JAL-2480 methods to get features for group

[jalview.git] / src / jalview / datamodel / features / FeatureStore.java

diff --git a/src/jalview/datamodel/features/FeatureStore.java b/src/jalview/datamodel/features/FeatureStore.java
index 432f62d..c6a49db 100644 (file)
--- a/src/jalview/datamodel/features/FeatureStore.java
+++ b/src/jalview/datamodel/features/FeatureStore.java
@@ -980,4 +980,41 @@ public class FeatureStore
   {
     return positional ? positionalMaxScore : nonPositionalMaxScore;
   }
+
+  /**
+   * Answers a list of all either positional or non-positional features whose
+   * feature group matches the given group (which may be null)
+   * 
+   * @param positional
+   * @param group
+   * @return
+   */
+  public List<SequenceFeature> getFeaturesForGroup(boolean positional,
+          String group)
+  {
+    List<SequenceFeature> result = new ArrayList<SequenceFeature>();
+
+    /*
+     * if we know features don't include the target group, no need
+     * to inspect them for matches
+     */
+    if (positional && !positionalFeatureGroups.contains(group)
+            || !positional && !nonPositionalFeatureGroups.contains(group))
+    {
+      return result;
+    }
+
+    List<SequenceFeature> sfs = positional ? getPositionalFeatures()
+            : getNonPositionalFeatures();
+    for (SequenceFeature sf : sfs)
+    {
+      String featureGroup = sf.getFeatureGroup();
+      if (group == null && featureGroup == null || group != null
+              && group.equals(featureGroup))
+      {
+        result.add(sf);
+      }
+    }
+    return result;
+  }
 }