoteDirLabel

javax.swing.JLabel RemoteDirLabel

RemoteDirTextField

javax.swing.JTextField RemoteDirTextField

LocalDirLabel

javax.swing.JLabel LocalDirLabel

LocalDirTextField

javax.swing.JTextField LocalDirTextField

StderrLabel

javax.swing.JLabel StderrLabel

executableLabel

javax.swing.JLabel executableLabel

StderrTextField

javax.swing.JTextField StderrTextField

executableTextField

javax.swing.JTextField executableTextField

StdoutLabel

javax.swing.JLabel StdoutLabel

StdoutTextField

javax.swing.JTextField StdoutTextField

StderrCheckBox

javax.swing.JCheckBox StderrCheckBox

StdoutCheckBox

javax.swing.JCheckBox StdoutCheckBox

StdoutButton

javax.swing.JButton StdoutButton

StderrButton

javax.swing.JButton StderrButton

OutputFileTextField

javax.swing.JTextField OutputFileTextField

OutputFileLabel

javax.swing.JLabel OutputFileLabel

jobNameLabel

javax.swing.JLabel jobNameLabel

jobNameTextField

javax.swing.JTextField jobNameTextField

inputFileLabel

javax.swing.JLabel inputFileLabel

inputFileTextField

javax.swing.JTextField inputFileTextField

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

Class cct.grid.ui.gaussian.SubmitGaussPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

gatekeeperPanel1

cct.globus.ui.GatekeeperPanel gatekeeperPanel1

pBS_Panel1

PBS_Panel pBS_Panel1

submitGaussianPanel1

SubmitGaussianPanel submitGaussianPanel1

Package cct.help

Class cct.help.HelpPanel extends javax.swing.JScrollPane implements Serializable

Serialized Fields

editorPane

javax.swing.JEditorPane editorPane

Package cct.j3d

Class cct.j3d.AppearanceSetup extends javax.swing.JFrame implements Serializable

Serialized Fields

univ

com.sun.j3d.utils.universe.SimpleUniverse univ

scene

javax.media.j3d.BranchGroup scene

drawingPanel

javax.swing.JPanel drawingPanel

Class cct.j3d.PopupPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

jLabel

javax.swing.JLabel jLabel

jPanel1

javax.swing.JPanel jPanel1

Class cct.j3d.RenderingObject extends java.util.EventObject implements Serializable

Class cct.j3d.SimpleRenderer extends javax.swing.JFrame implements Serializable

Serialized Fields

canvas3D

javax.media.j3d.Canvas3D canvas3D

java3dUniverse

Java3dUniverse java3dUniverse

contentPane

javax.swing.JPanel contentPane

borderLayout1

java.awt.BorderLayout borderLayout1

Package cct.j3d.ui

Class cct.j3d.ui.ColorGradientPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

fontMetrics

java.awt.FontMetrics fontMetrics

fMin

float fMin

fMax

float fMax

Colors

java.util.ArrayList<E> Colors

charWidth

int[] charWidth

stupidBool

boolean stupidBool

borderLayout1

java.awt.BorderLayout borderLayout1

Class cct.j3d.ui.ControlColorGradientPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

colorGradientPanel1

ColorGradientPanel colorGradientPanel1

jPanel1

javax.swing.JPanel jPanel1

jPanel2

javax.swing.JPanel jPanel2

maxClipTextField

javax.swing.JTextField maxClipTextField

minClipTextField

javax.swing.JTextField minClipTextField

jLabel1

javax.swing.JLabel jLabel1

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

minMaxInfoLabel

javax.swing.JLabel minMaxInfoLabel

flowLayout1

java.awt.FlowLayout flowLayout1

stupidBool

boolean stupidBool

borderLayout2

java.awt.BorderLayout borderLayout2

gridBagLayout2

java.awt.GridBagLayout gridBagLayout2

Mapper

MappedSurfaceInterface Mapper

ColorRange

ColorRangeScheme ColorRange

clipMin

float clipMin

clipMax

float clipMax

Class cct.j3d.ui.GraphicsObjectPropertiesFrame extends javax.swing.JFrame implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

jSplitPane1

javax.swing.JSplitPane jSplitPane1

leftScrollPane

javax.swing.JScrollPane leftScrollPane

rightScrollPane

javax.swing.JScrollPane rightScrollPane

gObjectTree

javax.swing.JTree gObjectTree

emptyPanel

javax.swing.JPanel emptyPanel

referenceTable

java.util.HashMap<K,V> referenceTable

goReferenceTable

java.util.HashMap<K,V> goReferenceTable

parentReferenceTable

java.util.HashMap<K,V> parentReferenceTable

jPanel1

javax.swing.JPanel jPanel1

borderLayout2

java.awt.BorderLayout borderLayout2

jPanel2

javax.swing.JPanel jPanel2

deleteObject

javax.swing.ImageIcon deleteObject

deleteButton

javax.swing.JButton deleteButton

flowLayout1

java.awt.FlowLayout flowLayout1

graphicsObjects

java.util.ArrayList<E> graphicsObjects

showSelectedOnlyCheckBox

javax.swing.JCheckBox showSelectedOnlyCheckBox

buttonPanel

javax.swing.JPanel buttonPanel

hideButton

javax.swing.JButton hideButton

helpButton

javax.swing.JButton helpButton

Class cct.j3d.ui.VertexObjectsDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

buttonPanel

javax.swing.JPanel buttonPanel

surfacesList

javax.swing.JList surfacesList

cancelButton

javax.swing.JButton cancelButton

okButton

javax.swing.JButton okButton

gObjectTree

javax.swing.JTree gObjectTree

leftScrollPane

javax.swing.JScrollPane leftScrollPane

referenceTable

java.util.HashMap<K,V> referenceTable

goReferenceTable

java.util.HashMap<K,V> goReferenceTable

parentReferenceTable

java.util.HashMap<K,V> parentReferenceTable

okPressed

boolean okPressed

graphicsObjects

java.util.ArrayList<E> graphicsObjects

Class cct.j3d.ui.VerticesPropertyPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

