created methods to draw the line of reaction when it has one reactant…

… and one product
funasoul · Jun 2, 2016 · b59da4b · b59da4b
1 parent a779d4b
commit b59da4b
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Showing 4 changed files with 368 additions and 96 deletions.
diff --git a/sample/ex1.xml b/sample/ex1.xml
@@ -1,6 +1,6 @@
 <?xml version="1.0" encoding="UTF-8"?>
-<sbml xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" xmlns:mathml="http://www.w3.org/1998/Math/MathML" level="2" version="4">
-<model metaid="ex1" id="ex1">
+<sbml xmlns="http://www.sbml.org/sbml/level2/version4" xmlns:mathml="http://www.w3.org/1998/Math/MathML" xmlns:celldesigner="http://www.sbml.org/2001/ns/celldesigner" level="2" version="4">
+<model metaid="ex1" id="ex1" sboTerm="SBO:0000231">
 <annotation>
 <celldesigner:extension>
 <celldesigner:modelVersion>4.0</celldesigner:modelVersion>
@@ -87,10 +87,10 @@
 </unitDefinition>
 </listOfUnitDefinitions>
 <listOfCompartments>
-<compartment metaid="default" id="default" size="1" units="volume"/>
+<compartment metaid="default" id="default" size="1" units="volume" sboTerm="SBO:0000240"/>
 </listOfCompartments>
 <listOfSpecies>
-<species metaid="s1" id="A" name="A" compartment="default" initialAmount="0.1" hasOnlySubstanceUnits="true" charge="0">
+<species metaid="s1" id="A" name="A" compartment="default" initialAmount="0.1" hasOnlySubstanceUnits="true" charge="0" sboTerm="SBO:0000252">
 <annotation>
 <celldesigner:extension>
 <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
@@ -101,7 +101,7 @@
 </celldesigner:extension>
 </annotation>
 </species>
-<species metaid="s2" id="B" name="B" compartment="default" initialAmount="0">
+<species metaid="s2" id="B" name="B" compartment="default" initialAmount="0" sboTerm="SBO:0000252">
 <annotation>
 <celldesigner:extension>
 <celldesigner:positionToCompartment>inside</celldesigner:positionToCompartment>
@@ -114,7 +114,7 @@
 </species>
 </listOfSpecies>
 <listOfReactions>
-<reaction metaid="re2" id="re2" reversible="false" fast="false">
+<reaction metaid="re2" id="re2" reversible="false" fast="false" sboTerm="SBO:0000176">
 <annotation>
 <celldesigner:extension>
 <celldesigner:reactionType>STATE_TRANSITION</celldesigner:reactionType>
@@ -137,7 +137,7 @@
 </celldesigner:extension>
 </annotation>
 <listOfReactants>
-<speciesReference metaid="CDMT00001" species="A">
+<speciesReference metaid="CDMT00001" sboTerm="SBO:0000010" species="A">
 <annotation>
 <celldesigner:extension>
 <celldesigner:alias>sa1</celldesigner:alias>
@@ -146,15 +146,15 @@
 </speciesReference>
 </listOfReactants>
 <listOfProducts>
-<speciesReference metaid="CDMT00002" species="B">
+<speciesReference metaid="CDMT00002" sboTerm="SBO:0000011" species="B">
 <annotation>
 <celldesigner:extension>
 <celldesigner:alias>sa2</celldesigner:alias>
 </celldesigner:extension>
 </annotation>
 </speciesReference>
 </listOfProducts>
-<kineticLaw metaid="CDMT00008">
+<kineticLaw metaid="CDMT00008" sboTerm="SBO:0000001">
 <math xmlns="http://www.w3.org/1998/Math/MathML">
 <apply>
 <times/>