public void BiasingParametersLoadParametersFromNull()
{
// ReSharper disable UnusedVariable
var parameters = BiasingParameters.LoadParametersFromJson(null);
// ReSharper restore UnusedVariable
Assert.Fail("LoadParametersFromJson(null) should throw an ArgumentNullException.");
}
public void BiasingParametersJsonFileBinCountNotCutoffSize()
{
const string inputFile = "resources\\biasing_sample_BIN_COUNT_not_CUTOFF_array_size.json";
// ReSharper disable UnusedVariable
var parameters = BiasingParameters.LoadParametersFromJson(inputFile);
// ReSharper restore UnusedVariable
Assert.Fail("BiasingParametersJsonFileBinCountNotCutoffSize() should throw a System.ArgumentException.");
}
public void BiasingParametersJsonFileIreCountNotRareEventInfoSize()
{
const string inputFile = "resources\\biasing_sample_IRE_COUNT_not_RARE_EVENT_INFO_array_size.json";
// ReSharper disable UnusedVariable
var parameters = BiasingParameters.LoadParametersFromJson(inputFile);
// ReSharper restore UnusedVariable
Assert.Fail("BiasingParametersJsonFileIreCountNotRareEventInfoSize() should throw a System.ArgumentException.");
}
public void BiasingParametersJsonFileReactionCountLessThanReactionArraySize()
{
const string inputFile = "resources\\biasing_sample_REACTION_COUNT_less_than_REACTION_array_size.json";
// ReSharper disable UnusedVariable
var parameters = BiasingParameters.LoadParametersFromJson(inputFile);
// ReSharper restore UnusedVariable
Assert.Fail("BiasingParametersJsonFileReactionCountLessThanReactionArraySize() should throw a System.ArgumentException.");
}
public void BiasingParametersJsonFileMissingIreCountParameter()
{
const string inputFile = "resources\\biasing_sample_IRE_COUNT_missing.json";
// ReSharper disable UnusedVariable
var parameters = BiasingParameters.LoadParametersFromJson(inputFile);
// ReSharper restore UnusedVariable
Assert.Fail("BiasingParametersJsonFileMissingIreCountParameter() should throw a System.ArgumentException.");
}
public void BiasingParametersLoadParametersFromInvalidJson()
{
const string jsonFilename = "resources\\invalid.json";
// ReSharper disable UnusedVariable
var parameters = BiasingParameters.LoadParametersFromJson(jsonFilename);
// ReSharper restore UnusedVariable
Assert.Fail("LoadParametersFromInvalidJson({0}) should throw an ArgumentException.", jsonFilename);
}
public void BiasingParametersLoadParametersFromMissingFile()
{
string tempFileName = Path.GetTempFileName();
File.Delete(tempFileName);
// ReSharper disable UnusedVariable
var parameters = BiasingParameters.LoadParametersFromJson(tempFileName);
// ReSharper restore UnusedVariable
Assert.Fail("LoadParametersFromMissingFile(tempFileName) should throw an IO.FileNotFoundException.");
}
public void BiasingParametersLoadParametersFromJson()
{
const string filename = "resources\\biasing_sample.json";
var parameters = BiasingParameters.LoadParametersFromJson(filename);
// Verify rare event spec
Assert.AreEqual("site_1", parameters.RareEvent.ExpressionLocale);
Assert.AreEqual("reExpression", parameters.RareEvent.ExpressionName);
Assert.AreEqual(2, parameters.RareEvent.IntermediateRareEventCount);
Assert.AreEqual(24, parameters.RareEvent.Thresholds[0]);
Assert.AreEqual(32, parameters.RareEvent.Thresholds[1]);
// Verify locale[s]
Assert.AreEqual(1, parameters.Locales.Count);
var localeInfo = parameters.Locales[0];
Assert.AreEqual("site_1", localeInfo.Name);
Assert.AreEqual(8, localeInfo.ReactionCount);
Assert.AreEqual(8, localeInfo.Reactions.Count);
// Verify first reaction
var reactionInfo = localeInfo.Reactions[0];
Assert.AreEqual("R1", reactionInfo.Name);
Assert.AreEqual(2, reactionInfo.RareEvents.Count);
var rareEventInfo = reactionInfo.RareEvents[0];
Assert.AreEqual(2, rareEventInfo.BinCount);
Assert.AreEqual(2, rareEventInfo.Gammas.Length);
Assert.AreEqual(1, rareEventInfo.Thresholds.Length);
Assert.AreEqual(1.06863, rareEventInfo.Gammas[0]);
Assert.AreEqual(1.56882, rareEventInfo.Gammas[1]);
Assert.AreEqual(0.00031386, rareEventInfo.Thresholds[0]);
// Verify last reaction
reactionInfo = localeInfo.Reactions[localeInfo.ReactionCount - 1];
Assert.AreEqual("R8", reactionInfo.Name);
Assert.AreEqual(2, reactionInfo.RareEvents.Count);
rareEventInfo = reactionInfo.RareEvents[1];
Assert.AreEqual(7, rareEventInfo.BinCount);
Assert.AreEqual(7, rareEventInfo.Gammas.Length);
Assert.AreEqual(6, rareEventInfo.Thresholds.Length);
Assert.AreEqual(2.37130, rareEventInfo.Gammas[0]);
Assert.AreEqual(2.191004, rareEventInfo.Gammas[6]);
Assert.AreEqual(0.3935499, rareEventInfo.Thresholds[5]);
}
public void BiasingParametersWriteParametersToJson()
{
const string inputFile = "resources\\biasing_sample.json";
var parameters = BiasingParameters.LoadParametersFromJson(inputFile);
string outputFile = Path.GetTempFileName();
bool areSame = false;
try
{
Console.WriteLine("Writing biasing parameters to '{0}'...", outputFile);
parameters.WriteParametersToJsonFile(outputFile);
FileAssert.AreEqual(inputFile, outputFile);
areSame = true;
}
finally
{
if (areSame)
{
File.Delete(outputFile);
}
}
}
