X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fjbgui%2FGFinder.java;h=dd749e39548e14358d2e5a215bce7e5b124d9ed1;hb=797df64fa2a0a30773d0f48f5494d4155e5a8be3;hp=554d8bc3dc5b186a54007ccb2bcede2e18d326b3;hpb=1cd8649ecb6dbce0c78389b112052542fd8cd7bc;p=jalview.git diff --git a/src/jalview/jbgui/GFinder.java b/src/jalview/jbgui/GFinder.java index 554d8bc..dd749e3 100755 --- a/src/jalview/jbgui/GFinder.java +++ b/src/jalview/jbgui/GFinder.java @@ -1,147 +1,197 @@ -/* -* Jalview - A Sequence Alignment Editor and Viewer -* Copyright (C) 2005 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle -* -* This program 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. -* -* This program 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 this program; if not, write to the Free Software -* Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA -*/ -package jalview.jbgui; - -import java.awt.*; -import java.awt.event.*; - -import javax.swing.*; -import javax.swing.event.CaretListener; -import javax.swing.event.CaretEvent; - -public class GFinder extends JPanel { - JLabel jLabel1 = new JLabel(); - protected JButton findAll = new JButton(); - protected JButton findNext = new JButton(); - JPanel jPanel1 = new JPanel(); - GridLayout gridLayout1 = new GridLayout(); - protected JButton createNewGroup = new JButton(); - JScrollPane jScrollPane1 = new JScrollPane(); - protected JTextArea textfield = new JTextArea(); - BorderLayout borderLayout1 = new BorderLayout(); - JPanel jPanel2 = new JPanel(); - JPanel jPanel3 = new JPanel(); - JPanel jPanel4 = new JPanel(); - BorderLayout borderLayout2 = new BorderLayout(); - JPanel jPanel5 = new JPanel(); - JPanel jPanel6 = new JPanel(); - public GFinder() { - try { - jbInit(); - } catch (Exception e) { - e.printStackTrace(); - } - } - - private void jbInit() throws Exception { - jLabel1.setFont(new java.awt.Font("Verdana", 0, 12)); - jLabel1.setText("Find"); - this.setLayout(borderLayout1); - findAll.setFont(new java.awt.Font("Verdana", 0, 12)); - findAll.setText("Find all"); - findAll.addActionListener(new java.awt.event.ActionListener() { - public void actionPerformed(ActionEvent e) { - findAll_actionPerformed(e); - } - }); - findNext.setEnabled(false); - findNext.setFont(new java.awt.Font("Verdana", 0, 12)); - findNext.setText("Find Next"); - findNext.addActionListener(new java.awt.event.ActionListener() { - public void actionPerformed(ActionEvent e) { - findNext_actionPerformed(e); - } - }); - jPanel1.setLayout(gridLayout1); - gridLayout1.setHgap(0); - gridLayout1.setRows(3); - gridLayout1.setVgap(2); - createNewGroup.setEnabled(false); - createNewGroup.setFont(new java.awt.Font("Verdana", 0, 12)); - createNewGroup.setToolTipText(""); - createNewGroup.setMargin(new Insets(0, 0, 0, 0)); - createNewGroup.setText("Create new group"); - createNewGroup.addActionListener(new java.awt.event.ActionListener() { - public void actionPerformed(ActionEvent e) { - createNewGroup_actionPerformed(e); - } - }); - textfield.setFont(new java.awt.Font("Verdana", Font.PLAIN, 12)); - textfield.setText(""); - textfield.setLineWrap(true); - textfield.addCaretListener(new CaretListener() - { - public void caretUpdate(CaretEvent e) - { - textfield_caretUpdate(e); - } - }); - borderLayout1.setHgap(5); - borderLayout1.setVgap(5); - jPanel4.setLayout(borderLayout2); - jPanel2.setPreferredSize(new Dimension(10, 1)); - jPanel3.setPreferredSize(new Dimension(10, 1)); - jPanel1.add(findNext, null); - jPanel1.add(findAll, null); - jPanel1.add(createNewGroup, null); - this.add(jLabel1, java.awt.BorderLayout.WEST); - this.add(jPanel1, java.awt.BorderLayout.EAST); - this.add(jPanel2, java.awt.BorderLayout.SOUTH); - this.add(jPanel3, java.awt.BorderLayout.NORTH); - this.add(jPanel4, java.awt.BorderLayout.CENTER); - jPanel4.add(jScrollPane1, java.awt.BorderLayout.CENTER); - jPanel4.add(jPanel5, java.awt.BorderLayout.SOUTH); - jPanel4.add(jPanel6, java.awt.BorderLayout.NORTH); - jScrollPane1.getViewport().add(textfield); - } - - protected void findNext_actionPerformed(ActionEvent e) { - } - - protected void findAll_actionPerformed(ActionEvent e) { - } - - protected void textfield_actionPerformed(ActionEvent e) { - } - - void textfield_keyTyped(KeyEvent e) { - findNext.setEnabled(true); - } - - public void createNewGroup_actionPerformed(ActionEvent e) { - } - - public void textfield_caretUpdate(CaretEvent e) - { - if (textfield.getText().indexOf("\t")>-1) - { - SwingUtilities.invokeLater(new Runnable() - { - public void run() - { - String text = textfield.getText(); - text = text.substring(text.lastIndexOf("\t") + 1).trim(); - text = jalview.analysis.AlignSeq.extractGaps( - jalview.util.Comparison.GapChars, text); - textfield.setText(text); - } - }); - } - } -} +/* + * Jalview - A Sequence Alignment Editor and Viewer (Version 2.7) + * Copyright (C) 2011 J Procter, AM Waterhouse, J Engelhardt, LM Lui, G Barton, M Clamp, S Searle + * + * This file is part of Jalview. + * + * Jalview 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 3 of the License, or (at your option) any later version. + * + * Jalview 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 Jalview. If not, see . + */ +package jalview.jbgui; + +import java.awt.