Merge branch 'develop' into features/JAL-250_hideredundantseqs

[jalview.git] / src / jalview / datamodel / AllColsCollection.java

diff --git a/src/jalview/datamodel/AllColsCollection.java b/src/jalview/datamodel/AllColsCollection.java
new file mode 100644 (file)
index 0000000..4ac4f83
--- /dev/null
+++ b/src/jalview/datamodel/AllColsCollection.java
@@ -0,0 +1,53 @@
+/*
+ * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$)
+ * Copyright (C) $$Year-Rel$$ The Jalview Authors
+ * 
+ * This file is part of Jalview.
+ * 
+ * Jalview is free software: you can redistribute it and/or
+ * modify it under the terms of the GNU General Public License 
+ * as published by the Free Software Foundation, either version 3
+ * of the License, or (at your option) any later version.
+ *  
+ * Jalview is distributed in the hope that it will be useful, but 
+ * WITHOUT ANY WARRANTY; without even the implied warranty 
+ * of MERCHANTABILITY or FITNESS FOR A PARTICULAR 
+ * PURPOSE.  See the GNU General Public License for more details.
+ * 
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview.  If not, see <http://www.gnu.org/licenses/>.
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
+package jalview.datamodel;
+
+import jalview.api.AlignmentColsCollectionI;
+
+import java.util.Iterator;
+
+public class AllColsCollection implements AlignmentColsCollectionI
+{
+  int start;
+
+  int end;
+
+  HiddenColumns hidden;
+
+  public AllColsCollection(int s, int e, AlignmentI al)
+  {
+    start = s;
+    end = e;
+    hidden = al.getHiddenColumns();
+  }
+
+  @Override
+  public Iterator<Integer> iterator()
+  {
+    return new AllColsIterator(start, end, hidden);
+  }
+
+  @Override
+  public boolean isHidden(int c)
+  {
+    return !hidden.isVisible(c);
+  }
+}