JAL-3210 Barebones gradle/buildship/eclipse. See README

[jalview.git] / src / jalview / api / JalviewApp.java

diff --git a/src/jalview/api/JalviewApp.java b/src/jalview/api/JalviewApp.java
deleted file mode 100644 (file)
index 0548c85..0000000
--- a/src/jalview/api/JalviewApp.java
+++ /dev/null
@@ -1,82 +0,0 @@
-package jalview.api;
-
-import jalview.datamodel.ColumnSelection;
-import jalview.datamodel.HiddenColumns;
-import jalview.datamodel.PDBEntry;
-import jalview.datamodel.SequenceGroup;
-import jalview.datamodel.SequenceI;
-import jalview.io.DataSourceType;
-import jalview.io.NewickFile;
-import jalview.javascript.JSFunctionExec;
-import jalview.javascript.MouseOverStructureListener;
-import jalview.structure.SelectionSource;
-import jalview.structure.VamsasSource;
-
-import java.applet.AppletContext;
-import java.io.IOException;
-import java.net.URL;
-import java.util.Hashtable;
-import java.util.Vector;
-
-import netscape.javascript.JSObject;
-
-public interface JalviewApp
-{
-  public String getParameter(String name);
-
-  public boolean getDefaultParameter(String name, boolean def);
-
-  public URL getDocumentBase();
-
-  public URL getCodeBase();
-
-  public void setAlignPdbStructures(boolean defaultParameter);
-
-  public void newStructureView(PDBEntry pdb, SequenceI[] seqs,
-          String[] chains, DataSourceType protocol);
-
-  public void alignedStructureView(PDBEntry[] pdb, SequenceI[][] seqs,
-          String[][] chains, String[] protocols);
-
-  public void updateForAnnotations();
-
-  public AlignViewportI getViewport();
-
-  public void setFeatureGroupState(String[] groups, boolean state);
-
-  public boolean parseFeaturesFile(String param, DataSourceType protocol);
-
-  public void newFeatureSettings();
-
-  public boolean loadScoreFile(String sScoreFile) throws IOException;
-
-  public void loadTree(NewickFile fin, String treeFile) throws IOException;
-
-  public Vector<Runnable> getJsExecQueue(JSFunctionExec jsFunctionExec);
-
-  public AppletContext getAppletContext();
-
-  public boolean isJsfallbackEnabled();
-
-  public JSObject getJSObject();
-
-  public StructureSelectionManagerProvider getStructureSelectionManagerProvider();
-
-  public void updateColoursFromMouseOver(Object source,
-          MouseOverStructureListener mouseOverStructureListener);
-
-  public Object[] getSelectionForListener(SequenceGroup seqsel, ColumnSelection colsel,
-          HiddenColumns hidden, SelectionSource source, Object alignFrame);
-
-  public String arrayToSeparatorList(String[] array);
-
-  public Hashtable<String, int[]> getJSHashes();
-
-  Hashtable<String, Hashtable<String, String[]>> getJSMessages();
-
-  public Object getFrameForSource(VamsasSource source);
-
-  public jalview.renderer.seqfeatures.FeatureRenderer getNewFeatureRenderer(
-          AlignViewportI vp);
-
-}