public String induceRulesWithTestSet(double testSetPercent) throws DataFormatException {
SystemVariables.getInstance()
.appendToExperimentNotes("\\n* Total number of PSSM matches in positive sequences: ");
// System.out.println("Total number of PSSM matches in positive sequences: ");
ArrayList<Feature> posTrainingSet =
regulatoryElementService.getRegulatoryElements(
regulatoryRegionService.getPositiveRegulatoryRegions(),
positiveCutOffScore,
posATcomposition,
posCGcomposition);
SystemVariables.getInstance()
.appendToExperimentNotes("\\n* Total number of PSSM matches in negative sequences: ");
// System.out.println("Total number of PSSM matches in negative sequences: ");
ArrayList<Feature> negTrainingSet =
regulatoryElementService.getRegulatoryElements(
regulatoryRegionService.getNegativeRegulatoryRegions(),
negativeCutOffScore,
negATcomposition,
negCGcomposition);
IlpService formatter = new IlpService(tempIlpJobDirName);
formatter.createIlpFilesWithTestSet(
regulatoryRegionService.getPositiveRegulatoryRegions(),
regulatoryRegionService.getNegativeRegulatoryRegions(),
posTrainingSet,
negTrainingSet,
testSetPercent);
String ilpTheory = formatter.runILP();
return ilpTheory;
}
