From: Jim Procter <jprocter@issues.jalview.org>
Date: Thu, 23 Jun 2016 13:12:09 +0000 (+0100)
Subject: JAL-2110 warning message when routine finds non-ds sequences in the dataset (seems... 
X-Git-Tag: Release_2_10_0~140^2~5^2~39
X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=37ccad699d3f506184538702799df55866211528;p=jalview.git

JAL-2110 warning message when routine finds non-ds sequences in the dataset (seems to happen with alignments returned from Ensembl sequence fetcher)
---

diff --git a/src/jalview/analysis/CrossRef.java b/src/jalview/analysis/CrossRef.java
index 2c5393d..1cd6a3d 100644
--- a/src/jalview/analysis/CrossRef.java
+++ b/src/jalview/analysis/CrossRef.java
@@ -801,7 +801,11 @@ public class CrossRef
           if (nxt.getDatasetSequence() != null)
           {
             System.err
-                    .println("Implementation warning: getProducts passed a dataset alignment without dataset sequences in it!");
+                    .println("Implementation warning: CrossRef initialised with a dataset alignment with non-dataset sequences in it! ("
+                            + nxt.getDisplayId(true)
+                            + " has ds reference "
+                            + nxt.getDatasetSequence().getDisplayId(true)
+                            + ")");
           }
           if (nxt == sequenceI || nxt == sequenceI.getDatasetSequence())
           {