jLabel1

javax.swing.JLabel jLabel1

mainPanel

javax.swing.JPanel mainPanel

renderingComboBox

javax.swing.JComboBox renderingComboBox

opaqueCheckBox

javax.swing.JCheckBox opaqueCheckBox

jPanel2

javax.swing.JPanel jPanel2

transparencyPanel

javax.swing.JPanel transparencyPanel

borderLayout2

java.awt.BorderLayout borderLayout2

jPanel1

javax.swing.JPanel jPanel1

jPanel4

javax.swing.JPanel jPanel4

transpComboBox

javax.swing.JComboBox transpComboBox

jLabel3

javax.swing.JLabel jLabel3

borderLayout3

java.awt.BorderLayout borderLayout3

flowLayout2

java.awt.FlowLayout flowLayout2

opacitySlider

javax.swing.JSlider opacitySlider

borderLayout4

java.awt.BorderLayout borderLayout4

visibleCheckBox

javax.swing.JCheckBox visibleCheckBox

App

javax.media.j3d.Appearance App

Shape3d

javax.media.j3d.Shape3D Shape3d

vObject

VerticesObject vObject

shape3d_Parent

java.lang.Object shape3d_Parent

grandParent

java.lang.Object grandParent

diffuseColorStore

javax.vecmath.Color3f diffuseColorStore

black

javax.vecmath.Color3f black

shininessStore

float shininessStore

jPanel3

javax.swing.JPanel jPanel3

jLabel5

javax.swing.JLabel jLabel5

jLabel6

javax.swing.JLabel jLabel6

borderLayout5

java.awt.BorderLayout borderLayout5

shininessPanel

javax.swing.JPanel shininessPanel

topPanel

javax.swing.JPanel topPanel

borderLayout6

java.awt.BorderLayout borderLayout6

flowLayout1

java.awt.FlowLayout flowLayout1

shininessSlider

javax.swing.JSlider shininessSlider

jPanel5

javax.swing.JPanel jPanel5

jLabel2

javax.swing.JLabel jLabel2

jLabel4

javax.swing.JLabel jLabel4

borderLayout7

java.awt.BorderLayout borderLayout7

borderLayout8

java.awt.BorderLayout borderLayout8

controlColorGradientPanel1

ControlColorGradientPanel controlColorGradientPanel1

border1

javax.swing.border.Border border1

border2

javax.swing.border.Border border2

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

Package cct.modelling

Class cct.modelling.BondsArray extends java.util.ArrayList implements Serializable

Class cct.modelling.MolecularGeometry extends java.util.ArrayList implements Serializable

Serialized Fields

Name

java.lang.String Name

Remark

java.lang.String Remark

Class cct.modelling.Monomer extends java.util.ArrayList implements Serializable

Serialized Fields

name

java.lang.String name

Package cct.modelling.ui

Class cct.modelling.ui.EditAndPasteCoordFrame extends javax.swing.JFrame implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

jPanel1

javax.swing.JPanel jPanel1

jPanel2

javax.swing.JPanel jPanel2

jScrollPane1

javax.swing.JScrollPane jScrollPane1

formatsPanel

javax.swing.JPanel formatsPanel

borderLayout2

java.awt.BorderLayout borderLayout2

coordTextArea

javax.swing.JTextArea coordTextArea

cancelButton

javax.swing.JButton cancelButton

jRadioButton1

javax.swing.JRadioButton jRadioButton1

flowLayout1

java.awt.FlowLayout flowLayout1

buttonGroup

javax.swing.ButtonGroup buttonGroup

okButton

javax.swing.JButton okButton

java3dUniverse

Java3dUniverse java3dUniverse

selectedBuilder

java.lang.String selectedBuilder

defaultFileName

java.lang.String defaultFileName

jMenuBar1

javax.swing.JMenuBar jMenuBar1

jMenu1

javax.swing.JMenu jMenu1

jMenuItem1

javax.swing.JMenuItem jMenuItem1

jMenuItem2

javax.swing.JMenuItem jMenuItem2

validateButton

javax.swing.JButton validateButton

refTable

java.util.HashMap<K,V> refTable

Class cct.modelling.ui.EditAndSaveCoordDialog extends javax.swing.JFrame implements Serializable

Serialized Fields

jPanel1

javax.swing.JPanel jPanel1

jPanel2

javax.swing.JPanel jPanel2

jScrollPane1

javax.swing.JScrollPane jScrollPane1

coordTextArea

javax.swing.JTextArea coordTextArea

cancelButton

javax.swing.JButton cancelButton

jRadioButton1

javax.swing.JRadioButton jRadioButton1

formatsPanel

javax.swing.JPanel formatsPanel

borderLayout3

java.awt.BorderLayout borderLayout3

okButton

javax.swing.JButton okButton

buttonGroup

javax.swing.ButtonGroup buttonGroup

jRadioButton2

javax.swing.JRadioButton jRadioButton2

flowLayout1

java.awt.FlowLayout flowLayout1

molecule

MoleculeInterface molecule

selectedBuilder

java.lang.String selectedBuilder

jMenuBar1

javax.swing.JMenuBar jMenuBar1

jMenu1

javax.swing.JMenu jMenu1

jMenuItem1

javax.swing.JMenuItem jMenuItem1

jMenuItem2

javax.swing.JMenuItem jMenuItem2

defaultFileName

java.lang.String defaultFileName

jPanel3

javax.swing.JPanel jPanel3

borderLayout2

java.awt.BorderLayout borderLayout2

flowLayout2

java.awt.FlowLayout flowLayout2

Class cct.modelling.ui.JSetupEnergyDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

