--- /dev/null
+/*\r
+ * Jalview - A Sequence Alignment Editor and Viewer\r
+ * Copyright (C) 2006 AM Waterhouse, J Procter, G Barton, M Clamp, S Searle\r
+ *\r
+ * This program is free software; you can redistribute it and/or\r
+ * modify it under the terms of the GNU General Public License\r
+ * as published by the Free Software Foundation; either version 2\r
+ * of the License, or (at your option) any later version.\r
+ *\r
+ * This program is distributed in the hope that it will be useful,\r
+ * but WITHOUT ANY WARRANTY; without even the implied warranty of\r
+ * MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the\r
+ * GNU General Public License for more details.\r
+ *\r
+ * You should have received a copy of the GNU General Public License\r
+ * along with this program; if not, write to the Free Software\r
+ * Foundation, Inc., 51 Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA\r
+ */\r
+package jalview.gui;\r
+\r
+import jalview.jbgui.*;\r
+import javax.swing.table.AbstractTableModel;\r
+import javax.swing.event.*;\r
+import jalview.util.TableSorter;\r
+import java.awt.event.*;\r
+import javax.swing.*;\r
+import java.util.*;\r
+\r
+\r
+import org.biojava.dasobert.dasregistry.DasCoordinateSystem;\r
+import org.biojava.dasobert.dasregistry.DasSource;\r
+import org.biojava.dasobert.dasregistry.Das1Source;\r
+import java.awt.BorderLayout;\r
+\r
+public class DasSourceBrowser extends GDasSourceBrowser\r
+ implements Runnable, ListSelectionListener\r
+{\r
+ static DasSource[] dasSources = null;\r
+\r
+ Hashtable localSources = null;\r
+\r
+ Vector selectedSources;\r
+\r
+ String DEFAULT_REGISTRY = "http://das.sanger.ac.uk/registry/das1/sources/";\r
+\r
+ boolean loadingDasSources = false;\r
+\r
+\r
+ public DasSourceBrowser()\r
+ {\r
+ registryURL.setText(jalview.bin.Cache.getDefault("DAS_REGISTRY_URL",\r
+ DEFAULT_REGISTRY) );\r
+\r
+ setSelectedFromProperties();\r
+\r
+ displayFullDetails(null);\r
+ table.setSelectionMode(ListSelectionModel.SINGLE_SELECTION);\r
+\r
+ filter1.addListSelectionListener(this);\r
+ filter2.addListSelectionListener(this);\r
+ filter3.addListSelectionListener(this);\r
+\r
+ //Ask to be notified of selection changes.\r
+ ListSelectionModel rowSM = table.getSelectionModel();\r
+ rowSM.addListSelectionListener(new ListSelectionListener()\r
+ {\r
+ public void valueChanged(ListSelectionEvent e)\r
+ {\r
+ ListSelectionModel lsm = (ListSelectionModel) e.getSource();\r
+ if (!lsm.isSelectionEmpty())\r
+ {\r
+ int selectedRow = lsm.getMinSelectionIndex();\r
+ displayFullDetails(table.getValueAt(selectedRow, 0).toString());\r
+ }\r
+ }\r
+ });\r
+\r
+ table.addMouseListener(new MouseAdapter()\r
+ {\r
+ public void mouseClicked(MouseEvent evt)\r
+ {\r
+ if(evt.getClickCount()==2\r
+ || SwingUtilities.isRightMouseButton(evt))\r
+ editRemoveLocalSource(evt);\r
+ }\r
+ });\r
+\r
+ if(dasSources!=null)\r
+ {\r
+ init();\r
+ }\r
+ }\r
+\r
+ public void paintComponent(java.awt.Graphics g)\r
+ {\r
