krlhBlupine/iBioSim
1
0
Fork 0
Code Issues Pull requests Projects Releases Packages Wiki Activity Actions

Initial work on hierarchy support

Browse source
This commit is contained in:
LukasBuecherl 2022-07-21 14:08:19 -06:00
parent 927062edeb
commit 1c24b1edc5
1 changed files with 16 additions and 0 deletions
Download patch file Download diff file Expand all files Collapse all files

16
conversion/src/main/java/edu/utah/ece/async/ibiosim/conversion/Converter.java
View file

@ -33,11 +33,13 @@ import org.sbolstandard.core2.TopLevel;
import org.virtualparts.VPRException;
import org.virtualparts.VPRTripleStoreException;
// import edu.utah.ece.async.ibiosim.analysis.properties.AnalysisProperties;
import edu.utah.ece.async.ibiosim.dataModels.biomodel.parser.BioModel;
import edu.utah.ece.async.ibiosim.dataModels.biomodel.util.SBMLutilities;
import edu.utah.ece.async.ibiosim.dataModels.sbol.SBOLUtility;
import edu.utah.ece.async.ibiosim.dataModels.util.exceptions.BioSimException;
import edu.utah.ece.async.ibiosim.dataModels.util.exceptions.SBOLException;
import edu.utah.ece.async.ibiosim.dataModels.util.observe.BioObservable;
import org.sbml.jsbml.ext.comp.CompModelPlugin;
import org.sbml.jsbml.ext.comp.CompSBMLDocumentPlugin;
@ -427,10 +429,24 @@ public class Converter {
{
SBMLDocument inputSBMLDoc;
try
{
inputSBMLDoc = SBMLutilities.readSBML(fullInputFileName, null, null);
/*
File path = new File(fullInputFileName);
BioObservable p = null;
BioModel bioModel = BioModel.createBioModel(path.getParent(), p);
bioModel.load(fullInputFileName);
if (bioModel.flattenModel(true) != null) {
SBMLDocument sbml = bioModel.flattenModel(true);
SBML2PRISM.convertSBML2PRISM(sbml, fullInputFileName, PrismUnbound);
}
*/
SBML2PRISM.convertSBML2PRISM(inputSBMLDoc, fullInputFileName, PrismUnbound);
}
catch (XMLStreamException e)
{