X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fws2%2Factions%2Fannotation%2FAnnotationAction.java;fp=src%2Fjalview%2Fws2%2Factions%2Fannotation%2FAnnotationAction.java;h=02829fd0e30e9a6f6815000ec90b1c2f4fe7012e;hb=bea1d9b563d2fea018de3dbde9112dd59149126e;hp=0000000000000000000000000000000000000000;hpb=49ab19e8189569edf0bc1f4ba8dac14e67f4ca36;p=jalview.git

diff --git a/src/jalview/ws2/actions/annotation/AnnotationAction.java b/src/jalview/ws2/actions/annotation/AnnotationAction.java
new file mode 100644
index 0000000..02829fd
--- /dev/null
+++ b/src/jalview/ws2/actions/annotation/AnnotationAction.java
@@ -0,0 +1,128 @@
+package jalview.ws2.actions.annotation;
+
+import java.util.List;
+import java.util.Objects;
+
+import jalview.viewmodel.AlignmentViewport;
+import jalview.ws.params.ArgumentI;
+import jalview.ws2.actions.BaseAction;
+import jalview.ws2.actions.api.TaskEventListener;
+import jalview.ws2.actions.api.TaskI;
+import jalview.ws2.api.Credentials;
+import jalview.ws2.client.api.AnnotationWebServiceClientI;
+
+public class AnnotationAction extends BaseAction<AnnotationResult>
+{
+  /**
+   * A builder of {@link AnnotationAction} instances.
+   */
+  public static class Builder extends BaseAction.Builder<AnnotationAction>
+  {
+    protected AnnotationWebServiceClientI client;
+    
+    protected boolean alignmentAnalysis = false;
+    
+    protected boolean requireAlignedSequences = false;
+    
+    protected boolean filterSymbols = true;
+
+    public Builder(AnnotationWebServiceClientI client)
+    {
+      super();
+      Objects.requireNonNull(client);
+      this.client = client;
+    }
+    
+    /**
+     * Set if action is an alignment analysis action.
+     */
+    public void alignmentAnalysis(boolean val)
+    {
+      alignmentAnalysis = val;
+    }
+    
+    /**
+     * Set if action require aligned sequences.
+     */
+    public void requireAlignedSequences(boolean val)
+    {
+      requireAlignedSequences = val;
+    }
+
+    /**
+     * Set if action requires non-standard residues to be filtered out 
+     */
+    public void filterSymbols(boolean val)
+    {
+      filterSymbols = val;
+    }
+
+    public AnnotationAction build()
+    {
+      return new AnnotationAction(this);
+    }
+  }
+
+  public static Builder newBuilder(AnnotationWebServiceClientI client)
+  {
+    return new Builder(client);
+  }
+
+  protected final AnnotationWebServiceClientI client;
+  
+  protected final boolean alignmentAnalysis;
+  
+  protected final boolean requireAlignedSequences;
+  
+  protected final boolean filterSymbols;
+
+  protected AnnotationAction(Builder builder)
+  {
+    super(builder);
+    client = builder.client;
+    alignmentAnalysis = builder.alignmentAnalysis;
+    requireAlignedSequences = builder.requireAlignedSequences;
+    filterSymbols = builder.filterSymbols;
+  }
+
+  @Override
+  public TaskI<AnnotationResult> perform(AlignmentViewport viewport,
+      List<ArgumentI> args, Credentials credentials,
+      TaskEventListener<AnnotationResult> handler)
+  {
+    var task = new AnnotationTask(client, this, args, credentials, viewport,
+        handler);
+    task.start(viewport.getCalcManager());
+    return task;
+  }
+
+  /**
+   * Return if this action is an alignment analysis service.
+   */
+  public boolean isAlignmentAnalysis()
+  {
+    return alignmentAnalysis;
+  }
+
+  /**
+   * Return if this action require sequences to be aligned.
+   */
+  public boolean getRequireAlignedSequences()
+  {
+    return requireAlignedSequences;
+  }
+  
+  /**
+   * Return if this action require non-standard symbols to be filtered out.
+   */
+  public boolean getFilterSymbols()
+  {
+    return filterSymbols;
+  }
+  
+  @Override
+  public boolean isActive(AlignmentViewport viewport)
+  {
+    return false;
+  }
+}