+ if (dasSources == null && !loadingDasSources)\r
+ {\r
+ Thread worker = new Thread(this);\r
+ worker.start();\r
+ }\r
+ }\r
+\r
+ void init()\r
+ {\r
+ int dSize = dasSources.length;\r
+ Object[][] data = new Object[dSize][2];\r
+ for (int i = 0; i < dSize; i++)\r
+ {\r
+ data[i][0] = dasSources[i].getNickname();\r
+ data[i][1] = new Boolean(selectedSources.contains(dasSources[i].\r
+ getNickname()));\r
+ }\r
+\r
+ refreshTableData(data);\r
+ setCapabilities(dasSources);\r
+\r
+ javax.swing.SwingUtilities.invokeLater(new Runnable()\r
+ {\r
+ public void run()\r
+ {\r
+ TableSorter sorter = (TableSorter)table.getModel();\r
+ sorter.setSortingStatus(1, TableSorter.DESCENDING);\r
+ sorter.setSortingStatus(1, TableSorter.NOT_SORTED);\r
+ }\r
+ });\r
+\r
+ progressBar.setIndeterminate(false);\r
+ progressBar.setVisible(false);\r
+ addLocal.setVisible(true);\r
+ refresh.setVisible(true);\r
+ }\r
+\r
+\r
+ public void refreshTableData(Object[][] data)\r
+ {\r
+ TableSorter sorter = new TableSorter(new DASTableModel(data));\r
+ sorter.setTableHeader(table.getTableHeader());\r
+ table.setModel(sorter);\r
+ }\r
+\r
+ void displayFullDetails(String nickName)\r
+ {\r
+\r
+ StringBuffer text = new StringBuffer(\r
+ "<HTML><font size=\"2\" face=\"Verdana, Arial, Helvetica, sans-serif\">");\r
+\r
+ if (nickName == null)\r
+ {\r
+ fullDetails.setText(text +\r
+ "Select a DAS service from the table"\r
+ + " to read a full description here.</font></html>");\r
+ return;\r
+ }\r
+\r
+ int dSize = dasSources.length;\r
+ for (int i = 0; i < dSize; i++)\r
+ {\r
+ if (!dasSources[i].getNickname().equals(nickName))\r
+ continue;\r
+\r
+ DasSource ds = dasSources[i];\r
+\r
+ text.append("<font color=\"#0000FF\">Id:</font> " + dasSources[i].getId() +\r
+ "<br>");\r
+ text.append("<font color=\"#0000FF\">Nickname:</font> " +\r
+ dasSources[i].getNickname() + "<br>");\r
+ text.append("<font color=\"#0000FF\">URL:</font> " + dasSources[i].getUrl() +\r
+ "<br>");\r
+\r
+ text.append("<font color=\"#0000FF\">Admin Email:</font> <a href=\"mailto:"\r
+ +dasSources[i].getAdminemail()\r
+ +"\">"+dasSources[i].getAdminemail()+"</a>" +\r
+ "<br>");\r
+\r
+\r
+ text.append("<font color=\"#0000FF\">Registered at:</font> " + dasSources[i].getRegisterDate() +\r
+ "<br>");\r
+\r
+ text.append("<font color=\"#0000FF\">Last successful test:</font> " + dasSources[i].getLeaseDate() +\r
+ "<br>");\r
+\r
+ text.append("<font color=\"#0000FF\">Labels:</font> ");\r
+ for(int s=0; s<dasSources[i].getLabels().length; s++)\r
+ {\r
+ text.append( dasSources[i].getLabels()[s]);\r
+ if(s<dasSources[i].getLabels().length-1)\r
+ text.append(",");\r
+ text.append(" ");\r
+ }\r
+ text.append("<br>");\r
+\r
+\r
+\r
+ text.append("<font color=\"#0000FF\">Capabilities:</font> ");\r
+ String[] scap = dasSources[i].getCapabilities();\r
+ for (int j = 0; j < scap.length; j++)\r
+ {\r
+ text.append(scap[j]);\r
+ if (j < scap.length - 1)\r
+ text.append(", ");\r
+ }\r
+ text.append("<br>");\r
+\r
