X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fcommands%2FRemoveGapsCommand.java;h=c5c35f192de109d7a6fda3aeb4e4510e0b70f1ca;hb=3d0101179759ef157b088ea135423cd909512d9f;hp=e3329ab577e8aa86bf37d6550878b58b25a3c9b3;hpb=59d682209891099d46b960509907c79e3fb276fe;p=jalview.git
diff --git a/src/jalview/commands/RemoveGapsCommand.java b/src/jalview/commands/RemoveGapsCommand.java
index e3329ab..c5c35f1 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 2.8)
- * Copyright (C) 2012 J Procter, AM Waterhouse, LM Lui, J Engelhardt, G Barton, M Clamp, S Searle
+ * 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.
+ * 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 +109,10 @@ 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;
@@ -116,9 +121,10 @@ public class RemoveGapsCommand extends EditCommand
}
if (delete && startCol > -1)
{
- this.appendEdit(DELETE_GAP, new SequenceI[]
- { seqs[s] }, start + startCol - deletedCols, jSize - startCol, al,
- false, null);
+ this.appendEdit(
+ Action.DELETE_GAP, new SequenceI[]
+ { seqs[s] }, start + startCol - deletedCols,
+ jSize - startCol, al, false, null);
}
}