From 0703daae05998509e4f5b301224c61ccec3b77e2 Mon Sep 17 00:00:00 2001 From: Jim Procter Date: Tue, 27 Jan 2015 17:18:05 +0000 Subject: [PATCH 1/1] JAL-674 JAL-1270 added settings to ensure temperature and secondary structure are propagated and finer grain checks on presence of annotation --- test/jalview/structure/Mapping.java | 6 +++++- 1 file changed, 5 insertions(+), 1 deletion(-) diff --git a/test/jalview/structure/Mapping.java b/test/jalview/structure/Mapping.java index b0144fc..716755b 100644 --- a/test/jalview/structure/Mapping.java +++ b/test/jalview/structure/Mapping.java @@ -245,6 +245,8 @@ public class Mapping newseq.setStart(refseq.getStart() + 25); newseq.setEnd(refseq.getLength() + 25 + refseq.getStart()); StructureSelectionManager ssm = new jalview.structure.StructureSelectionManager(); + ssm.setProcessSecondaryStructure(true); + ssm.setAddTempFacAnnot(true); PDBfile pmap = ssm.setMapping(true, new SequenceI[] { newseq }, new String[] { null }, "test/jalview/ext/jmol/1QCF.pdb", @@ -252,7 +254,9 @@ public class Mapping assertTrue(pmap != null); assertEquals("Original and copied sequence of different lengths.", refseq.getLength(), newseq.getLength()); - assertTrue(refseq.getAnnotation().length > 0 + assertTrue(refseq.getAnnotation() != null + && refseq.getAnnotation().length > 0); + assertTrue(newseq.getAnnotation() != null && newseq.getAnnotation().length > 0); for (AlignmentAnnotation oannot : refseq.getAnnotation()) { -- 1.7.10.2