+/*
+ * Jalview - A Sequence Alignment Editor and Viewer (Version 2.9.0b2)
+ * 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.
+ *
+ * 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.json.binding.biojson.v1;
-
import java.util.ArrayList;
import java.util.HashMap;
import java.util.List;
import com.github.reinert.jjschema.Attributes;
-@Attributes(title="BioJSON", description="A specification for the representation and exchange of bioinformatics data")
+@Attributes(
+ title = "BioJSON",
+ description = "A specification for the representation and exchange of bioinformatics data")
public class AlignmentPojo
{
- @Attributes(required = true, description = "Serial version identifier for <b>BioJSON</b> schema")
+ @Attributes(
+ required = true,
+ description = "Serial version identifier for <b>BioJSON</b> schema")
private String svid = "1.0";
@Attributes(
required = true,
minItems = 1,
- description = "An array of Sequences which makes up the Alignment")
+ description = "An array of Sequences which makes up the Alignment")
private List<SequencePojo> seqs = new ArrayList<SequencePojo>();
@Attributes(
"Blosum62", "RNA Helices", "% Identity" },
description = "The <a href=\"#colourScheme\">Colour Scheme</a> applied to the alignment")
private String colourScheme;
-
+
@Attributes(
- required = true,
- maxItems = 0, description = "AppSettings stores key=value pairs of custom application specific <br>"
- + "settings (i.e visualisation settings, etc) for different applications<br>"
- + "that consume or generate BioJSON")
+ required = true,
+ maxItems = 0,
+ description = "AppSettings stores key=value pairs of custom application specific <br>"
+ + "settings (i.e visualisation settings, etc) for different applications<br>"
+ + "that consume or generate BioJSON")
Map<String, Object> appSettings = new HashMap<String, Object>();
public AlignmentPojo()