Changeset 2659

Timestamp:

02/25/10 18:28:17 (2 years ago)

Author:

rwagner

Message:

 

Location:

molgenis_projects/col7a1/handwritten/java

Files:

• LoadExamples.java (modified) (10 diffs)
• SelectExamples.java (added)
• plugin/ui (added)
• plugin/ui/BackgroundPlugin.ftl (added)
• plugin/ui/BackgroundPlugin.java (added)
• plugin/ui/ContactPlugin.ftl (added)
• plugin/ui/ContactPlugin.java (added)
• plugin/ui/HelpPlugin.ftl (added)
• plugin/ui/HelpPlugin.java (added)
• plugin/ui/LoginPlugin.ftl (added)
• plugin/ui/LoginPlugin.java (added)
• plugin/ui/SearchPlugin.ftl (added)
• plugin/ui/SearchPlugin.java (added)
• service (added)
• service/MutationService.java (added)
• vo (added)
• vo/MutationVO.java (added)

molgenis_projects/col7a1/handwritten/java/LoadExamples.java

@@ -16 +16 @@
 import col7a1.Patient;
 import col7a1.Phenotype;
+import col7a1.ProteinDomain;
 import col7a1.Publication;
 
@@ -45 +46 @@
                         db.add(gene);
                         
+                        ProteinDomain domain1 = new ProteinDomain();
+                        domain1.setName("1st fibronectin-III like domain");
+                        
+                        db.add(domain1);
+                        
+                        ProteinDomain domain2 = new ProteinDomain();
+                        domain2.setName("2nd fibronectin-III like domain");
+                        
+                        db.add(domain2);
+                        
                         Exon exon1 = new Exon();
-                        exon1.setNumber(1);
+                        exon1.setNumber_(1);
                         exon1.setName("Exon 1");
                         exon1.setCdna_position(123);
@@ -52 +63 @@
                         exon1.setLength(789);
                         exon1.setGene(gene);
+                        exon1.setProteinDomain(domain1);
                         
                         db.add(exon1);
                         
                         Exon exon2 = new Exon();
-                        exon2.setNumber(2);
+                        exon2.setNumber_(2);
                         exon2.setName("Exon 2");
                         exon2.setCdna_position(234);
@@ -62 +74 @@
                         exon2.setLength(890);
                         exon2.setGene(gene);
+                        exon2.setProteinDomain(domain1);
                         
                         db.add(exon2);
+                        
+                        Exon exon3 = new Exon();
+                        exon3.setNumber_(3);
+                        exon3.setName("Exon 3");
+                        exon3.setCdna_position(123);
+                        exon3.setGdna_position(456);
+                        exon3.setLength(789);
+                        exon3.setGene(gene);
+                        exon3.setProteinDomain(domain2);
+                        
+                        db.add(exon3);
+                        
+                        Exon exon4 = new Exon();
+                        exon4.setNumber_(4);
+                        exon4.setName("Exon 4");
+                        exon4.setCdna_position(234);
+                        exon4.setGdna_position(567);
+                        exon4.setLength(890);
+                        exon4.setGene(gene);
+                        exon4.setProteinDomain(domain2);
+                        
+                        db.add(exon4);
                         
                         Publication publication = new Publication();
@@ -82 +117 @@
                         Mutation mutation = new Mutation();
                         mutation.setPosition(4711);
-                        mutation.setLength(1);
+                        mutation.setLength_(1);
                         mutation.setType_("ins");
                         mutation.setCodon_change("TCT > TGT");
@@ -93 +128 @@
                         mutation.setConservedAA(true);
                         mutation.setEffectOnSplicing(true);
-                        mutation.setProteinDomain("1st fibronectin-III like domain");
                         mutation.setFounderMutation(true);
                         mutation.setPopulation("Dutch");
@@ -102 +136 @@
                         
                         Patient patient = new Patient();
-                        patient.setNumber("4711");
+                        patient.setNumber_("4711");
                         patient.setAge("42 years");
                         patient.setDiagnosis("Is sick.");
@@ -112 +146 @@
                         
                         I_F i_f1 = new I_F();
-                        i_f1.setNumber("4711");
+                        i_f1.setNumber_("4711");
                         i_f1.setPatient(patient);
                         i_f1.setCollagen_type_vii("blub1");
@@ -120 +154 @@
                         
                         I_F i_f2 = new I_F();
-                        i_f2.setNumber("4712");
+                        i_f2.setNumber_("4712");
                         i_f2.setPatient(patient);
                         i_f2.setCollagen_type_vii("blub2");
@@ -153 +187 @@
                         E_M e_m = new E_M();
                         e_m.setPatient(patient);
-                        e_m.setAnchoring_fibrils("gulp");
+                        e_m.setAnchoring_fibrils("slightly reduced");
                         e_m.setDescription("tralala");