public void TestOpen()
{
var reader = DataFileReaderFactory.Create(DataFileType.csv);
List <Signal> signals = reader.Read("Data\\ExData_20170203_000800.csv");
Assert.IsNotNull(signals);
}
public ADataReader(string fileName, ITableDefinition tableDefinition, long largeBlobSize)
{
_tableDefinition = tableDefinition;
_fileName = fileName;
_dataFileReader = DataFileReaderFactory.CreateInstance(fileName);
_largeBlobSize = largeBlobSize;
_rawFileDirectory = Path.GetDirectoryName(fileName) + "\\" + _tableDefinition.Name + "\\";
}
public void TestRead2()
{
// Read in file and compare with known results
CSVFileReader reader = (CSVFileReader)DataFileReaderFactory.Create(DataFileType.csv);
List <Signal> signals = reader.Read2("Data\\ExData_20170203_000800.csv");
Assert.IsNotNull(signals);
Assert.AreEqual(signals.Count, 8);
Assert.AreEqual(signals[0].Data.Count, 1800);
}
private List <string> ReadIt(List <IColumn> columns)
{
List <string> data;
using (_fileReader = DataFileReaderFactory.CreateInstance(_dataFileName))
{
data = _fileReader.ReadLine(columns);
}
return(data);
}
public void TestRead()
{
// Read in file and compare with known results
var reader = DataFileReaderFactory.Create(DataFileType.csv);
//Console.WriteLine(Environment.CurrentDirectory);
List <Signal> signals = reader.Read("Data\\ExData_20170203_000800.csv");
Assert.IsNotNull(signals);
Assert.AreEqual(signals.Count, 8);
Assert.AreEqual(signals[0].Data.Count, 1800);
}
public void TestReadLine_When_StringIsNULL()
{
CreateFile("'NULL',1,\n");
List <IColumn> columns = CreateTwoColumns();
using (_fileReader = DataFileReaderFactory.CreateInstance(_dataFileName))
{
var data = _fileReader.ReadLine(columns);
data.Should().Equal("NULL", "1");
}
}
public void Init()
{
var reader = DataFileReaderFactory.Create(DataFileType.csv);
//Console.WriteLine(Environment.CurrentDirectory);
signals = reader.Read("Data\\SpectralInpectionData.csv");
data = new List <List <double> >();
foreach (var sig in signals)
{
data.Add(sig.Data);
}
}
public SpectrumMatchList(string fileName, int maxCharge = 0, bool useDecoy = false)
{
Decoy = useDecoy;
MaxCharge = maxCharge;
SequenceFormat = DataFileFormat.Mgf;
var fileReader = DataFileReaderFactory.Create(SequenceFormat, fileName, useDecoy);
var specMatches = fileReader.Read();
AddRange(from i in specMatches
where i.PrecursorCharge <= maxCharge
select i);
}
public SpectrumMatchList(LazyLcMsRun lcms, string tsvFile, DataFileFormat sequenceFormat,
int maxCharge = 0, bool useDecoy = false)
{
Decoy = useDecoy;
MaxCharge = maxCharge;
SequenceFormat = sequenceFormat;
var fileReader = DataFileReaderFactory.Create(SequenceFormat, tsvFile, useDecoy, lcms);
var specMatches = fileReader.Read();
AddRange(from i in specMatches
where i.PrecursorCharge <= maxCharge
select i);
}
public void TestTwoLines_When_StringAndInt()
{
CreateFile("'A unicode ﺽ string',1,\n'test',2,\n");
List <IColumn> columns = CreateTwoColumns();
using (_fileReader = DataFileReaderFactory.CreateInstance(_dataFileName))
{
var data = _fileReader.ReadLine(columns);
data.Should().Equal("A unicode ﺽ string", "1");
data = _fileReader.ReadLine(columns);
data.Should().Equal("test", "2");
}
}
public void TestCompressedFile_With_HighUnicodeValue()
{
_dataFileName += ".dz";
const string sampleString = "abﺽ cﺽ";
CreateCompressedFile(sampleString);
List <IColumn> columns = CreateTwoColumns();
using (_fileReader = DataFileReaderFactory.CreateInstance(_dataFileName))
{
var val = _fileReader.ReadLine(columns);
val[0].Should().Be(sampleString);
}
}
public void TestCreate()
{
var reader = DataFileReaderFactory.Create(DataFileType.csv);
Assert.IsNotNull(reader, "Factory created null csv reader");
}
