import java.util.*;\r
\r
\r
-import org.biojava.services.das.registry.DasCoordinateSystem;\r
-import org.biojava.services.das.registry.DasSource;\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
public DasSourceBrowser()\r
{\r
registryURL.setText(jalview.bin.Cache.getDefault("DAS_REGISTRY_URL",\r
- "http://servlet.sanger.ac.uk/dasregistry/services/das_registry") );\r
+ "http://das.sanger.ac.uk/registry/das1/sources/") );\r
\r
setSelectedFromProperties();\r
\r
displayFullDetails(null);\r
table.setSelectionMode(ListSelectionModel.SINGLE_SELECTION);\r
\r
- capabilities.addListSelectionListener(this);\r
- coords1.addListSelectionListener(this);\r
- coords2.addListSelectionListener(this);\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
text.append("<font color=\"#0000FF\">Description:</font> " +\r
dasSources[i].getDescription() + "<br>");\r
\r
- if (dasSources[i].getHelperurl().length() > 0)\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
\r
public void run()\r
{\r
+\r
addLocal.setVisible(false);\r
refresh.setVisible(false);\r
progressBar.setVisible(true);\r
init();\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
private void setCapabilities(DasSource[] sources)\r
{\r
- Vector vcapabilities = new Vector();\r
- Vector vcoords = new Vector();\r
- Vector vcoords2 = new Vector();\r
+ Vector authority = new Vector();\r
+ Vector type = new Vector();\r
+ Vector label = new Vector();\r
\r
- vcapabilities.addElement("All");\r
- vcoords.addElement("All");\r
- vcoords2.addElement("All");\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
- String[] scap = ds.getCapabilities();\r
- for (int s = 0; s < scap.length; s++)\r
- {\r
- if (!vcapabilities.contains(scap[s]))\r
- {\r
- vcapabilities.addElement(scap[s]);\r
- }\r
- }\r
\r
DasCoordinateSystem[] dcs = ds.getCoordinateSystem();\r
\r
for (int j = 0; j < dcs.length; j++)\r
{\r
- if (!vcoords.contains(dcs[j].getCategory()))\r
- vcoords.addElement(dcs[j].getCategory());\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
- if (!vcoords2.contains(dcs[j].getName()))\r
- vcoords2.addElement(dcs[j].getName());\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
- capabilities.setListData(vcapabilities);\r
- coords1.setListData(vcoords);\r
- coords2.setListData(vcoords2);\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
- capabilities.setSelectedIndex(0);\r
- coords1.setSelectedIndex(0);\r
- coords2.setSelectedIndex(0);\r
+ filter1.setSelectedIndex(0);\r
+ filter2.setSelectedIndex(0);\r
+ filter3.setSelectedIndex(0);\r
}\r
});\r
}\r
if(!urltf.getText().endsWith("/"))\r
urltf.setText(urltf.getText()+"/");\r
\r
- DasSource local = new DasSource();\r
+ Das1Source local = new Das1Source();\r
\r
local.setUrl(urltf.getText());\r
local.setNickname(nametf.getText());\r
String key = en.nextElement().toString();\r
data[index][0] = key;\r
data[index][1] = new Boolean(false);\r
- tmp[index] = new DasSource();\r
+ tmp[index] = new Das1Source();\r
tmp[index].setNickname(key);\r
tmp[index].setUrl( ((DasSource)localSources.get(key)).getUrl() );\r
\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
// capabilities.get\r
for (int i = 0; i < dSize; i++)\r
{\r
ds = dasSources[i];\r
\r
- if (!selectedInList(capabilities, ds.getCapabilities()))\r
+ if (!selectedInList(dummyFeatureList, ds.getCapabilities())\r
+ || !selectedInList(filter3.getSelectedValues(),\r
+ ds.getLabels()))\r
{\r
continue;\r
}\r
DasCoordinateSystem[] dcs = ds.getCoordinateSystem();\r
for (int j = 0; j < dcs.length; j++)\r
{\r
- if (selectedInList(coords1, new String[]\r
- {dcs[j].getCategory()})\r
- && selectedInList(coords2, new String[]\r
- {dcs[j].getName()}))\r
+ if (selectedInList(dummyFeatureList,ds.getCapabilities())\r
+ &&\r
+ 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
refreshTableData(data);\r
}\r
\r
- boolean selectedInList(JList list, String[] items)\r
+ boolean selectedInList(Object [] selection, String[] items)\r
{\r
- Object[] selection = list.getSelectedValues();\r
for (int i = 0; i < selection.length; i++)\r
{\r
- if (selection[i].equals("All"))\r
+ if (selection[i].equals("Any"))\r
return true;\r
\r
for (int j = 0; j < items.length; j++)\r
{\r
String token = st.nextToken();\r
int bar = token.indexOf("|");\r
- DasSource source = new DasSource();\r
+ Das1Source source = new Das1Source();\r
\r
source.setUrl(token.substring(bar + 1));\r
source.setNickname(token.substring(0, bar));\r
}\r
}\r
\r
- void saveProperties(Properties properties)\r
+ public void saveProperties(Properties properties)\r
{\r
- properties.setProperty("DAS_REGISTRY_URL", registryURL.getText());\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
git://source.jalview.org / jalview.git / blobdiff