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Update to SBML Level 3 Version 2

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This commit is contained in:
Chris Myers 2020-07-10 12:07:35 -06:00
parent df9ed4e1f4
commit e8cde0e3ab
2 changed files with 3 additions and 3 deletions
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2
analysis/src/main/java/edu/utah/ece/async/ibiosim/analysis/Analysis.java
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@ -212,9 +212,9 @@ public class Analysis implements BioObserver
analysis.propertiesMap.put(data, value);
break;
case "-outDir":
analysis.properties.setOutDir(value);
File file = new File(value);
file.mkdirs();
analysis.properties.setOutDir(file.getAbsolutePath());
break;
default:
usage();

4
dataModels/src/main/java/edu/utah/ece/async/ibiosim/dataModels/biomodel/util/SBMLutilities.java
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@ -5681,7 +5681,7 @@ public class SBMLutilities extends CoreObservable
}
// convert document
ConversionProperties prop = new ConversionProperties(new SBMLNamespaces(3, 1));
ConversionProperties prop = new ConversionProperties(new SBMLNamespaces(3, 2));
prop.addOption("strict", false);
prop.addOption("setLevelAndVersion", true);
prop.addOption("ignorePackages", true);
@ -5813,7 +5813,7 @@ public class SBMLutilities extends CoreObservable
}
}
convertToL3(doc);
doc.setLevelAndVersion(GlobalConstants.SBML_LEVEL, GlobalConstants.SBML_VERSION, false);
//doc.setLevelAndVersion(GlobalConstants.SBML_LEVEL, GlobalConstants.SBML_VERSION, false);
/*
* for (int i = 0; i < doc.getNumErrors(); i++) {
* System.out.println(doc.getError(i).getMessage()); }