Serialized Form 
 
gapped_seq1 
java.lang.String gapped_seq1  
First gapped sequence.
  
 
  
score_tag_line 
java.lang.String score_tag_line  
The score tag line.
  
 
  
gapped_seq2 
java.lang.String gapped_seq2  
Second gapped sequence.
  
 
  
score 
int score  
The overall score value for this alignment.
  
 
  
image_label 
javax.swing.JLabel image_label  
 
 
file_menu 
javax.swing.JMenu file_menu  
 
 
help_menu 
javax.swing.JMenu help_menu  
 
 
menu_bar 
javax.swing.JMenuBar menu_bar  
 
 
new_alignment_item 
javax.swing.JMenuItem new_alignment_item  
 
 
exit_menuitem 
javax.swing.JMenuItem exit_menuitem  
 
 
about_menuitem 
javax.swing.JMenuItem about_menuitem  
 
 
mid_separator 
javax.swing.JSeparator mid_separator  
 
 
file_toolbar 
javax.swing.JToolBar file_toolbar  
 
 
toolbar_panel 
javax.swing.JPanel toolbar_panel  
 
 
alignment_button 
javax.swing.JButton alignment_button  
 
 
desktop_pane 
javax.swing.JDesktopPane desktop_pane  
 
 
parent_frame 
java.awt.Frame parent_frame  
 
 
input_panel 
javax.swing.JPanel input_panel  
 
 
scoring_panel 
javax.swing.JPanel scoring_panel  
 
 
algorithm_panel 
javax.swing.JPanel algorithm_panel  
 
 
output_panel 
javax.swing.JPanel output_panel  
 
 
progress_tab_panel 
javax.swing.JPanel progress_tab_panel  
 
 
output_tab_panel 
javax.swing.JPanel output_tab_panel  
 
 
seq1_field 
javax.swing.JTextField seq1_field  
 
 
seq2_field 
javax.swing.JTextField seq2_field  
 
 
matrix_field 
javax.swing.JTextField matrix_field  
 
 
output_field 
javax.swing.JTextField output_field  
 
 
match_field 
javax.swing.JTextField match_field  
 
 
mismatch_field 
javax.swing.JTextField mismatch_field  
 
 
gap_field 
javax.swing.JTextField gap_field  
 
 
progress_area 
javax.swing.JTextArea progress_area  
 
 
output_area 
javax.swing.JTextArea output_area  
 
 
find_seq1_button 
javax.swing.JButton find_seq1_button  
 
 
find_seq2_button 
javax.swing.JButton find_seq2_button  
 
 
find_output_button 
javax.swing.JButton find_output_button  
 
 
find_matrix_button 
javax.swing.JButton find_matrix_button  
 
 
run_button 
javax.swing.JButton run_button  
 
 
algorithm_combo 
javax.swing.JComboBox algorithm_combo  
 
 
output_tab 
javax.swing.JTabbedPane output_tab  
 
 
screen_button 
javax.swing.JRadioButton screen_button  
 
 
file_button 
javax.swing.JRadioButton file_button  
 
 
basic_button 
javax.swing.JRadioButton basic_button  
 
 
matrix_button 
javax.swing.JRadioButton matrix_button  
 
 
scoring_group 
javax.swing.ButtonGroup scoring_group  
 
 
output_group 
javax.swing.ButtonGroup output_group  
 
 
seq1_label 
javax.swing.JLabel seq1_label  
 
 
seq2_label 
javax.swing.JLabel seq2_label  
 
 
match_label 
javax.swing.JLabel match_label  
 
 
mismatch_label 
javax.swing.JLabel mismatch_label  
 
 
gap_label 
javax.swing.JLabel gap_label  
 
 
find_dialog 
javax.swing.JFileChooser find_dialog  
 
 
output_to_file 
boolean output_to_file  
 
 
basic_scheme 
boolean basic_scheme  
 
 
algorithm_name 
java.lang.String[] algorithm_name  
 
 
algorithm 
PairwiseAlignmentAlgorithm [] algorithm  
 
 
http://neobio.sourceforge.net NeoBio  is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 2 of the License, or (at your option) any later version. NeoBio  is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details. You should have received a copy of the GNU General Public License along with NeoBio; if not, write to the Free Software Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307, USA.