X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=src%2Fjalview%2Fio%2FPileUpfile.java;h=79c6531ee68529bb793f00db9693f49446c15817;hb=df7802fdd54e7d3b12bda12ac55e6057c985bdf2;hp=64905f0eb6c1b95bb1eada2ffc22ae117fa45c73;hpb=ab43013b7e357b84b4abade0dba949668dfb2a0e;p=jalview.git diff --git a/src/jalview/io/PileUpfile.java b/src/jalview/io/PileUpfile.java index 64905f0..79c6531 100755 --- a/src/jalview/io/PileUpfile.java +++ b/src/jalview/io/PileUpfile.java @@ -1,6 +1,6 @@ /* - * Jalview - A Sequence Alignment Editor and Viewer (Version 2.8.2b1) - * Copyright (C) 2014 The Jalview Authors + * Jalview - A Sequence Alignment Editor and Viewer ($$Version-Rel$$) + * Copyright (C) $$Year-Rel$$ The Jalview Authors * * This file is part of Jalview. * @@ -35,10 +35,10 @@ package jalview.io; * found in Emboss (thanks David Martin!) * */ -import java.io.*; +import jalview.datamodel.SequenceI; +import jalview.util.Format; -import jalview.datamodel.*; -import jalview.util.*; +import java.io.IOException; public class PileUpfile extends MSFfile { @@ -76,11 +76,13 @@ public class PileUpfile extends MSFfile * * @return DOCUMENT ME! */ + @Override public String print() { return print(getSeqsAsArray()); } + @Override public String print(SequenceI[] s) { StringBuffer out = new StringBuffer("PileUp"); @@ -141,12 +143,7 @@ public class PileUpfile extends MSFfile int len = 50; - int nochunks = (max / len) + 1; - - if ((max % len) == 0) - { - nochunks--; - } + int nochunks = (max / len) + (max % len > 0 ? 1 : 0); for (i = 0; i < nochunks; i++) {