public void TestWriteAccessDb(string path, int numberConsensus, int numberProteins, int numberEvidences)
{
var writer = new AccessTargetDatabaseWriter();
var options = new Options();
var database = new TargetDatabase();
var evidenceCount = 1;
for (var i = 1; i <= numberConsensus; i++)
{
var target = new ConsensusTarget {
Id = i
};
for (var k = 1; k <= numberProteins; k++)
{
var protein = new ProteinInformation
{
ProteinName = "Access_Test" + k,
CleavageState = clsPeptideCleavageStateCalculator.ePeptideCleavageStateConstants.Full,
TerminusState =
clsPeptideCleavageStateCalculator.ePeptideTerminusStateConstants.ProteinNTerminus
};
protein.Consensus.Add(target);
for (var j = 1; j <= numberEvidences; j++)
{
var evidence = new Evidence
{
AnalysisId = j,
Charge = 1,
Id = evidenceCount,
CleanPeptide = "MIKEDEGAN" + evidenceCount,
Sequence = "BIGBIRD" + evidenceCount,
Mz = 405,
Scan = evidenceCount++,
PeptideInfo = new TargetPeptideInfo()
};
evidence.AddProtein(protein);
target.AddEvidence(evidence);
}
target.AddProtein(protein);
target.CalculateStatistics();
}
target.TheoreticalMonoIsotopicMass = 100.0;
target.AverageNet = .6;
target.PredictedNet = .7;
database.ConsensusTargets.Add(target);
}
if (File.Exists(GetTestSuiteDataPath(path)))
{
File.Delete(GetTestSuiteDataPath(path));
}
writer.Write(database, options, GetTestSuiteDataPath(path));
}
public void TestWriteDatabase(string path, int numberOfTargets, int numberOfEvidences)
{
var reader = new SqLiteTargetDatabaseWriter();
var options = new Options();
var database = new TargetDatabase();
var proteinCount = 1;
var evidenceCount = 1;
for (var i = 1; i <= numberOfTargets; i++)
{
var target = new ConsensusTarget {
Id = i
};
var protein = new ProteinInformation
{
ProteinName = "SO_Test" + proteinCount++,
CleavageState = clsPeptideCleavageStateCalculator.ePeptideCleavageStateConstants.Full,
TerminusState = clsPeptideCleavageStateCalculator.ePeptideTerminusStateConstants.ProteinNTerminus,
};
protein.Consensus.Add(target);
for (var j = 1; j <= numberOfEvidences; j++)
{
var evidence = new Evidence
{
AnalysisId = j,
Charge = 1,
Id = evidenceCount,
CleanPeptide = "MIKEDEGAN" + evidenceCount,
Sequence = "BIGBIRD" + evidenceCount,
Mz = 405,
Scan = evidenceCount++,
PeptideInfo = new TargetPeptideInfo()
};
evidence.AddProtein(protein);
target.AddEvidence(evidence);
}
target.AddProtein(protein);
target.CalculateStatistics();
database.ConsensusTargets.Add(target);
}
reader.Write(database, options, GetTestSuiteDataPath(path));
}
