--- /dev/null
+/*
+ * 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.commands;
+
+import static org.testng.AssertJUnit.assertEquals;
+
+import jalview.datamodel.Alignment;
+import jalview.datamodel.AlignmentI;
+import jalview.datamodel.Sequence;
+import jalview.datamodel.SequenceI;
+
+import org.testng.annotations.BeforeMethod;
+import org.testng.annotations.Test;
+
+/**
+ * Unit tests for TrimRegionCommand
+ *
+ * @author gmcarstairs
+ *
+ */
+public class TrimRegionCommandTest
+{
+ private AlignmentI al;
+
+ @BeforeMethod(alwaysRun = true)
+ public void setUp()
+ {
+ SequenceI[] seqs = new SequenceI[2];
+ seqs[0] = new Sequence("seq0", "abcde-");
+ seqs[1] = new Sequence("seq1", "-ghjkl");
+ al = new Alignment(seqs);
+ al.setDataset(null);
+ }
+
+ /**
+ * Test performing, undoing and redoing a 'trim left'
+ */
+ @Test(groups = { "Functional" })
+ public void testTrimLeft_withUndoAndRedo()
+ {
+ TrimRegionCommand cmd = new TrimRegionCommand("Remove Left", true,
+ al.getSequencesArray(), 2, al);
+ assertEquals(2, cmd.getSize());
+ assertEquals("cde-", al.getSequenceAt(0).getSequenceAsString());
+ assertEquals("hjkl", al.getSequenceAt(1).getSequenceAsString());
+
+ /*
+ * undo and verify
+ */
+ cmd.undoCommand(new AlignmentI[] { al });
+ assertEquals("abcde-", al.getSequenceAt(0).getSequenceAsString());
+ assertEquals("-ghjkl", al.getSequenceAt(1).getSequenceAsString());
+
+ /*
+ * redo and verify
+ */
+ cmd.doCommand(new AlignmentI[] { al });
+ assertEquals("cde-", al.getSequenceAt(0).getSequenceAsString());
+ assertEquals("hjkl", al.getSequenceAt(1).getSequenceAsString());
+ }
+
+ /**
+ * Trim left of no columns - should do nothing. This is the case where the
+ * first column is selected and 'Remove Left' is selected.
+ */
+ @Test(groups = { "Functional" })
+ public void testTrimLeft_noColumns()
+ {
+ TrimRegionCommand cmd = new TrimRegionCommand("Remove Left", true,
+ al.getSequencesArray(), 0, al);
+ assertEquals(0, cmd.getSize());
+ assertEquals("abcde-", al.getSequenceAt(0).getSequenceAsString());
+ assertEquals("-ghjkl", al.getSequenceAt(1).getSequenceAsString());
+ }
+
+ /**
+ * Trim left of a single column
+ */
+ @Test(groups = { "Functional" })
+ public void testTrimLeft_oneColumn()
+ {
+ TrimRegionCommand cmd = new TrimRegionCommand("Remove Left", true,
+ al.getSequencesArray(), 1, al);
+ assertEquals(1, cmd.getSize());
+ assertEquals("bcde-", al.getSequenceAt(0).getSequenceAsString());
+ assertEquals("ghjkl", al.getSequenceAt(1).getSequenceAsString());
+ }
+
+ /**
+ * Trim right of no columns - should do nothing. This is the case where the
+ * last column is selected and 'Remove Right' is selected.
+ */
+ @Test(groups = { "Functional" })
+ public void testTrimRight_noColumns()
+ {
+ TrimRegionCommand cmd = new TrimRegionCommand("Remove Right", false,
+ al.getSequencesArray(), 5, al);
+ assertEquals(0, cmd.getSize());
+ assertEquals("abcde-", al.getSequenceAt(0).getSequenceAsString());
+ assertEquals("-ghjkl", al.getSequenceAt(1).getSequenceAsString());
+ }
+
+ /**
+ * Trim right of a single column
+ */
+ @Test(groups = { "Functional" })
+ public void testTrimRight_oneColumn()
+ {
+ TrimRegionCommand cmd = new TrimRegionCommand("Remove Right", false,
+ al.getSequencesArray(), 4, al);
+ assertEquals(1, cmd.getSize());
+ assertEquals("abcde", al.getSequenceAt(0).getSequenceAsString());
+ assertEquals("-ghjk", al.getSequenceAt(1).getSequenceAsString());
+ }
+
+ /**
+ * Test performing, undoing and redoing a 'trim right'
+ */
+ @Test(groups = { "Functional" })
+ public void testTrimRight_withUndoAndRedo()
+ {
+ TrimRegionCommand cmd = new TrimRegionCommand("Remove Right", false,
+ al.getSequencesArray(), 2, al);
+ assertEquals(3, cmd.getSize());
+ assertEquals("abc", al.getSequenceAt(0).getSequenceAsString());
+ assertEquals("-gh", al.getSequenceAt(1).getSequenceAsString());
+
+ /*
+ * undo and verify
+ */
+ cmd.undoCommand(new AlignmentI[] { al });
+ assertEquals("abcde-", al.getSequenceAt(0).getSequenceAsString());
+ assertEquals("-ghjkl", al.getSequenceAt(1).getSequenceAsString());
+
+ /*
+ * redo and verify
+ */
+ cmd.doCommand(new AlignmentI[] { al });
+ assertEquals("abc", al.getSequenceAt(0).getSequenceAsString());
+ assertEquals("-gh", al.getSequenceAt(1).getSequenceAsString());
+ }
+}