forceFields

ForceFieldInterface[] forceFields

minimizers

MinimizerInterface[] minimizers

okPressed

boolean okPressed

energySetupTab

int energySetupTab

minimizationSetupTab

int minimizationSetupTab

nbCutoff

float nbCutoff

jTabbedPane1

javax.swing.JTabbedPane jTabbedPane1

energyPanel

javax.swing.JPanel energyPanel

jLabel1

javax.swing.JLabel jLabel1

forceFieldComboBox

javax.swing.JComboBox forceFieldComboBox

jLabel2

javax.swing.JLabel jLabel2

nbCutoffTextField

javax.swing.JFormattedTextField nbCutoffTextField

nbCutoffCheckBox

javax.swing.JCheckBox nbCutoffCheckBox

jLabel3

javax.swing.JLabel jLabel3

vdw14TextField

javax.swing.JTextField vdw14TextField

jLabel4

javax.swing.JLabel jLabel4

els14TextField

javax.swing.JTextField els14TextField

calculateElsCheckBox

javax.swing.JCheckBox calculateElsCheckBox

jLabel5

javax.swing.JLabel jLabel5

dielFuncComboBox

javax.swing.JComboBox dielFuncComboBox

jLabel6

javax.swing.JLabel jLabel6

dielConstTextField

javax.swing.JTextField dielConstTextField

ignoreAtomsCheckBox

javax.swing.JCheckBox ignoreAtomsCheckBox

setupIgnoreAtomsButton

javax.swing.JButton setupIgnoreAtomsButton

constraintsCheckBox

javax.swing.JCheckBox constraintsCheckBox

setupConstraintsButton

javax.swing.JButton setupConstraintsButton

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

jPanel3

javax.swing.JPanel jPanel3

CalcButton

javax.swing.JButton CalcButton

cancelButton

javax.swing.JButton cancelButton

helpButton

javax.swing.JButton helpButton

minPanel

javax.swing.JPanel minPanel

jLabel7

javax.swing.JLabel jLabel7

minimizersComboBox

javax.swing.JComboBox minimizersComboBox

minimizationPanel

javax.swing.JPanel minimizationPanel

jCheckBox1

javax.swing.JCheckBox jCheckBox1

jTextField1

javax.swing.JTextField jTextField1

jLabel9

javax.swing.JLabel jLabel9

border1

javax.swing.border.Border border1

border2

javax.swing.border.Border border2

maxGradCheckBox

javax.swing.JCheckBox maxGradCheckBox

maxGradTextField

javax.swing.JTextField maxGradTextField

jLabel10

javax.swing.JLabel jLabel10

jLabel8

javax.swing.JLabel jLabel8

jPanel4

javax.swing.JPanel jPanel4

borderLayout1

java.awt.BorderLayout borderLayout1

flowLayout1

java.awt.FlowLayout flowLayout1

maxIterTextField

javax.swing.JTextField maxIterTextField

jPanel5

javax.swing.JPanel jPanel5

jLabel12

javax.swing.JLabel jLabel12

flowLayout2

java.awt.FlowLayout flowLayout2

refreshRateTextField

javax.swing.JSpinner refreshRateTextField

gridBagLayout2

java.awt.GridBagLayout gridBagLayout2

maxGRMSCheckBox

javax.swing.JCheckBox maxGRMSCheckBox

maxGRSMTextField

javax.swing.JTextField maxGRSMTextField

jLabel13

javax.swing.JLabel jLabel13

Class cct.modelling.ui.MinimizationProgressDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

progressLabel

javax.swing.JLabel progressLabel

cancelButton

javax.swing.JButton cancelButton

jPanel1

javax.swing.JPanel jPanel1

Class cct.modelling.ui.VibrationsControlFrame extends javax.swing.JFrame implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

jPanel1

javax.swing.JPanel jPanel1

vibrationsControlPanel1

VibrationsControlPanel vibrationsControlPanel1

helpButton

javax.swing.JButton helpButton

hideButton

javax.swing.JButton hideButton

Class cct.modelling.ui.VibrationsControlPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

tablePanel

javax.swing.JPanel tablePanel

jScrollPane1

javax.swing.JScrollPane jScrollPane1

jTable1

javax.swing.JTable jTable1

buttonPanel

javax.swing.JPanel buttonPanel

controlsPanel

javax.swing.JPanel controlsPanel

spectrumButton

javax.swing.JButton spectrumButton

displacementPanel

javax.swing.JPanel displacementPanel

displacementSlider

javax.swing.JSlider displacementSlider

speedPanel

javax.swing.JPanel speedPanel

speedSlider

javax.swing.JSlider speedSlider

jPanel1

javax.swing.JPanel jPanel1

borderLayout2

java.awt.BorderLayout borderLayout2

borderLayout4

java.awt.BorderLayout borderLayout4

borderLayout5

java.awt.BorderLayout borderLayout5

jPanel2

javax.swing.JPanel jPanel2

animateCheckBox

javax.swing.JCheckBox animateCheckBox

borderLayout6

java.awt.BorderLayout borderLayout6

showVectorsCheckBox

javax.swing.JCheckBox showVectorsCheckBox

flowLayout1

java.awt.FlowLayout flowLayout1

spectrumComboBox

javax.swing.JComboBox spectrumComboBox

borderLayout7

java.awt.BorderLayout borderLayout7

outputResultsInterface

OutputResultsInterface outputResultsInterface

vibrationsRendererProvider

VibrationsRendererProvider vibrationsRendererProvider

previouslySelectedRow

int previouslySelectedRow

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

speedLabelTable

java.util.Hashtable<K,V> speedLabelTable

displLabelTable

java.util.Hashtable<K,V> displLabelTable

spectra

VIBRATIONAL_SPECTRUM[] spectra

Package cct.oogl.ui

Class cct.oogl.ui.OOGLViewerFrame extends javax.swing.JFrame implements Serializable

Serialized Fields

contentPane

javax.swing.JPanel contentPane

borderLayout1

java.awt.BorderLayout borderLayout1

jMenuBar1

javax.swing.JMenuBar jMenuBar1

jMenuFile

javax.swing.JMenu jMenuFile

jMenuFileExit

javax.swing.JMenuItem jMenuFileExit

jMenuHelp

javax.swing.JMenu jMenuHelp

jMenuHelpAbout

javax.swing.JMenuItem jMenuHelpAbout

jToolBar

javax.swing.JToolBar jToolBar

jButton1

javax.swing.JButton jButton1

jButton2

javax.swing.JButton jButton2

jButton3

javax.swing.JButton jButton3

image1

javax.swing.ImageIcon image1

image2

javax.swing.ImageIcon image2

image3

javax.swing.ImageIcon image3

statusBar

javax.swing.JLabel statusBar

Class cct.oogl.ui.OOGLViewerFrame_AboutBox extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