+ text.append("<font color=\"#0000FF\">Coordinates:</font> ");\r
+ DasCoordinateSystem[] dcs = ds.getCoordinateSystem();\r
+ for (int j = 0; j < dcs.length; j++)\r
+ {\r
+ text.append("(" + dcs[j].getUniqueId() + ") "\r
+ + dcs[j].getCategory() + ", " + dcs[j].getName());\r
+ if (dcs[j].getNCBITaxId() != 0)\r
+ text.append(", " + dcs[j].getNCBITaxId());\r
+ if (dcs[j].getOrganismName().length() > 0)\r
+ text.append(", " + dcs[j].getOrganismName());\r
+\r
+ text.append("<br>");\r
+ }\r
+\r
+ text.append("<font color=\"#0000FF\">Description:</font> " +\r
+ dasSources[i].getDescription() + "<br>");\r
+\r
+\r
+ if (dasSources[i].getHelperurl()!=null\r
+ && dasSources[i].getHelperurl().length() > 0)\r
+ {\r
+ text.append("<font color=\"#0000FF\"><a href=\"" +\r
+ dasSources[i].getHelperurl()\r
+ + "\">Go to site</a></font<br>");\r
+ }\r
+\r
+ text.append("</font></html>");\r
+\r
+ break;\r
+ }\r
+\r
+ fullDetails.setText(text.toString());\r
+ javax.swing.SwingUtilities.invokeLater(new Runnable()\r
+ {\r
+ public void run()\r
+ {\r
+ fullDetailsScrollpane.getVerticalScrollBar().setValue(0);\r
+ }\r
+ });\r
+ }\r
+\r
+\r
+ public void run()\r
+ {\r
+ loadingDasSources = true;\r
+\r
+ addLocal.setVisible(false);\r
+ refresh.setVisible(false);\r
+ progressBar.setVisible(true);\r
+ progressBar.setIndeterminate(true);\r
+\r
+ dasSources = jalview.io.DasSequenceFeatureFetcher.getDASSources();\r
+\r
+ appendLocalSources();\r
+\r
+ init();\r
+\r
+ loadingDasSources = false;\r
+\r
+ }\r
+\r
+ public Vector getSelectedSources()\r
+ {\r
+ Vector selected = new Vector();\r
+ for (int r = 0; r < selectedSources.size(); r++)\r
+ {\r
+ for (int i = 0; i < dasSources.length; i++)\r
+ {\r
+ if (dasSources[i].getNickname().equals(\r
+ selectedSources.elementAt(r)))\r
+ {\r
+ selected.addElement(dasSources[i]);\r
+ break;\r
+ }\r
+ }\r
+ }\r
+\r
+ return selected;\r
+ }\r
+\r
+ public DasSource[] getDASSource()\r
+ {\r
+ if(dasSources==null)\r
+ {\r
+ dasSources = jalview.io.DasSequenceFeatureFetcher.getDASSources();\r
+ appendLocalSources();\r
+ }\r
+\r
+ return dasSources;\r
+ }\r
+\r
+ public void refresh_actionPerformed(ActionEvent e)\r
+ {\r
+ saveProperties(jalview.bin.Cache.applicationProperties);\r
+\r
+ Thread worker = new Thread(this);\r
+ worker.start();\r
+ }\r
+\r
+ private void setCapabilities(DasSource[] sources)\r
+ {\r
+ Vector authority = new Vector();\r
+ Vector type = new Vector();\r
+ Vector label = new Vector();\r
+\r
+ authority.addElement("Any");\r
+ type.addElement("Any");\r
+ label.addElement("Any");\r
+\r
+ for (int i = 0; i < sources.length; i++)\r
+ {\r
+ DasSource ds = sources[i];\r
+\r
+ DasCoordinateSystem[] dcs = ds.getCoordinateSystem();\r
+\r
+ for (int j = 0; j < dcs.length; j++)\r
+ {\r
+ if (!type.contains(dcs[j].getCategory()))\r
+ type.addElement(dcs[j].getCategory());\r
+\r
+ if (!authority.contains(dcs[j].getName()))\r
+ authority.addElement(dcs[j].getName());\r
+ }\r
+\r
+ String[] slabels = ds.getLabels();\r
+ for (int s = 0; s < slabels.length; s++)\r
