From 6f235bae19e23ee88d52380108c1814303628dfc Mon Sep 17 00:00:00 2001
From: Piotr Gawron <piotr.gawron@uni.lu>
Date: Fri, 2 Feb 2018 11:53:10 +0100
Subject: [PATCH] export of unit definition added
---
.../celldesigner/CellDesignerXmlParser.java | 2 ++
.../unit/UnitCollectionXmlParser.java | 10 +++++++
.../celldesigner/unit/UnitXmlParser.java | 26 +++++++++++++++++++
3 files changed, 38 insertions(+)
diff --git a/converter-CellDesigner/src/main/java/lcsb/mapviewer/converter/model/celldesigner/CellDesignerXmlParser.java b/converter-CellDesigner/src/main/java/lcsb/mapviewer/converter/model/celldesigner/CellDesignerXmlParser.java
index d4255f49b5..f918d97a6e 100644
--- a/converter-CellDesigner/src/main/java/lcsb/mapviewer/converter/model/celldesigner/CellDesignerXmlParser.java
+++ b/converter-CellDesigner/src/main/java/lcsb/mapviewer/converter/model/celldesigner/CellDesignerXmlParser.java
@@ -592,6 +592,7 @@ public class CellDesignerXmlParser extends XmlParser implements IConverter {
SpeciesCollectionXmlParser speciesCollectionXmlParser = new SpeciesCollectionXmlParser(elements);
ReactionCollectionXmlParser reactionCollectionXmlParser = new ReactionCollectionXmlParser(model, elements, false);
+ UnitCollectionXmlParser unitCollectionXmlParser = new UnitCollectionXmlParser();
FunctionCollectionXmlParser functionCollectionXmlParser = new FunctionCollectionXmlParser();
ParameterCollectionXmlParser parameterCollectionXmlParser = new ParameterCollectionXmlParser(model);
@@ -611,6 +612,7 @@ public class CellDesignerXmlParser extends XmlParser implements IConverter {
result.append("</notes>");
}
+ result.append(unitCollectionXmlParser.toXml(model.getUnits()));
result.append(functionCollectionXmlParser.toXml(model.getFunctions()));
result.append(parameterCollectionXmlParser.toXml(model.getParameters()));
result.append(annotationToXml(model, elements));
diff --git a/converter-CellDesigner/src/main/java/lcsb/mapviewer/converter/model/celldesigner/unit/UnitCollectionXmlParser.java b/converter-CellDesigner/src/main/java/lcsb/mapviewer/converter/model/celldesigner/unit/UnitCollectionXmlParser.java
index 1cf70a8067..a442d3c394 100644
--- a/converter-CellDesigner/src/main/java/lcsb/mapviewer/converter/model/celldesigner/unit/UnitCollectionXmlParser.java
+++ b/converter-CellDesigner/src/main/java/lcsb/mapviewer/converter/model/celldesigner/unit/UnitCollectionXmlParser.java
@@ -21,4 +21,14 @@ public class UnitCollectionXmlParser extends XmlParser {
return result;
}
+ public String toXml(Set<SbmlUnit> units) {
+ StringBuilder builder = new StringBuilder();
+ builder.append("<listOfUnitDefinitions>\n");
+ for (SbmlUnit unit: units) {
+ builder.append(unitParser.toXml(unit));
+ }
+ builder.append("</listOfUnitDefinitions>\n");
+ return builder.toString();
+ }
+
}
diff --git a/converter-CellDesigner/src/main/java/lcsb/mapviewer/converter/model/celldesigner/unit/UnitXmlParser.java b/converter-CellDesigner/src/main/java/lcsb/mapviewer/converter/model/celldesigner/unit/UnitXmlParser.java
index fe1ca925a0..d93d4f2951 100644
--- a/converter-CellDesigner/src/main/java/lcsb/mapviewer/converter/model/celldesigner/unit/UnitXmlParser.java
+++ b/converter-CellDesigner/src/main/java/lcsb/mapviewer/converter/model/celldesigner/unit/UnitXmlParser.java
@@ -67,4 +67,30 @@ public class UnitXmlParser extends XmlParser {
}
return new SbmlUnitTypeFactor(unitType, exponent, scale, multiplier);
}
+
+ public String toXml(SbmlUnit unit) {
+ StringBuilder result = new StringBuilder();
+ result.append("<unitDefinition ");
+ result.append("id=\"" + unit.getUnitId() + "\" ");
+ result.append("name=\"" + unit.getName() + "\" ");
+ result.append(">\n");
+ result.append("<listOfUnits>\n");
+ for (SbmlUnitTypeFactor factor : unit.getUnitTypeFactors()) {
+ result.append(toXml(factor));
+ }
+ result.append("</listOfUnits>\n");
+ result.append("</unitDefinition>");
+ return result.toString();
+ }
+
+ private String toXml(SbmlUnitTypeFactor factor) {
+ StringBuilder result = new StringBuilder();
+ result.append("<unit ");
+ result.append("kind=\"" + factor.getUnitType().toString().toLowerCase() + "\" ");
+ result.append("scale=\"" + factor.getScale() + "\" ");
+ result.append("exponent=\"" + factor.getExponent() + "\" ");
+ result.append("multiplier=\"" + factor.getMultiplier() + "\" ");
+ result.append("/>\n");
+ return result.toString();
+ }
}
--
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