panel2

javax.swing.JPanel panel2

insetsPanel1

javax.swing.JPanel insetsPanel1

insetsPanel2

javax.swing.JPanel insetsPanel2

insetsPanel3

javax.swing.JPanel insetsPanel3

button1

javax.swing.JButton button1

imageLabel

javax.swing.JLabel imageLabel

label1

javax.swing.JLabel label1

label2

javax.swing.JLabel label2

label3

javax.swing.JLabel label3

label4

javax.swing.JLabel label4

image1

javax.swing.ImageIcon image1

borderLayout1

java.awt.BorderLayout borderLayout1

borderLayout2

java.awt.BorderLayout borderLayout2

flowLayout1

java.awt.FlowLayout flowLayout1

gridLayout1

java.awt.GridLayout gridLayout1

product

java.lang.String product

version

java.lang.String version

copyright

java.lang.String copyright

comments

java.lang.String comments

Package cct.pdb.ui

Class cct.pdb.ui.PDBBankFormPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

jLabel1

javax.swing.JLabel jLabel1

pdbCodeTextField

javax.swing.JTextField pdbCodeTextField

jLabel2

javax.swing.JLabel jLabel2

hostsComboBox

javax.swing.JComboBox hostsComboBox

jLabel3

javax.swing.JLabel jLabel3

entryDirTextField

javax.swing.JTextField entryDirTextField

controlsPanel

javax.swing.JPanel controlsPanel

borderLayout1

java.awt.BorderLayout borderLayout1

removeHostButton

javax.swing.JButton removeHostButton

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

Class cct.pdb.ui.PDBFormFrame extends javax.swing.JFrame implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

pDBBankFormPanel1

PDBBankFormPanel pDBBankFormPanel1

jPanel1

javax.swing.JPanel jPanel1

jPanel2

javax.swing.JPanel jPanel2

jPanel3

javax.swing.JPanel jPanel3

borderLayout2

java.awt.BorderLayout borderLayout2

helpButton

javax.swing.JButton helpButton

cancelButton

javax.swing.JButton cancelButton

fetchButton

javax.swing.JButton fetchButton

hideCheckBox

javax.swing.JCheckBox hideCheckBox

flowLayout1

java.awt.FlowLayout flowLayout1

Fetcher

PDBBankFetcherInterface Fetcher

Package cct.poly

Class cct.poly.CENTERLIST extends java.util.ArrayList implements Serializable

Class cct.poly.CORNERLIST extends java.util.ArrayList implements Serializable

Class cct.poly.EDGELIST extends java.util.ArrayList implements Serializable

Class cct.poly.INTLIST extends java.util.ArrayList implements Serializable

Class cct.poly.INTLISTS extends java.util.ArrayList implements Serializable

Package cct.siesta.ui

Class cct.siesta.ui.SaveSiestaInputDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