+ {\r
+ if (!label.contains(slabels[s]))\r
+ {\r
+ label.addElement(slabels[s]);\r
+ }\r
+ }\r
+\r
+ }\r
+\r
+ filter1.setListData(authority);\r
+ filter2.setListData(type);\r
+ filter3.setListData(label);\r
+\r
+ javax.swing.SwingUtilities.invokeLater(new Runnable()\r
+ {\r
+ public void run()\r
+ {\r
+ filter1.setSelectedIndex(0);\r
+ filter2.setSelectedIndex(0);\r
+ filter3.setSelectedIndex(0);\r
+ }\r
+ });\r
+ }\r
+\r
+ public void amendLocal(boolean newSource)\r
+ {\r
+ String url = "http://localhost:8080/", nickname = "";\r
+\r
+ if(!newSource)\r
+ {\r
+ int selectedRow = table.getSelectionModel().getMinSelectionIndex();\r
+ nickname = table.getValueAt(selectedRow, 0).toString();\r
+ url = ((DasSource)localSources.get(nickname)).getUrl();\r
+ }\r
+\r
+ JTextField nametf = new JTextField(nickname, 40);\r
+ JTextField urltf = new JTextField(url, 40);\r
+\r
+ JPanel panel = new JPanel(new BorderLayout());\r
+ JPanel pane12 = new JPanel(new BorderLayout());\r
+ pane12.add(new JLabel("Nickname: "), BorderLayout.CENTER);\r
+ pane12.add(nametf, BorderLayout.EAST);\r
+ panel.add(pane12, BorderLayout.NORTH);\r
+ pane12 = new JPanel(new BorderLayout());\r
+ pane12.add(new JLabel("URL: "), BorderLayout.CENTER);\r
+ pane12.add(urltf, BorderLayout.EAST);\r
+ panel.add(pane12, BorderLayout.SOUTH);\r
+\r
+\r
+ int reply = JOptionPane.showInternalConfirmDialog(Desktop.desktop,\r
+ panel, "Enter Nickname & URL of Local DAS Source",\r
+ JOptionPane.OK_CANCEL_OPTION);\r
+\r
+ if (reply != JOptionPane.OK_OPTION )\r
+ {\r
+ return;\r
+ }\r
+\r
+ if(!urltf.getText().endsWith("/"))\r
+ urltf.setText(urltf.getText()+"/");\r
+\r
+ Das1Source local = new Das1Source();\r
+\r
+ local.setUrl(urltf.getText());\r
+ local.setNickname(nametf.getText());\r
+\r
+\r
+ if(localSources==null)\r
+ localSources = new Hashtable();\r
+\r
+ localSources.put(local.getNickname(), local);\r
+\r
+ if(!newSource && !nickname.equals(nametf.getText()))\r
+ {\r
+ localSources.remove(nickname);\r
+ }\r
+\r
+ int size = dasSources.length;\r
+ int adjust = newSource ? 1 : 0;\r
+\r
+ Object[][] data = new Object[size+adjust][2];\r
+ for (int i = 0; i < size; i++)\r
+ {\r
+ if(!newSource && dasSources[i].getNickname().equals(nickname))\r
+ {\r
+ ((DasSource)dasSources[i]).setNickname(local.getNickname());\r
+ ((DasSource)dasSources[i]).setUrl(local.getUrl());\r
+ data[i][0] = local.getNickname();\r
+ data[i][1] = new Boolean(true);\r
+ }\r
+ else\r
+ {\r
+ data[i][0] = dasSources[i].getNickname();\r
+ data[i][1] = new Boolean(selectedSources.contains(dasSources[i].\r
+ getNickname()));\r
+ }\r
+ }\r
+\r
+ if(newSource)\r
+ {\r
+ data[size][0] = local.getNickname();\r
+ data[size][1] = new Boolean(true);\r
+ selectedSources.add(local.getNickname());\r
+ }\r
+\r
+ DasSource [] tmp = new DasSource[size+adjust];\r
+\r
+ System.arraycopy(dasSources, 0, tmp, 0, size);\r
+\r
+ if(newSource)\r
+ tmp[size] = local;\r
+\r
+ dasSources = tmp;\r
+\r
+ refreshTableData(data);\r
+\r
