X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fio%2FAMSAFile.java;h=6e81464cd743e57591f873dd10d23fb2fefcfe70;hb=67b3acb8df1438ef37a756c04e14f5a3b8406808;hp=7f5c6801865c9d076db0301bfc84841333491859;hpb=d423f22792e47dbc800ae220a58677f988971d06;p=jalview.git diff --git a/src/jalview/io/AMSAFile.java b/src/jalview/io/AMSAFile.java index 7f5c680..6e81464 100644 --- a/src/jalview/io/AMSAFile.java +++ b/src/jalview/io/AMSAFile.java @@ -1,25 +1,29 @@ /* - * 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 ($$Version-Rel$$) + * 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. - * + * 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.io; -import jalview.datamodel.*; +import jalview.datamodel.AlignmentAnnotation; +import jalview.datamodel.AlignmentI; -public class AMSAFile extends jalview.io.FastaFile +public class AMSAFile extends FastaFile { AlignmentI al; @@ -60,7 +64,7 @@ public class AMSAFile extends jalview.io.FastaFile out.append(" " + aa.description); } - out.append("\n"); + out.append(newline); int nochunks = Math.min(aa.annotations.length, al.getWidth()) / len + 1; @@ -93,7 +97,7 @@ public class AMSAFile extends jalview.io.FastaFile out.append(ch); } - out.append("\n"); + out.append(newline); } } }