public override void LoadData(string filePath)
{
string[] data = File.ReadAllLines(filePath);
foreach (var dataLine in data.Skip(1))
{
var patientRepo = new PatientRepository();
var sourceRepo = new SourceRepository();
var entityRepo = new EntityRepository();
var fields = dataLine.Split(Delimiter);
var patient = patientRepo.AddPatient(fields[0], fields[1], fields[2], fields[3], DateTime.Parse(fields[4]));
var resultedOn = DateTime.Parse(fields[5]);
var lab = fields[6];
var snps = new List<SnpResult>();
for (int fieldIndex = 7; fieldIndex < 135; fieldIndex += 4)
{
var snp = new SnpResult()
{
RSID = fields[fieldIndex],
Chromosome = fields[fieldIndex + 1],
Position = int.Parse(fields[fieldIndex + 2]),
Genotype = fields[fieldIndex + 3],
ReferenceBase = referenceBases[fields[fieldIndex]]
};
snps.Add(snp);
}
var source = sourceRepo.AddSource(lab, string.Empty);
var file = AddResultFile(filePath, source);
entityRepo.AddSnps(file, patient, resultedOn, snps);
}
}
public void LoadReference(string filePath)
{
string[] data = File.ReadAllLines(filePath);
var entityRepo = new EntityRepository();
foreach (var dataLine in data.Skip(1))
{
var fields = dataLine.Split(Delimiter);
referenceBases.Add(fields[5], fields[7]);
}
}
public override void LoadData(string filePath)
{
string[] data = File.ReadAllLines(filePath);
foreach (var dataLine in data.Skip(1))
{
var sourceRepo = new SourceRepository();
var patientRepo = new PatientRepository();
var entityRepo = new EntityRepository();
var fields = dataLine.Split(Delimiter);
var source = sourceRepo.AddSource(fields[5], string.Empty);
var file = AddResultFile(filePath, source);
var patient = patientRepo.AddPatient(fields[0], fields[1], fields[2], fields[3], DateTime.Parse(fields[4]));
var attribute = EntityRepository.GetAttribute(fields[8], fields[9], fields[6], fields[7]);
entityRepo.AddPhenotype(file, patient, attribute, DateTime.Parse(fields[10]));
}
}
public override void LoadData(string filePath)
{
string[] data = File.ReadAllLines(filePath);
foreach (var dataLine in data.Skip(1))
{
var patientRepo = new PatientRepository();
var entityRepo = new EntityRepository();
var sourceRepo = new SourceRepository();
var fields = dataLine.Split(Delimiter);
var patient = patientRepo.AddPatient(fields[0], fields[1], fields[2], fields[3], DateTime.Parse(fields[4]));
var resultedOn = DateTime.Parse(fields[5]);
var lab = fields[6];
List<StarVariantResult> stars = new List<StarVariantResult>();
stars.Add(new StarVariantResult() { Gene = "CYP2C19", Result = fields[7] });
stars.Add(new StarVariantResult() { Gene = "CYP2C9", Result = fields[8] });
stars.Add(new StarVariantResult() { Gene = "VKORC1", Result = fields[9] });
var source = sourceRepo.AddSource(lab, string.Empty);
var file = AddResultFile(filePath, source);
entityRepo.AddStarVariants(patient, file, resultedOn, stars);
}
}