+ SwingUtilities.invokeLater(new Runnable()\r
+ {\r
+ public void run()\r
+ {\r
+ scrollPane.getVerticalScrollBar().setValue(\r
+ scrollPane.getVerticalScrollBar().getMaximum()\r
+ );\r
+ }\r
+ });\r
+\r
+ displayFullDetails(local.getNickname());\r
+ }\r
+\r
+ public void editRemoveLocalSource(MouseEvent evt)\r
+ {\r
+ int selectedRow = table.getSelectionModel().getMinSelectionIndex();\r
+ if(selectedRow==-1)\r
+ return;\r
+\r
+ String nickname = table.getValueAt(selectedRow, 0).toString();\r
+\r
+ if (!localSources.containsKey(nickname))\r
+ {\r
+ JOptionPane.showInternalMessageDialog(Desktop.desktop,\r
+ "You can only edit or remove local DAS Sources!",\r
+ "Public DAS source - not editable",\r
+ JOptionPane.WARNING_MESSAGE);\r
+ return;\r
+ }\r
+\r
+\r
+ Object[] options = {"Edit", "Remove", "Cancel"};\r
+ int choice = JOptionPane.showInternalOptionDialog(Desktop.desktop,\r
+ "Do you want to edit or remove "+nickname+"?",\r
+ "Edit / Remove Local DAS Source",\r
+ JOptionPane.YES_NO_CANCEL_OPTION,\r
+ JOptionPane.QUESTION_MESSAGE,\r
+ null,\r
+ options,\r
+ options[2]);\r
+\r
+ switch(choice)\r
+ {\r
+ case 0: amendLocal(false); break;\r
+ case 1:\r
+ localSources.remove(nickname);\r
+ selectedSources.remove(nickname);\r
+ Object[][] data = new Object[dasSources.length-1][2];\r
+ DasSource [] tmp = new DasSource[dasSources.length-1];\r
+ int index = 0;\r
+ for (int i = 0; i < dasSources.length; i++)\r
+ {\r
+ if (dasSources[i].getNickname().equals(nickname))\r
+ {\r
+ continue;\r
+ }\r
+ else\r
+ {\r
+ tmp[index] = dasSources[i];\r
+ data[index][0] = dasSources[i].getNickname();\r
+ data[index][1] = new Boolean(selectedSources.contains(dasSources[i].\r
+ getNickname()));\r
+ index++;\r
+ }\r
+ }\r
+ dasSources = tmp;\r
+ refreshTableData(data);\r
+ SwingUtilities.invokeLater(new Runnable()\r
+ {\r
+ public void run()\r
+ {\r
+ scrollPane.getVerticalScrollBar().setValue(\r
+ scrollPane.getVerticalScrollBar().getMaximum()\r
+ );\r
+ }\r
+ });\r
+\r
+ break;\r
+ }\r
+ }\r
+\r
+ void appendLocalSources()\r
+ {\r
+ if(localSources==null)\r
+ return;\r
+\r
+ int size = dasSources!=null ? dasSources.length : 0;\r
+ int lsize = localSources.size();\r
+\r
+ Object[][] data = new Object[size+lsize][2];\r
+ for (int i = 0; i < size; i++)\r
+ {\r
+ data[i][0] = dasSources[i].getNickname();\r
+ data[i][1] = new Boolean(selectedSources.contains(dasSources[i].\r
+ getNickname()));\r
+ }\r
+\r
+ DasSource [] tmp = new DasSource[size+lsize];\r
+ if(dasSources!=null)\r
+ System.arraycopy(dasSources, 0, tmp, 0, size);\r
+\r
+ Enumeration en = localSources.keys();\r
+ int index = size;\r
+ while(en.hasMoreElements())\r
+ {\r
+ String key = en.nextElement().toString();\r
+ data[index][0] = key;\r
+ data[index][1] = new Boolean(false);\r
+ tmp[index] = new Das1Source();\r
+ tmp[index].setNickname(key);\r
+ tmp[index].setUrl( ((DasSource)localSources.get(key)).getUrl() );\r
+\r
+ index++;\r
+ }\r
+\r
+ dasSources = tmp;\r
+\r
+ refreshTableData(data);\r
+ }\r
+\r
