From a877f7df0b7d796154087e77a424888e66f36e88 Mon Sep 17 00:00:00 2001 From: jprocter Date: Thu, 26 May 2005 17:21:48 +0000 Subject: [PATCH] fixed use of PID rather than 'Comparison' Alignment percentage id calculation. --- src/jalview/datamodel/Alignment.java | 4 ++-- 1 file changed, 2 insertions(+), 2 deletions(-) diff --git a/src/jalview/datamodel/Alignment.java b/src/jalview/datamodel/Alignment.java index d953598..9deb7e2 100755 --- a/src/jalview/datamodel/Alignment.java +++ b/src/jalview/datamodel/Alignment.java @@ -223,8 +223,8 @@ public class Alignment implements AlignmentI if (!del.contains( (SequenceI) sel.elementAt(i)) || !del.contains( (SequenceI) sel.elementAt(j))) { - - float pid = Comparison.compare( (SequenceI) sel.elementAt(j), + // use PID instead of Comparison (which is really not pleasant) + float pid = Comparison.PID( (SequenceI) sel.elementAt(j), (SequenceI) sel.elementAt(i)); if (pid >= threshold) -- 1.7.10.2