X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fext%2Fensembl%2FSpecies.java;h=cc5465e4579a9fa815430899006bc0eb4c890543;hb=ff425ad8a4419c01b52734dc4054a509961c15c0;hp=d8a00a5a1e726571eb3f053a951ec01ef9f8dbd3;hpb=550c391f0c113658e540783dc89034a34280ef18;p=jalview.git
diff --git a/src/jalview/ext/ensembl/Species.java b/src/jalview/ext/ensembl/Species.java
index d8a00a5..cc5465e 100644
--- a/src/jalview/ext/ensembl/Species.java
+++ b/src/jalview/ext/ensembl/Species.java
@@ -1,5 +1,28 @@
+/*
+ * 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 .
+ * The Jalview Authors are detailed in the 'AUTHORS' file.
+ */
package jalview.ext.ensembl;
+import java.util.HashSet;
+import java.util.Set;
+
/**
* Selected species identifiers used by Ensembl
*
@@ -14,10 +37,22 @@ enum Species
*/
human(true), mouse(true), s_cerevisiae(true), cow(false), pig(false),
rat(true), celegans(true), sheep(false), horse(false), gorilla(false),
- rabbit(false), gibbon(false), dog(false), orangutan(false),
- xenopus(true), chimpanzee(false), cat(false), zebrafish(true), chicken(
- true), dmelanogaster(true);
+ rabbit(false), gibbon(false), dog(false), orangutan(false), xenopus(true),
+ chimpanzee(false), cat(false), zebrafish(true), chicken(true),
+ dmelanogaster(true);
+
+ static Set modelOrganisms = new HashSet<>();
+ static
+ {
+ for (Species s : values())
+ {
+ if (s.isModelOrganism())
+ {
+ modelOrganisms.add(s);
+ }
+ }
+ }
boolean modelOrganism;
private Species(boolean model)
@@ -29,4 +64,9 @@ enum Species
{
return modelOrganism;
}
+
+ public static Set getModelOrganisms()
+ {
+ return modelOrganisms;
+ }
}