+ public void valueChanged(ListSelectionEvent evt)\r
+ {\r
+ //Called when the MainTable selection changes\r
+ if (evt.getValueIsAdjusting() )\r
+ {\r
+ return;\r
+ }\r
+\r
+\r
+ displayFullDetails(null);\r
+\r
+ // Filter the displayed data sources\r
+ int dSize = dasSources.length;\r
+\r
+\r
+ ArrayList names = new ArrayList();\r
+ ArrayList selected = new ArrayList();\r
+ DasSource ds;\r
+\r
+ //The features filter is not visible, but we must still\r
+ //filter the das source list here.\r
+ //July 2006 - only 6 sources fo not serve features\r
+ Object [] dummyFeatureList = new Object[]{"features"};\r
+\r
+ for (int i = 0; i < dSize; i++)\r
+ {\r
+ ds = dasSources[i];\r
+ DasCoordinateSystem[] dcs = ds.getCoordinateSystem();\r
+\r
+ if (dcs.length == 0 && ds.getCapabilities().length == 0\r
+ && filter1.getSelectedIndex() == 0\r
+ && filter2.getSelectedIndex() == 0\r
+ && filter3.getSelectedIndex() == 0)\r
+ {\r
+ //THIS IS A FIX FOR LOCAL SOURCES WHICH DO NOT\r
+ //HAVE COORDINATE SYSTEMS, INFO WHICH AT PRESENT\r
+ //IS ADDED FROM THE REGISTRY\r
+ names.add(ds.getNickname());\r
+ selected.add(new Boolean(\r
+ selectedSources.contains(ds.getNickname())));\r
+ continue;\r
+ }\r
+\r
+\r
+ if (!selectedInList(dummyFeatureList, ds.getCapabilities())\r
+ || !selectedInList(filter3.getSelectedValues(),\r
+ ds.getLabels()))\r
+ {\r
+ continue;\r
+ }\r
+\r
+ for (int j = 0; j < dcs.length; j++)\r
+ {\r
+ if ( selectedInList(filter1.getSelectedValues(),\r
+ new String[]\r
+ {dcs[j].getName()})\r
+ && selectedInList(filter2.getSelectedValues(),\r
+ new String[]\r
+ {dcs[j].getCategory()}))\r
+ {\r
+ names.add(ds.getNickname());\r
+ selected.add(new Boolean(\r
+ selectedSources.contains(ds.getNickname())));\r
+ break;\r
+ }\r
+ }\r
+ }\r
+\r
+ dSize = names.size();\r
+ Object[][] data = new Object[dSize][2];\r
+ for (int d = 0; d < dSize; d++)\r
+ {\r
+ data[d][0] = names.get(d);\r
+ data[d][1] = selected.get(d);\r
+ }\r
+\r
+ refreshTableData(data);\r
+ }\r
+\r
+ boolean selectedInList(Object [] selection, String[] items)\r
+ {\r
+ for (int i = 0; i < selection.length; i++)\r
+ {\r
+ if (selection[i].equals("Any") )\r
+ return true;\r
+\r
+ for (int j = 0; j < items.length; j++)\r
+ {\r
+ if (selection[i].equals(items[j]))\r
+ return true;\r
+ }\r
+ }\r
+\r
+ return false;\r
+ }\r
+\r
+ void setSelectedFromProperties()\r
+ {\r
+ String active = jalview.bin.Cache.getDefault("DAS_ACTIVE_SOURCE", "uniprot");\r
+ StringTokenizer st = new StringTokenizer(active, "\t");\r
+ selectedSources = new Vector();\r
+ while(st.hasMoreTokens())\r
+ {\r
+ selectedSources.addElement(st.nextToken());\r
+ }\r
+\r
+ String local = jalview.bin.Cache.getProperty("DAS_LOCAL_SOURCE");\r
+ if(local!=null)\r
+ {\r
+ if(localSources == null)\r
+ localSources = new Hashtable();\r
+\r
+ st = new StringTokenizer(local, "\t");\r
+ while(st.hasMoreTokens())\r
+ {\r
+ String token = st.nextToken();\r
+ int bar = token.indexOf("|");\r
+ Das1Source source = new Das1Source();\r
+\r