*; +import java.awt.event.*; +import javax.swing.*; +import javax.swing.event.*; + +import jalview.datamodel.*; +import jalview.io.*; + +public class GFinder extends JPanel +{ + JLabel jLabel1 = new JLabel(); + + protected JButton findAll = new JButton(); + + protected JButton findNext = new JButton(); + + JPanel jPanel1 = new JPanel(); + + GridLayout gridLayout1 = new GridLayout(); + + protected JButton createNewGroup = new JButton(); + + JScrollPane jScrollPane1 = new JScrollPane(); + + protected JTextArea textfield = new JTextArea(); + + BorderLayout borderLayout1 = new BorderLayout(); + + JPanel jPanel2 = new JPanel(); + + JPanel jPanel3 = new JPanel(); + + JPanel jPanel4 = new JPanel(); + + BorderLayout borderLayout2 = new BorderLayout(); + + JPanel jPanel6 = new JPanel(); + + protected JCheckBox caseSensitive = new JCheckBox(); + + public GFinder() + { + try + { + jbInit(); + } catch (Exception e) + { + e.printStackTrace(); + } + } + + private void jbInit() throws Exception + { + jLabel1.setFont(new java.awt.Font("Verdana", 0, 12)); + jLabel1.setText("Find"); + this.setLayout(borderLayout1); + findAll.setFont(new java.awt.Font("Verdana", 0, 12)); + findAll.setText("Find all"); + findAll.addActionListener(new java.awt.event.ActionListener() + { + public void actionPerformed(ActionEvent e) + { + findAll_actionPerformed(e); + } + }); + findNext.setFont(new java.awt.Font("Verdana", 0, 12)); + findNext.setText("Find Next"); + findNext.addActionListener(new java.awt.event.ActionListener() + { + public void actionPerformed(ActionEvent e) + { + findNext_actionPerformed(e); + } + }); + jPanel1.setLayout(gridLayout1); + gridLayout1.setHgap(0); + gridLayout1.setRows(3); + gridLayout1.setVgap(2); + createNewGroup.setEnabled(false); + createNewGroup.setFont(new java.awt.Font("Verdana", 0, 12)); + createNewGroup.setMargin(new Insets(0, 0, 0, 0)); + createNewGroup.setText("New Feature"); + createNewGroup.addActionListener(new java.awt.event.ActionListener() + { + public void actionPerformed(ActionEvent e) + { + createNewGroup_actionPerformed(e); + } + }); + textfield.setFont(new java.awt.Font("Verdana", Font.PLAIN, 12)); + textfield.setText(""); + textfield.setLineWrap(true); + textfield.addCaretListener(new CaretListener() + { + public void caretUpdate(CaretEvent e) + { + textfield_caretUpdate(e); + } + }); + textfield.addKeyListener(new java.awt.event.KeyAdapter() + { + public void keyPressed(KeyEvent e) + { + textfield_keyPressed(e); + } + }); + + borderLayout1.setHgap(5); + borderLayout1.setVgap(5); + jPanel4.setLayout(borderLayout2); + jPanel2.setPreferredSize(new Dimension(10, 1)); + jPanel3.setPreferredSize(new Dimension(10, 1)); + caseSensitive.setHorizontalAlignment(SwingConstants.LEFT); + caseSensitive.setText("Match Case"); + jPanel1.add(findNext, null); + jPanel1.add(findAll, null); + jPanel1.add(createNewGroup, null); + this.add(jLabel1, java.awt.BorderLayout.WEST); + this.add(jPanel1, java.awt.BorderLayout.EAST); + this.add(jPanel2, java.awt.BorderLayout.SOUTH); + this.add(jPanel3, java.awt.BorderLayout.NORTH); + this.add(jPanel4, java.awt.BorderLayout.CENTER); + jPanel4.add(jScrollPane1, java.awt.BorderLayout.CENTER); + jScrollPane1.getViewport().add(textfield); + jPanel4.add(jPanel6, java.awt.BorderLayout.NORTH); + jPanel4.add(caseSensitive, java.awt.BorderLayout.SOUTH); + } + + protected void findNext_actionPerformed(ActionEvent e) + { + } + + protected void findAll_actionPerformed(ActionEvent e) + { + } + + protected void textfield_keyPressed(KeyEvent e) + { + if (e.getKeyCode() == KeyEvent.VK_ENTER) + { + e.consume(); + findNext_actionPerformed(null); + } + } + + public void createNewGroup_actionPerformed(ActionEvent e) + { + } + + public void textfield_caretUpdate(CaretEvent e) + { + if (textfield.getText().indexOf(">") > -1) + { + SwingUtilities.invokeLater(new Runnable() + { + public void run() + { + String str = textfield.getText(); + Alignment al = null; + try + { + al = new FormatAdapter().readFile(str, "Paste", "FASTA"); + } catch (Exception ex) + { + } + if (al != null && al.getHeight() > 0) + { + str = jalview.analysis.AlignSeq.extractGaps( + jalview.util.Comparison.GapChars, al.getSequenceAt(0) + .getSequenceAsString()); + + textfield.setText(str); + } + } + }); + } + } +}