From: Jim Procter <jprocter@issues.jalview.org>
Date: Tue, 12 Jul 2016 15:37:19 +0000 (+0100)
Subject: JAL-2110 scalability todo
X-Git-Tag: Release_2_10_0~140^2~5^2~8
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=e4080c73e444d415208049ff38f3b26041b071bf;p=jalview.git

JAL-2110 scalability todo
---

diff --git a/src/jalview/analysis/AlignmentUtils.java b/src/jalview/analysis/AlignmentUtils.java
index 37f225c..e2f6749 100644
--- a/src/jalview/analysis/AlignmentUtils.java
+++ b/src/jalview/analysis/AlignmentUtils.java
@@ -2552,6 +2552,7 @@ public class AlignmentUtils
     int width = columnMap.size();
     char gap = unaligned.getGapCharacter();
     int realignedCount = 0;
+    // TODO: verify this loop scales sensibly for very wide/high alignments
 
     for (SequenceI seq : unaligned.getSequences())
     {