+/*
+ * 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 static org.testng.Assert.assertEquals;
* T>C at dna13, consequence CGT>CGC synonymous
*/
List<SequenceFeature> features = new ArrayList<>();
- SequenceFeature sf1 = new SequenceFeature("sequence_variant", "C,T",
- 11, 11, null);
+ SequenceFeature sf1 = new SequenceFeature("sequence_variant", "C,T", 11,
+ 11, null);
sf1.setValue("alleles", "C,T");
features.add(sf1);
SequenceFeature sf2 = new SequenceFeature("sequence_variant", "T,C", 13,
/*
* missense variant in first codon
*/
- MappedFeatures mf = new MappedFeatures(mapping, from, 1, 'R',
- features);
+ MappedFeatures mf = new MappedFeatures(mapping, from, 1, 'R', features);
String variant = mf.findProteinVariants(sf1);
assertEquals(variant, "p.Arg1Cys");