+ source.setUrl(token.substring(bar + 1));\r
+ source.setNickname(token.substring(0, bar));\r
+\r
+ localSources.put(source.getNickname(), source);\r
+ }\r
+ }\r
+ }\r
+\r
+ public void reset_actionPerformed(ActionEvent e)\r
+ {\r
+ registryURL.setText(DEFAULT_REGISTRY);\r
+ }\r
+\r
+ public void saveProperties(Properties properties)\r
+ {\r
+ if (registryURL.getText() == null || registryURL.getText().length() < 1)\r
+ properties.remove("DAS_REGISTRY_URL");\r
+ else\r
+ properties.setProperty("DAS_REGISTRY_URL", registryURL.getText());\r
+\r
+ StringBuffer sb = new StringBuffer();\r
+ for(int r=0; r<table.getModel().getRowCount(); r++)\r
+ {\r
+ if( ((Boolean)table.getValueAt(r,1)).booleanValue())\r
+ {\r
+ sb.append(table.getValueAt(r,0)+"\t");\r
+ }\r
+ }\r
+\r
+ properties.setProperty("DAS_ACTIVE_SOURCE", sb.toString() );\r
+\r
+ if(localSources!=null)\r
+ {\r
+ sb = new StringBuffer();\r
+ Enumeration en = localSources.keys();\r
+ while(en.hasMoreElements())\r
+ {\r
+ String token = en.nextElement().toString();\r
+ sb.append(token+"|"\r
+ + ((DasSource)localSources.get(token)).getUrl()\r
+ +"\t");\r
+ }\r
+\r
+ properties.setProperty("DAS_LOCAL_SOURCE", sb.toString());\r
+ }\r
+\r
+ }\r
+\r
+ class DASTableModel\r
+ extends AbstractTableModel\r
+ {\r
+\r
+ public DASTableModel(Object[][] data)\r
+ {\r
+ this.data = data;\r
+ }\r
+\r
+ private String[] columnNames = new String[] {"Nickname", "Use Source"};\r
+\r
+ private Object[][] data;\r
+\r
+ public int getColumnCount()\r
+ {\r
+ return columnNames.length;\r
+ }\r
+\r
+ public int getRowCount()\r
+ {\r
+ return data.length;\r
+ }\r
+\r
+ public String getColumnName(int col)\r
+ {\r
+ return columnNames[col];\r
+ }\r
+\r
+ public Object getValueAt(int row, int col)\r
+ {\r
+ return data[row][col];\r
+ }\r
+\r
+ /*\r
+ * JTable uses this method to determine the default renderer/\r
+ * editor for each cell. If we didn't implement this method,\r
+ * then the last column would contain text ("true"/"false"),\r
+ * rather than a check box.\r
+ */\r
+ public Class getColumnClass(int c)\r
+ {\r
+ return getValueAt(0, c).getClass();\r
+ }\r
+\r
+ /*\r
+ * Don't need to implement this method unless your table's\r
+ * editable.\r
+ */\r
+ public boolean isCellEditable(int row, int col)\r
+ {\r
+ //Note that the data/cell address is constant,\r
+ //no matter where the cell appears onscreen.\r
+ return col == 1;\r
+\r
+ }\r
+\r
+ /*\r
+ * Don't need to implement this method unless your table's\r
+ * data can change.\r
+ */\r
+ public void setValueAt(Object value, int row, int col)\r
+ {\r
+ data[row][col] = value;\r
+ fireTableCellUpdated(row, col);\r
+\r
+ String name = getValueAt(row,0).toString();\r
+ boolean selected = ((Boolean)value).booleanValue();\r
+\r
+ if(selectedSources.contains(name) && !selected)\r
+ selectedSources.remove(name);\r
+\r
+ if(!selectedSources.contains(name) && selected)\r
+ selectedSources.add(name);\r
+ }\r
+ }\r
+}\r
+\r
+\r
git://source.jalview.org / jalview.git / blobdiff