X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fext%2Fensembl%2FEnsemblSymbol.java;h=9f86731d27b4e070e4cb787d520df4b103e8e496;hb=7aca66e59435c61ed5f5ccfc23734e480e3955d9;hp=b8c8c54f8f912088251c2f5b3b516bffd9b473f2;hpb=76de4fc452184b56e01960d05cb2235b1807e836;p=jalview.git diff --git a/src/jalview/ext/ensembl/EnsemblSymbol.java b/src/jalview/ext/ensembl/EnsemblSymbol.java index b8c8c54..9f86731 100644 --- a/src/jalview/ext/ensembl/EnsemblSymbol.java +++ b/src/jalview/ext/ensembl/EnsemblSymbol.java @@ -1,3 +1,23 @@ +/* + * 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.io.BufferedReader; @@ -42,8 +62,7 @@ public class EnsemblSymbol extends EnsemblXref * @return * @throws IOException */ - protected String parseSymbolResponse(BufferedReader br) - throws IOException + protected String parseSymbolResponse(BufferedReader br) throws IOException { JSONParser jp = new JSONParser(); String result = null; @@ -71,8 +90,7 @@ public class EnsemblSymbol extends EnsemblXref protected URL getUrl(String id, Species species) { String url = getDomain() + "/xrefs/symbol/" + species.toString() + "/" - + id - + "?content-type=application/json"; + + id + "?content-type=application/json"; try { return new URL(url); @@ -94,7 +112,7 @@ public class EnsemblSymbol extends EnsemblXref List result = new ArrayList(); List ids = new ArrayList(); ids.add(identifier); - + String[] queries = identifier.split(getAccessionSeparator()); BufferedReader br = null; try