siestaPanel1

SiestaPanel siestaPanel1

jPanel1

javax.swing.JPanel jPanel1

cancelButton

javax.swing.JButton cancelButton

validateButton

javax.swing.JButton validateButton

okButton

javax.swing.JButton okButton

saveEditButton

javax.swing.JButton saveEditButton

Class cct.siesta.ui.SiestaPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

aFormat

java.text.NumberFormat aFormat

bFormat

java.text.NumberFormat bFormat

cFormat

java.text.NumberFormat cFormat

alphaFormat

java.text.NumberFormat alphaFormat

betaFormat

java.text.NumberFormat betaFormat

gammaFormat

java.text.NumberFormat gammaFormat

lcConst

java.text.NumberFormat lcConst

borderLayout1

java.awt.BorderLayout borderLayout1

mainPanel

javax.swing.JPanel mainPanel

borderLayout2

java.awt.BorderLayout borderLayout2

jPanel1

javax.swing.JPanel jPanel1

jPanel2

javax.swing.JPanel jPanel2

jPanel3

javax.swing.JPanel jPanel3

borderLayout3

java.awt.BorderLayout borderLayout3

jLabel1

javax.swing.JLabel jLabel1

flowLayout1

java.awt.FlowLayout flowLayout1

jLabel2

javax.swing.JLabel jLabel2

flowLayout2

java.awt.FlowLayout flowLayout2

systemNameTextField

javax.swing.JTextField systemNameTextField

systemLabelTextField

javax.swing.JTextField systemLabelTextField

speciesPanel

javax.swing.JPanel speciesPanel

jScrollPane1

javax.swing.JScrollPane jScrollPane1

speciesTextArea

javax.swing.JTextArea speciesTextArea

borderLayout4

java.awt.BorderLayout borderLayout4

coordPanel

javax.swing.JPanel coordPanel

jScrollPane2

javax.swing.JScrollPane jScrollPane2

coordTextArea

javax.swing.JTextArea coordTextArea

borderLayout5

java.awt.BorderLayout borderLayout5

jTabbedPane1

javax.swing.JTabbedPane jTabbedPane1

otherPanel

javax.swing.JPanel otherPanel

jScrollPane3

javax.swing.JScrollPane jScrollPane3

otherTextArea

javax.swing.JTextArea otherTextArea

borderLayout6

java.awt.BorderLayout borderLayout6

jPanel4

javax.swing.JPanel jPanel4

borderLayout7

java.awt.BorderLayout borderLayout7

jPanel5

javax.swing.JPanel jPanel5

borderLayout8

java.awt.BorderLayout borderLayout8

jPanel6

javax.swing.JPanel jPanel6

latticePanel

javax.swing.JPanel latticePanel

borderLayout9

java.awt.BorderLayout borderLayout9

jLabel3

javax.swing.JLabel jLabel3

jLabel4

javax.swing.JLabel jLabel4

latticeConstantTextField

javax.swing.JFormattedTextField latticeConstantTextField

formatComboBox

javax.swing.JComboBox formatComboBox

jLabel6

javax.swing.JLabel jLabel6

jLabel7

javax.swing.JLabel jLabel7

jLabel8

javax.swing.JLabel jLabel8

jLabel9

javax.swing.JLabel jLabel9

jLabel10

javax.swing.JLabel jLabel10

betaTextField

javax.swing.JFormattedTextField betaTextField

alphaTextField

javax.swing.JFormattedTextField alphaTextField

cTextField

javax.swing.JFormattedTextField cTextField

bTextField

javax.swing.JFormattedTextField bTextField

aTextField

javax.swing.JFormattedTextField aTextField

gammaTextField

javax.swing.JFormattedTextField gammaTextField

jPanel7

javax.swing.JPanel jPanel7

auxPanel

javax.swing.JPanel auxPanel

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

jLabel11

javax.swing.JLabel jLabel11

gridBagLayout2

java.awt.GridBagLayout gridBagLayout2

molecule

MoleculeInterface molecule

prefs

java.util.prefs.Preferences prefs

atomicCoordinatesFormat

AtomicCoordinatesFormat atomicCoordinatesFormat

siestaInput

SiestaInput siestaInput

defaultFileName

java.lang.String defaultFileName

j3d

Java3dUniverse j3d

centerMolButton

javax.swing.JButton centerMolButton

flowLayout3

java.awt.FlowLayout flowLayout3

Package cct.ssh

Class cct.ssh.SSHPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

jLabel1

javax.swing.JLabel jLabel1

hostComboBox

javax.swing.JComboBox hostComboBox

jLabel2

javax.swing.JLabel jLabel2

userComboBox

javax.swing.JComboBox userComboBox

connectButton

javax.swing.JButton connectButton

fileChooserDialog

FileChooserDialog fileChooserDialog

userPrefs

java.util.prefs.Preferences userPrefs

hosts

java.util.HashSet<E> hosts

users

java.util.HashSet<E> users

sshClients

java.util.HashMap<K,V> sshClients

removeHostButton

javax.swing.JButton removeHostButton

jTextField1

javax.swing.JTextField jTextField1

jLabel3

javax.swing.JLabel jLabel3

removeUserButton

javax.swing.JButton removeUserButton

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

Package cct.tools

Class cct.tools.MemoryMonitor extends javax.swing.JPanel implements Serializable

Serialized Fields

surf

MemoryMonitor.Surface surf

controls

javax.swing.JPanel controls

doControls

boolean doControls

tf

javax.swing.JTextField tf

Class cct.tools.MemoryMonitor.Surface extends javax.swing.JPanel implements Serializable

Serialized Fields

thread

java.lang.Thread thread

sleepAmount

long sleepAmount

w

int w

h

int h

bimg

java.awt.image.BufferedImage bimg

big

java.awt.Graphics2D big

font

java.awt.Font font

r

java.lang.Runtime r

columnInc

int columnInc

pts

int[] pts

ptNum

int ptNum

ascent

int ascent

descent

int descent

freeMemory

float freeMemory

totalMemory

float totalMemory

graphOutlineRect

java.awt.Rectangle graphOutlineRect

mfRect

java.awt.geom.Rectangle2D mfRect

muRect

java.awt.geom.Rectangle2D muRect

graphLine

java.awt.geom.Line2D graphLine

graphColor

java.awt.Color graphColor

mfColor

java.awt.Color mfColor

usedStr

java.lang.String usedStr

Class cct.tools.UserPasswordDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

OKpressed

boolean OKpressed

panel1

javax.swing.JPanel panel1

buttonPanel

javax.swing.JPanel buttonPanel

borderLayout2

java.awt.BorderLayout borderLayout2

cancelButton

javax.swing.JButton cancelButton

okButton

javax.swing.JButton okButton

jLabel1

javax.swing.JLabel jLabel1

userTextField

javax.swing.JTextField userTextField

jPasswordField1

javax.swing.JPasswordField jPasswordField1

jLabel2

javax.swing.JLabel jLabel2

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

messageLabel

javax.swing.JLabel messageLabel

Package cct.tools.filebrowser

Class cct.tools.filebrowser.ConfirmFileOverwriteDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

buttonPressed

int buttonPressed

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

topLabel

javax.swing.JLabel topLabel

buttonsPanel

javax.swing.JPanel buttonsPanel

cancelButton

javax.swing.JButton cancelButton

notoallButton

javax.swing.JButton notoallButton

noButton

javax.swing.JButton noButton

yestoallButton

javax.swing.JButton yestoallButton

yesButton

javax.swing.JButton yesButton

jPanel1

javax.swing.JPanel jPanel1

jPanel2

javax.swing.JPanel jPanel2

jLabel2

javax.swing.JLabel jLabel2

jLabel3

javax.swing.JLabel jLabel3

existingSize

javax.swing.JLabel existingSize

existingModification

javax.swing.JLabel existingModification

jLabel4

javax.swing.JLabel jLabel4

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

jPanel3

javax.swing.JPanel jPanel3

jLabel1

javax.swing.JLabel jLabel1

jLabel5

javax.swing.JLabel jLabel5

jLabel6

javax.swing.JLabel jLabel6

gridBagLayout2

java.awt.GridBagLayout gridBagLayout2

gridBagLayout3

java.awt.GridBagLayout gridBagLayout3

jPanel4

javax.swing.JPanel jPanel4

fileNameLabel

javax.swing.JLabel fileNameLabel

jLabel8

javax.swing.JLabel jLabel8

folderLabel

javax.swing.JLabel folderLabel

flowLayout1

java.awt.FlowLayout flowLayout1

candidateSize

javax.swing.JLabel candidateSize

candidateModification

javax.swing.JLabel candidateModification

Class cct.tools.filebrowser.ConnectHostDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

keyPressed

int keyPressed

portNumber

int portNumber

buttonPanel

javax.swing.JPanel buttonPanel

helpButton

javax.swing.JButton helpButton

cancelButton

javax.swing.JButton cancelButton

connectButton

javax.swing.JButton connectButton

jPanel2

javax.swing.JPanel jPanel2

borderLayout1

java.awt.BorderLayout borderLayout1

jLabel1

javax.swing.JLabel jLabel1

portTextField

javax.swing.JTextField portTextField

jLabel2

javax.swing.JLabel jLabel2

jLabel3

javax.swing.JLabel jLabel3

hostLabel

javax.swing.JLabel hostLabel

passwordTextField

javax.swing.JPasswordField passwordTextField

userTextField

javax.swing.JTextField userTextField

hostTextField

javax.swing.JTextField hostTextField

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

Class cct.tools.filebrowser.EditHostsDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

okPressed

boolean okPressed

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

jScrollPane1

javax.swing.JScrollPane jScrollPane1

jPanel1

javax.swing.JPanel jPanel1

hostsList

javax.swing.JList hostsList

cancelButton

javax.swing.JButton cancelButton

removeButton

javax.swing.JButton removeButton

Class cct.tools.filebrowser.FileBrowserPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

