X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;ds=sidebyside;f=src%2Fjalview%2Fcommands%2FRemoveGapsCommand.java;h=c81f04f58d39733e8cd486d9c8f90260b9037ce9;hb=9876fdccf311378e690c1f9e18db52675d427b89;hp=631d50ac17355347ed2fbf9dddfd91ff8ba17b5b;hpb=d423f22792e47dbc800ae220a58677f988971d06;p=jalview.git
diff --git a/src/jalview/commands/RemoveGapsCommand.java b/src/jalview/commands/RemoveGapsCommand.java
index 631d50a..c81f04f 100644
--- a/src/jalview/commands/RemoveGapsCommand.java
+++ b/src/jalview/commands/RemoveGapsCommand.java
@@ -1,19 +1,22 @@
/*
- * Jalview - A Sequence Alignment Editor and Viewer (Version 2.5)
- * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9)
+ * Copyright (C) 2015 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.
- *
+ * 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 .
+ * You should have received a copy of the GNU General Public License
+ * along with Jalview. If not, see .
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
*/
package jalview.commands;
@@ -36,7 +39,8 @@ package jalview.commands;
* Franklin Street, Fifth Floor, Boston, MA 02110-1301, USA
*/
-import jalview.datamodel.*;
+import jalview.datamodel.AlignmentI;
+import jalview.datamodel.SequenceI;
public class RemoveGapsCommand extends EditCommand
{
@@ -71,7 +75,7 @@ public class RemoveGapsCommand extends EditCommand
int j, jSize;
- edits = new Edit[0];
+ clearEdits();
boolean delete = true;
char[] sequence;
@@ -105,9 +109,9 @@ public class RemoveGapsCommand extends EditCommand
if (!delete && startCol > -1)
{
- this.appendEdit(DELETE_GAP, new SequenceI[]
- { seqs[s] }, start + startCol - deletedCols, endCol - startCol,
- al, false, null);
+ this.appendEdit(Action.DELETE_GAP, new SequenceI[] { seqs[s] },
+ start + startCol - deletedCols, endCol - startCol, al,
+ false, null);
deletedCols += (endCol - startCol);
startCol = -1;
@@ -116,8 +120,8 @@ public class RemoveGapsCommand extends EditCommand
}
if (delete && startCol > -1)
{
- this.appendEdit(DELETE_GAP, new SequenceI[]
- { seqs[s] }, start + startCol - deletedCols, jSize - startCol, al,
+ this.appendEdit(Action.DELETE_GAP, new SequenceI[] { seqs[s] },
+ start + startCol - deletedCols, jSize - startCol, al,
false, null);
}