From 21f3f383ac98d03e2409fb0258b9742db427bde7 Mon Sep 17 00:00:00 2001
From: felmer <felmer>
Date: Thu, 16 Jul 2009 07:11:54 +0000
Subject: [PATCH] LMS-1028 modification attributes nTermMass and cTermMass
tested.
SVN: 11780
---
.../openbis/etlserver/phosphonetx/ProtXMLLoaderTest.java | 8 ++++++--
1 file changed, 6 insertions(+), 2 deletions(-)
diff --git a/rtd_phosphonetx/sourceTest/java/ch/systemsx/cisd/openbis/etlserver/phosphonetx/ProtXMLLoaderTest.java b/rtd_phosphonetx/sourceTest/java/ch/systemsx/cisd/openbis/etlserver/phosphonetx/ProtXMLLoaderTest.java
index 8812a95beac..1c82a1482fd 100644
--- a/rtd_phosphonetx/sourceTest/java/ch/systemsx/cisd/openbis/etlserver/phosphonetx/ProtXMLLoaderTest.java
+++ b/rtd_phosphonetx/sourceTest/java/ch/systemsx/cisd/openbis/etlserver/phosphonetx/ProtXMLLoaderTest.java
@@ -27,6 +27,7 @@ import ch.systemsx.cisd.openbis.etlserver.phosphonetx.dto.AminoAcidMass;
import ch.systemsx.cisd.openbis.etlserver.phosphonetx.dto.AnnotatedProtein;
import ch.systemsx.cisd.openbis.etlserver.phosphonetx.dto.Parameter;
import ch.systemsx.cisd.openbis.etlserver.phosphonetx.dto.Peptide;
+import ch.systemsx.cisd.openbis.etlserver.phosphonetx.dto.PeptideModification;
import ch.systemsx.cisd.openbis.etlserver.phosphonetx.dto.Protein;
import ch.systemsx.cisd.openbis.etlserver.phosphonetx.dto.ProteinGroup;
import ch.systemsx.cisd.openbis.etlserver.phosphonetx.dto.ProteinProphetDetails;
@@ -58,7 +59,7 @@ public class ProtXMLLoaderTest extends AbstractFileSystemTestCase
+ " <indistinguishable_protein><annotation protein_description='P43'/></indistinguishable_protein>\n"
+ " <indistinguishable_protein><annotation protein_description='P44'/></indistinguishable_protein>\n"
+ " <peptide peptide_sequence='VYQIDGNYSR'>\n"
- + " <modification_info>\n"
+ + " <modification_info mod_nterm_mass='42' mod_cterm_mass='24.25'>\n"
+ " <mod_aminoacid_mass position='1' mass='115.25'/>\n"
+ " <mod_aminoacid_mass position='4' mass='31.75'/>\n"
+ " </modification_info>\n"
@@ -119,7 +120,10 @@ public class ProtXMLLoaderTest extends AbstractFileSystemTestCase
assertEquals(2, peptides.size());
assertEquals("VYQIDGNYSR", peptides.get(0).getSequence());
assertEquals(1, peptides.get(0).getModifications().size());
- List<AminoAcidMass> masses = peptides.get(0).getModifications().get(0).getAminoAcidMasses();
+ PeptideModification peptideModification = peptides.get(0).getModifications().get(0);
+ assertEquals(42.0, peptideModification.getNTermMass());
+ assertEquals(24.25, peptideModification.getCTermMass());
+ List<AminoAcidMass> masses = peptideModification.getAminoAcidMasses();
assertEquals(2, masses.size());
assertEquals(1, masses.get(0).getPosition());
assertEquals(115.25, masses.get(0).getMass());
--
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