fileBrowser

FileBrowserInterface fileBrowser

browserIsBusy

boolean browserIsBusy

titles

java.lang.Object[] titles

data

java.lang.Object[][] data

table

javax.swing.JTable table

borderLayout1

java.awt.BorderLayout borderLayout1

fileScrollPane

javax.swing.JScrollPane fileScrollPane

controlsPanel

javax.swing.JPanel controlsPanel

upButton

javax.swing.JButton upButton

jComboBox1

javax.swing.JComboBox jComboBox1

refreshButton

javax.swing.JButton refreshButton

currentComponent

java.awt.Component currentComponent

up

javax.swing.ImageIcon up

refresh

javax.swing.ImageIcon refresh

createFolder

javax.swing.ImageIcon createFolder

delete

javax.swing.ImageIcon delete

help

javax.swing.ImageIcon help

arrowUp

javax.swing.ImageIcon arrowUp

arrowDown

javax.swing.ImageIcon arrowDown

flowLayout1

java.awt.FlowLayout flowLayout1

mkdirButton

javax.swing.JButton mkdirButton

deleteButton

javax.swing.JButton deleteButton

helpButton

javax.swing.JButton helpButton

downloadButton

javax.swing.JButton downloadButton

uploadButton

javax.swing.JButton uploadButton

Class cct.tools.filebrowser.FileBrowserTableModel extends javax.swing.table.AbstractTableModel implements Serializable

Serialized Fields

columnNames

java.lang.String[] columnNames

DEBUG

boolean DEBUG

data

java.lang.Object[][] data

Class cct.tools.filebrowser.FileChooserDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

keyPressed

int keyPressed

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

jFileBrowserPanel1

FileBrowserPanel jFileBrowserPanel1

cancelButton

javax.swing.JButton cancelButton

jPanel1

javax.swing.JPanel jPanel1

confirmButton

javax.swing.JButton confirmButton

Class cct.tools.filebrowser.FilePropertiesDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

keyPressed

int keyPressed

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

fileProperties

FilePropertiesPanel fileProperties

buttonPanel

javax.swing.JPanel buttonPanel

jButton1

javax.swing.JButton jButton1

jButton2

javax.swing.JButton jButton2

setButton

javax.swing.JButton setButton

Class cct.tools.filebrowser.FilePropertiesPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

topPanel

javax.swing.JPanel topPanel

centralPanel

javax.swing.JPanel centralPanel

emptyLabel

javax.swing.JLabel emptyLabel

fileNameLabel

javax.swing.JLabel fileNameLabel

permissionPanel

javax.swing.JPanel permissionPanel

infoPanel

javax.swing.JPanel infoPanel

borderLayout2

java.awt.BorderLayout borderLayout2

fileModifiedLabel

javax.swing.JLabel fileModifiedLabel

modifiedLabel

javax.swing.JLabel modifiedLabel

fileSizeLabel

javax.swing.JLabel fileSizeLabel

sizeLabel

javax.swing.JLabel sizeLabel

fileLocationLabel

javax.swing.JLabel fileLocationLabel

locationLabel

javax.swing.JLabel locationLabel

fileTypeLabel

javax.swing.JLabel fileTypeLabel

typeLabel

javax.swing.JLabel typeLabel

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

flowLayout1

java.awt.FlowLayout flowLayout1

permissionsPanel1

PermissionsPanel permissionsPanel1

Class cct.tools.filebrowser.FileSize extends java.lang.Number implements Serializable

Serialized Fields

bigInt

java.math.BigInteger bigInt

Class cct.tools.filebrowser.FileTransferFrame extends javax.swing.JFrame implements Serializable

Serialized Fields

browsers

java.util.HashMap<K,V> browsers

ftpManager

FTPManagerInterface ftpManager

connectDialog

ConnectHostDialog connectDialog

borderLayout1

java.awt.BorderLayout borderLayout1

fileTransferPanel1

FileTransferPanel fileTransferPanel1

connect

javax.swing.ImageIcon connect

disconnect

javax.swing.ImageIcon disconnect

serverOK

javax.swing.ImageIcon serverOK

serverDead

javax.swing.ImageIcon serverDead

jToolBar1

javax.swing.JToolBar jToolBar1

hostsComboBox

javax.swing.JComboBox hostsComboBox

disconnectButton

javax.swing.JButton disconnectButton

connectButton

javax.swing.JButton connectButton

protocolComboBox

javax.swing.JComboBox protocolComboBox

jLabel1

javax.swing.JLabel jLabel1

jLabel2

javax.swing.JLabel jLabel2

Class cct.tools.filebrowser.FileTransferPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

jSplitPane1

javax.swing.JSplitPane jSplitPane1

jFileChooser1

javax.swing.JFileChooser jFileChooser1

jFileBrowserPanel1

FileBrowserPanel jFileBrowserPanel1

jScrollPane2

javax.swing.JScrollPane jScrollPane2

Class cct.tools.filebrowser.JFileBrowserPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

fileBrowser

FileBrowserInterface fileBrowser

titles

java.lang.Object[] titles

data

java.lang.Object[][] data

table

javax.swing.JTable table

borderLayout1

java.awt.BorderLayout borderLayout1

fileScrollPane

javax.swing.JScrollPane fileScrollPane

controlsPanel

javax.swing.JPanel controlsPanel

upButton

javax.swing.JButton upButton

jComboBox1

javax.swing.JComboBox jComboBox1

refreshButton

javax.swing.JButton refreshButton

up

javax.swing.ImageIcon up

refresh

javax.swing.ImageIcon refresh

createFolder

javax.swing.ImageIcon createFolder

delete

javax.swing.ImageIcon delete

help

javax.swing.ImageIcon help

flowLayout1

java.awt.FlowLayout flowLayout1

mkdirButton

javax.swing.JButton mkdirButton

deleteButton

javax.swing.JButton deleteButton

helpButton

javax.swing.JButton helpButton

Class cct.tools.filebrowser.PermissionsPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

