X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fdatamodel%2Fxdb%2Fembl%2FEmblEntry.java;h=6ed84040e3deada05409af77d759c309ae0a8c52;hb=ab43013b7e357b84b4abade0dba949668dfb2a0e;hp=bc1e5ab9b0bef65ff61b796012035845ce54940d;hpb=d423f22792e47dbc800ae220a58677f988971d06;p=jalview.git diff --git a/src/jalview/datamodel/xdb/embl/EmblEntry.java b/src/jalview/datamodel/xdb/embl/EmblEntry.java index bc1e5ab..6ed8404 100644 --- a/src/jalview/datamodel/xdb/embl/EmblEntry.java +++ b/src/jalview/datamodel/xdb/embl/EmblEntry.java @@ -1,19 +1,22 @@ /* - * Jalview - A Sequence Alignment Editor and Viewer (Version 2.5) - * Copyright (C) 2010 J Procter, AM Waterhouse, G Barton, M Clamp, S Searle + * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2b1) + * Copyright (C) 2014 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. - * + * 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 . + * 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.datamodel.xdb.embl; @@ -585,10 +588,9 @@ public class EmblEntry { // extract proteins. product = new Sequence(prid, prseq, 1, prseq.length()); - product - .setDescription(((prname.length() == 0) ? "Protein Product from " - + sourceDb - : prname)); + product.setDescription(((prname.length() == 0) ? "Protein Product from " + + sourceDb + : prname)); if (!noPeptide) { // Protein is also added to vector of sequences returned @@ -713,16 +715,16 @@ public class EmblEntry } if (product != null) { - DBRefEntry pref = new DBRefEntry(ref.getSource(), ref - .getVersion(), ref.getAccessionId()); + DBRefEntry pref = new DBRefEntry(ref.getSource(), + ref.getVersion(), ref.getAccessionId()); pref.setMap(null); // reference is direct product.addDBRef(pref); // Add converse mapping reference if (map != null) { Mapping pmap = new Mapping(dna, map.getMap().getInverse()); - pref = new DBRefEntry(sourceDb, getVersion(), this - .getAccession()); + pref = new DBRefEntry(sourceDb, getVersion(), + this.getAccession()); pref.setMap(pmap); if (map.getTo() != null) {