JAL-2110 remove hardwired detection of search context from the dataset ‘isNucleotide...

[jalview.git] / test / jalview / ws / SequenceFetcherTest.java

diff --git a/test/jalview/ws/SequenceFetcherTest.java b/test/jalview/ws/SequenceFetcherTest.java
index 50fb3c0..4e08430 100644 (file)
--- a/test/jalview/ws/SequenceFetcherTest.java
+++ b/test/jalview/ws/SequenceFetcherTest.java
@@ -108,7 +108,7 @@ public class SequenceFetcherTest
             // try and find products
             CrossRef crossRef = new CrossRef(al.getSequencesArray(),
                     al);
-            List<String> types = crossRef.findXrefSourcesForSequences();
+            List<String> types = crossRef.findXrefSourcesForSequences(dna);
             if (types != null)
             {
               System.out.println("Xref Types for: "
@@ -116,7 +116,7 @@ public class SequenceFetcherTest
               for (String source : types)
               {
                 System.out.println("Type: " + source);
-                SequenceI[] prod = crossRef.findXrefSequences(source)
+                SequenceI[] prod = crossRef.findXrefSequences(source, dna)
                         .getSequencesArray();
                 System.out.println("Found "
                         + ((prod == null) ? "no" : "" + prod.length)
@@ -199,8 +199,8 @@ public class SequenceFetcherTest
           // have a bash at finding the products amongst all the retrieved
           // sequences.
           SequenceI[] seqs = al.getSequencesArray();
-          Alignment prodal = new CrossRef(seqs, ds)
-                  .findXrefSequences(null);
+          Alignment prodal = new CrossRef(seqs, ds).findXrefSequences(null,
+                  dna);
           System.out.println("Found "
                   + ((prodal == null) ? "no" : "" + prodal.getHeight())
                   + " products");