permission

int permission

setBit

java.util.HashMap<K,V> setBit

zeroBit

java.util.HashMap<K,V> zeroBit

checkedToolTips

java.util.HashMap<K,V> checkedToolTips

uncheckedToolTips

java.util.HashMap<K,V> uncheckedToolTips

readLabel

javax.swing.JLabel readLabel

otherReadCheckBox

javax.swing.JCheckBox otherReadCheckBox

modeTextField

javax.swing.JTextField modeTextField

ownerReadCheckBox

javax.swing.JCheckBox ownerReadCheckBox

ownerWriteCheckBox

javax.swing.JCheckBox ownerWriteCheckBox

ownerExecuteCheckBox

javax.swing.JCheckBox ownerExecuteCheckBox

groupReadCheckBox

javax.swing.JCheckBox groupReadCheckBox

groupWriteCheckBox

javax.swing.JCheckBox groupWriteCheckBox

groupExecuteCheckBox

javax.swing.JCheckBox groupExecuteCheckBox

otherWriteCheckBox

javax.swing.JCheckBox otherWriteCheckBox

otherExecuteCheckBox

javax.swing.JCheckBox otherExecuteCheckBox

writeLabel

javax.swing.JLabel writeLabel

ownerLabel

javax.swing.JLabel ownerLabel

groupLabel

javax.swing.JLabel groupLabel

otherLabel

javax.swing.JLabel otherLabel

permissionLabel

javax.swing.JLabel permissionLabel

executeLabel

javax.swing.JLabel executeLabel

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

Class cct.tools.filebrowser.SFTPBrowserFrame extends javax.swing.JFrame implements Serializable

Serialized Fields

borderLayout1

java.awt.BorderLayout borderLayout1

jFileBrowserPanel1

JFileBrowserPanel jFileBrowserPanel1

jMenuBar1

javax.swing.JMenuBar jMenuBar1

fileMenu

javax.swing.JMenu fileMenu

jMenu1

javax.swing.JMenu jMenu1

connectMenu

javax.swing.JMenu connectMenu

exitMenuItem

javax.swing.JMenuItem exitMenuItem

jToolBar1

javax.swing.JToolBar jToolBar1

shadowManager

ShadowManagerInterface shadowManager

editHostsMenuItem

javax.swing.JMenuItem editHostsMenuItem

Class cct.tools.filebrowser.SFTPFileChooserDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

MAX

int MAX

jobCancelled

boolean jobCancelled

start_time

long start_time

totalBytes

double totalBytes

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

fileBrowserPanel1

JFileBrowserPanel fileBrowserPanel1

jPanel1

javax.swing.JPanel jPanel1

cancelButton

javax.swing.JButton cancelButton

loadButton

javax.swing.JButton loadButton

jLabel1

javax.swing.JLabel jLabel1

jLabel2

javax.swing.JLabel jLabel2

fileTextField

javax.swing.JTextField fileTextField

filterComboBox

javax.swing.JComboBox filterComboBox

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

help

javax.swing.ImageIcon help

fileFilters

FileFilterImpl[] fileFilters

loadPressed

boolean loadPressed

temporaryLocalFile

java.io.File temporaryLocalFile

browser

FileBrowserInterface browser

loadHelpButton

javax.swing.JButton loadHelpButton

fileTypesHelpButton

javax.swing.JButton fileTypesHelpButton

Class cct.tools.filebrowser.TableSorter extends javax.swing.table.AbstractTableModel implements Serializable

Serialized Fields

tableModel

javax.swing.table.TableModel tableModel

viewToModel

cct.tools.filebrowser.TableSorter.Row[] viewToModel

modelToView

int[] modelToView

tableHeader

javax.swing.table.JTableHeader tableHeader

mouseListener

java.awt.event.MouseListener mouseListener

tableModelListener

javax.swing.event.TableModelListener tableModelListener

columnComparators

java.util.Map<K,V> columnComparators

sortingColumns

java.util.List<E> sortingColumns

Class cct.tools.filebrowser.TransferProgressDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

fromLabel

javax.swing.JLabel fromLabel

ProgressBar

javax.swing.JProgressBar ProgressBar

jPanel1

javax.swing.JPanel jPanel1

cancelButton

javax.swing.JButton cancelButton

jPanel2

javax.swing.JPanel jPanel2

gridLayout1

java.awt.GridLayout gridLayout1

borderLayout1

java.awt.BorderLayout borderLayout1

timeLeftLabel

javax.swing.JLabel timeLeftLabel

toLabel

javax.swing.JLabel toLabel

Package cct.tools.ui

Class cct.tools.ui.DoubleSpinnerDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

jSpinner1

javax.swing.JSpinner jSpinner1

jPanel1

javax.swing.JPanel jPanel1

okPressed

boolean okPressed

okButton

javax.swing.JButton okButton

cancelButton

javax.swing.JButton cancelButton

Class cct.tools.ui.FileChooserDialog extends javax.swing.JFileChooser implements Serializable

Serialized Fields

Mode

int Mode

Parent

java.awt.Component Parent

Class cct.tools.ui.FontSelectorDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

fontSelectorPanel1

FontSelectorPanel fontSelectorPanel1

jPanel1

javax.swing.JPanel jPanel1

cancelButton

javax.swing.JButton cancelButton

okButton

javax.swing.JButton okButton

okPressed

boolean okPressed

Class cct.tools.ui.FontSelectorPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

styleNames

java.lang.String[] styleNames

currentColor

java.awt.Color currentColor

borderLayout1

java.awt.BorderLayout borderLayout1

colorChooser

javax.swing.JColorChooser colorChooser

jPanel1

javax.swing.JPanel jPanel1

jPanel2

javax.swing.JPanel jPanel2

jLabel1

javax.swing.JLabel jLabel1

flowLayout2

java.awt.FlowLayout flowLayout2

styleComboBox

javax.swing.JComboBox styleComboBox

jLabel2

javax.swing.JLabel jLabel2

fontComboBox

javax.swing.JComboBox fontComboBox

jLabel3

javax.swing.JLabel jLabel3

sizeSpinner

javax.swing.JSpinner sizeSpinner

fontChoice

java.lang.String fontChoice

textLabel

javax.swing.JLabel textLabel

gridLayout1

java.awt.GridLayout gridLayout1

Class cct.tools.ui.JPEGOptionsDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

jPanel2

javax.swing.JPanel jPanel2

helpButton

javax.swing.JButton helpButton

cancelButton

javax.swing.JButton cancelButton

okButton

javax.swing.JButton okButton

jPEGOptionsPanel1

JPEGOptionsPanel jPEGOptionsPanel1

okPressed

boolean okPressed

Class cct.tools.ui.JPEGOptionsPanel extends javax.swing.JPanel implements Serializable

