From b16f1ab5f18fad401de808a15226dec6eab89641 Mon Sep 17 00:00:00 2001
From: Piotr Gawron <piotr.gawron@uni.lu>
Date: Fri, 30 Jun 2017 14:10:51 +0200
Subject: [PATCH] new reactome class added: NegativeGeneExpressionRegulation
---
...ctomeNegativeGeneExpressionRegulation.java | 12 ++++++++
...egativeGeneExpressionRegulationParser.java | 24 ++++++++++++++++
...eGeneExpressionRegulationColumnParser.java | 28 +++++++++++++++++++
.../resources/applicationContext-reactome.xml | 1 +
4 files changed, 65 insertions(+)
create mode 100644 reactome/src/main/java/lcsb/mapviewer/reactome/model/ReactomeNegativeGeneExpressionRegulation.java
create mode 100644 reactome/src/main/java/lcsb/mapviewer/reactome/xml/ReactomeNegativeGeneExpressionRegulationParser.java
create mode 100644 reactome/src/main/java/lcsb/mapviewer/reactome/xml/columnParser/NegativeGeneExpressionRegulationColumnParser.java
diff --git a/reactome/src/main/java/lcsb/mapviewer/reactome/model/ReactomeNegativeGeneExpressionRegulation.java b/reactome/src/main/java/lcsb/mapviewer/reactome/model/ReactomeNegativeGeneExpressionRegulation.java
new file mode 100644
index 0000000000..90ed5d3e0e
--- /dev/null
+++ b/reactome/src/main/java/lcsb/mapviewer/reactome/model/ReactomeNegativeGeneExpressionRegulation.java
@@ -0,0 +1,12 @@
+package lcsb.mapviewer.reactome.model;
+
+/**
+ * Object representing Reactome <a href=
+ * "http://www.reactome.org/cgi-bin/classbrowser?DB=gk_current&CLASS=NegativeGeneExpressionRegulation"
+ * >NegativeGeneExpressionRegulation</a> object.
+ *
+ * @author Piotr Gawron
+ *
+ */
+public class ReactomeNegativeGeneExpressionRegulation extends ReactomeNegativeRegulation {
+}
diff --git a/reactome/src/main/java/lcsb/mapviewer/reactome/xml/ReactomeNegativeGeneExpressionRegulationParser.java b/reactome/src/main/java/lcsb/mapviewer/reactome/xml/ReactomeNegativeGeneExpressionRegulationParser.java
new file mode 100644
index 0000000000..0bd5be9e3b
--- /dev/null
+++ b/reactome/src/main/java/lcsb/mapviewer/reactome/xml/ReactomeNegativeGeneExpressionRegulationParser.java
@@ -0,0 +1,24 @@
+package lcsb.mapviewer.reactome.xml;
+
+import lcsb.mapviewer.reactome.model.ReactomeNegativeGeneExpressionRegulation;
+import lcsb.mapviewer.reactome.xml.columnParser.NegativeGeneExpressionRegulationColumnParser;
+
+/**
+ * Parser for reactome xml retrieved from <a href=
+ * "http://reactome.org/ReactomeRESTfulAPI/ReactomeRESTFulAPI.html"
+ * >Reactome API</a> for <a href=
+ * "http://www.reactome.org/cgi-bin/classbrowser?DB=gk_current&CLASS=NegativeGeneExpressionRegulation"
+ * >NegativeGeneExpressionRegulation</a> object.
+ *
+ * @author Piotr Gawron
+ *
+ */
+public class ReactomeNegativeGeneExpressionRegulationParser extends ReactomeNodeParser<ReactomeNegativeGeneExpressionRegulation> {
+
+ /**
+ * Default constructor.
+ */
+ public ReactomeNegativeGeneExpressionRegulationParser() {
+ super(ReactomeNegativeGeneExpressionRegulation.class, NegativeGeneExpressionRegulationColumnParser.class);
+ }
+}
diff --git a/reactome/src/main/java/lcsb/mapviewer/reactome/xml/columnParser/NegativeGeneExpressionRegulationColumnParser.java b/reactome/src/main/java/lcsb/mapviewer/reactome/xml/columnParser/NegativeGeneExpressionRegulationColumnParser.java
new file mode 100644
index 0000000000..a6664657d4
--- /dev/null
+++ b/reactome/src/main/java/lcsb/mapviewer/reactome/xml/columnParser/NegativeGeneExpressionRegulationColumnParser.java
@@ -0,0 +1,28 @@
+package lcsb.mapviewer.reactome.xml.columnParser;
+
+import org.w3c.dom.Node;
+
+import lcsb.mapviewer.reactome.model.ReactomeNegativeGeneExpressionRegulation;
+
+/**
+ * Parser for properties of Reactome <a href=
+ * "http://www.reactome.org/cgi-bin/classbrowser?DB=gk_current&CLASS=NegativeGeneExpressionRegulation"
+ * >NegativeGeneExpressionRegulation</a> object.
+ *
+ * @author Piotr Gawron
+ *
+ */
+public class NegativeGeneExpressionRegulationColumnParser extends ColumnParser<ReactomeNegativeGeneExpressionRegulation> {
+ /**
+ * Default constructor. Defines parser for super class of NegativeRegulation.
+ */
+ protected NegativeGeneExpressionRegulationColumnParser() {
+ super(NegativeRegulationColumnParser.class);
+ }
+
+ @Override
+ public void updateColumnFromNode(ReactomeNegativeGeneExpressionRegulation object, Node node) {
+ getParentParser().updateColumnFromNode(object, node);
+ }
+
+}
diff --git a/reactome/src/main/resources/applicationContext-reactome.xml b/reactome/src/main/resources/applicationContext-reactome.xml
index f76a01cb64..12473ab089 100644
--- a/reactome/src/main/resources/applicationContext-reactome.xml
+++ b/reactome/src/main/resources/applicationContext-reactome.xml
@@ -93,6 +93,7 @@
<bean id="ReactomeLiteratureReferenceParser" class="lcsb.mapviewer.reactome.xml.ReactomeLiteratureReferenceParser"/>
<bean id="ReactomeModifiedResidueParser" class="lcsb.mapviewer.reactome.xml.ReactomeModifiedResidueParser"/>
<bean id="ReactomeNegativeRegulationParser" class="lcsb.mapviewer.reactome.xml.ReactomeNegativeRegulationParser"/>
+ <bean id="ReactomeNegativeGeneExpressionRegulationParser" class="lcsb.mapviewer.reactome.xml.ReactomeNegativeGeneExpressionRegulationParser"/>
<bean id="ReactomeOpenSetParser" class="lcsb.mapviewer.reactome.xml.ReactomeOpenSetParser"/>
<bean id="ReactomeOtherEntityParser" class="lcsb.mapviewer.reactome.xml.ReactomeOtherEntityParser"/>
<bean id="ReactomeParserFactory" class="lcsb.mapviewer.reactome.xml.ReactomeParserFactory"/>
--
GitLab