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Add topModelId field

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This commit is contained in:
Chris Myers 2022-03-17 17:50:20 -06:00
parent 82c020dddb
commit f94c30f85b
1 changed files with 21 additions and 0 deletions
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21
conversion/src/main/java/edu/utah/ece/async/ibiosim/conversion/Converter.java
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@ -23,6 +23,7 @@ import java.util.HashSet;
import javax.xml.stream.XMLStreamException;
import org.sbml.jsbml.SBMLDocument;
import org.sbml.jsbml.SBMLException;
import org.sbml.jsbml.SBMLWriter;
import org.sbolstandard.core2.ModuleDefinition;
import org.sbolstandard.core2.SBOLConversionException;
@ -543,6 +544,26 @@ public class Converter {
SBMLutilities.exportSBMLModels(models, outputDir, outputFileName, noOutput, sbmlOut, singleSBMLOutput);
}
}
/* TODO: PEDRO FIX ME
if (topModelId != null) {
SBMLDocument topModel = SBMLutilities.readSBML(vpr_output+".xml", null, null);
topModel.getModel().setId(topModelId);
SBMLWriter writer = new SBMLWriter();
try {
//SBMLutilities.removeUnusedNamespaces(sbml);
writer.writeSBMLToFile(topModel, outputDir + File.separator + topModelId + ".xml");
}
catch (SBMLException e) {
e.printStackTrace();
}
catch (FileNotFoundException e) {
e.printStackTrace();
}
catch (XMLStreamException e) {
e.printStackTrace();
}
}
*/
if (doVPR) {
if (topEnvir) {
SBMLDocument topEnvironment = SBMLutilities.readSBML(environment, null, null);