Serialized Fields

defaultOptimizeHuffmanCode

boolean defaultOptimizeHuffmanCode

progressiveEncoding

boolean progressiveEncoding

prefs

java.util.prefs.Preferences prefs

borderLayout1

java.awt.BorderLayout borderLayout1

imageQualityPanel

javax.swing.JPanel imageQualityPanel

qualitySlider

javax.swing.JSlider qualitySlider

qualitySpinner

javax.swing.JSpinner qualitySpinner

jLabel1

javax.swing.JLabel jLabel1

jLabel2

javax.swing.JLabel jLabel2

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

jPanel1

javax.swing.JPanel jPanel1

jPanel2

javax.swing.JPanel jPanel2

jPanel3

javax.swing.JPanel jPanel3

progressiveCheckBox

javax.swing.JCheckBox progressiveCheckBox

saveCheckBox

javax.swing.JCheckBox saveCheckBox

huffmanCheckBox

javax.swing.JCheckBox huffmanCheckBox

flowLayout1

java.awt.FlowLayout flowLayout1

flowLayout2

java.awt.FlowLayout flowLayout2

Class cct.tools.ui.JShowText extends javax.swing.JFrame implements Serializable

Serialized Fields

prefs

java.util.prefs.Preferences prefs

fontSelector

FontSelectorDialog fontSelector

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

jScrollPane1

javax.swing.JScrollPane jScrollPane1

jTextArea1

javax.swing.JTextArea jTextArea1

jPanel1

javax.swing.JPanel jPanel1

actionButton

javax.swing.JButton actionButton

jMenuBar1

javax.swing.JMenuBar jMenuBar1

viewMenu

javax.swing.JMenu viewMenu

increaseFontMenuItem

javax.swing.JMenuItem increaseFontMenuItem

decreaseFontMenuItem

javax.swing.JMenuItem decreaseFontMenuItem

selectFontMenuItem

javax.swing.JMenuItem selectFontMenuItem

fileMenu

javax.swing.JMenu fileMenu

saveAsMenuItem

javax.swing.JMenuItem saveAsMenuItem

defaultFileName

java.lang.String defaultFileName

buttonAction

int buttonAction

Class cct.tools.ui.LogPanel extends javax.swing.JFrame implements Serializable

Serialized Fields

prefs

java.util.prefs.Preferences prefs

fontSelector

FontSelectorDialog fontSelector

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

jScrollPane1

javax.swing.JScrollPane jScrollPane1

jTextArea1

javax.swing.JTextArea jTextArea1

jPanel1

javax.swing.JPanel jPanel1

clearButton

javax.swing.JButton clearButton

jMenuBar1

javax.swing.JMenuBar jMenuBar1

viewMenu

javax.swing.JMenu viewMenu

increaseFontMenuItem

javax.swing.JMenuItem increaseFontMenuItem

decreaseFontMenuItem

javax.swing.JMenuItem decreaseFontMenuItem

selectFontMenuItem

javax.swing.JMenuItem selectFontMenuItem

hideButton

javax.swing.JButton hideButton

fileMenu

javax.swing.JMenu fileMenu

saveAsMenuItem

javax.swing.JMenuItem saveAsMenuItem

hideMenuItem

javax.swing.JMenuItem hideMenuItem

caretUpdateAdaptor

LogPanel_jTextArea1_caretAdapter caretUpdateAdaptor

Class cct.tools.ui.MemoryMonitorFrame extends javax.swing.JFrame implements Serializable

Serialized Fields

monitor

MemoryMonitor monitor

borderLayout1

java.awt.BorderLayout borderLayout1

Class cct.tools.ui.PostMessageDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

buttonsPanel

javax.swing.JPanel buttonsPanel

postMessagePanel1

PostMessagePanel postMessagePanel1

cancelButton

javax.swing.JButton cancelButton

postButton

javax.swing.JButton postButton

messageType

PostMessageType messageType

Class cct.tools.ui.PostMessagePanel extends javax.swing.JPanel implements Serializable

Serialized Fields

jLabel1

javax.swing.JLabel jLabel1

nameTextField

javax.swing.JTextField nameTextField

messageTextArea

javax.swing.JTextArea messageTextArea

jLabel2

javax.swing.JLabel jLabel2

emailTextField

javax.swing.JTextField emailTextField

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

initialized

boolean initialized

mouseAdapter

PostMessagePanel.MyMouseAdapter mouseAdapter

jScrollPane1

javax.swing.JScrollPane jScrollPane1

jPanel1

javax.swing.JPanel jPanel1

borderLayout1

java.awt.BorderLayout borderLayout1

Class cct.tools.ui.SelectFromListDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

borderLayout2

java.awt.BorderLayout borderLayout2

jPanel1

javax.swing.JPanel jPanel1

cancelButton

javax.swing.JButton cancelButton

okButton

javax.swing.JButton okButton

jScrollPane1

javax.swing.JScrollPane jScrollPane1

jList1

javax.swing.JList jList1

helpButton

javax.swing.JButton helpButton

Package cct.vasp.ui

Class cct.vasp.ui.ReadPoscarDialog extends javax.swing.JDialog implements Serializable

Serialized Fields

panel1

javax.swing.JPanel panel1

borderLayout1

java.awt.BorderLayout borderLayout1

helpButton

javax.swing.JButton helpButton

jLabel1

javax.swing.JLabel jLabel1

filesPanel

javax.swing.JPanel filesPanel

buttonsPanel

javax.swing.JPanel buttonsPanel

jLabel2

javax.swing.JLabel jLabel2

cancelButton

javax.swing.JButton cancelButton

loadButton

javax.swing.JButton loadButton

potcarButton

javax.swing.JButton potcarButton

browsePoscarButton

javax.swing.JButton browsePoscarButton

potcarTextField

javax.swing.JTextField potcarTextField

poscarTextField

javax.swing.JTextField poscarTextField

gridBagLayout1

java.awt.GridBagLayout gridBagLayout1

chooser

javax.swing.JFileChooser chooser

vaspFile

Vasp vaspFile

molecule

MoleculeInterface molecule

prefs

java.util.prefs.Preferences prefs

currentWorkingDirectory

java.io.File currentWorkingDirectory

OKPressed

boolean OKPressed

atomTypesResolved

boolean atomTypesResolved

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