From b938d55838925c0fa1426c166f670871e2614ebf Mon Sep 17 00:00:00 2001 From: TZVanaalten Date: Thu, 17 Aug 2017 10:18:53 +0100 Subject: [PATCH] JAL-2599 some slight renaming of variables and methods --- src/jalview/datamodel/Alignment.java | 2 +- src/jalview/io/HMMFile.java | 3 --- 2 files changed, 1 insertion(+), 4 deletions(-) diff --git a/src/jalview/datamodel/Alignment.java b/src/jalview/datamodel/Alignment.java index abbd8e3..fa0ca2f 100755 --- a/src/jalview/datamodel/Alignment.java +++ b/src/jalview/datamodel/Alignment.java @@ -1991,7 +1991,7 @@ public class Alignment implements AlignmentI * with HMMs. If remove is set to true, the consensus sequences will be * removed from the alignment. */ - @Override + @Override // TODO make this more efficient. public List getHMMConsensusSequences(boolean remove) { List seqs = new ArrayList<>(); diff --git a/src/jalview/io/HMMFile.java b/src/jalview/io/HMMFile.java index 1f3318c..28aa62f 100644 --- a/src/jalview/io/HMMFile.java +++ b/src/jalview/io/HMMFile.java @@ -725,9 +725,6 @@ public class HMMFile extends AlignFile SequenceI hmmSeq = hmm.initHMMSequence(); SequenceI[] seq = new SequenceI[1]; seq[0] = hmmSeq; - // view.initInformation(); - // view.updateInformation(view.panel); - // getViewport().alignmentChanged(alignPanel); return seq; } -- 1.7.10.2