public TitleParser(ParserFormat format)
{
this.format = format;
if (!string.IsNullOrEmpty(format.IdentityRegex))
{
this.mainRegex = new Regex(format.IdentityRegex);
}
foreach (ParserItem item in format)
{
if (item.ItemName.Equals("rawFile") && item.RegularExpression.Length > 0)
{
rawFileRegex = new Regex(item.RegularExpression);
}
else if (item.ItemName.Equals("scanNumber") && item.RegularExpression.Length > 0)
{
scanNumberRegex = new Regex(item.RegularExpression);
}
else if (item.ItemName.Equals("retentionTime") && item.RegularExpression.Length > 0)
{
rtRegex = new Regex(item.RegularExpression);
}
}
if (rawFileRegex == null && scanNumberRegex == null)
{
throw new ArgumentException("There is no rawFile and scanNumber parsing definition " + format.FormatName);
}
}
public void TestToString()
{
ParserFormat pf = new ParserFormat() { FormatName = "TEST" };
Assert.AreEqual("TEST", pf.ToString());
pf.Sample = "SAMPLE";
Assert.IsTrue(pf.ToString().Contains("SAMPLE"));
}
public void TestCmpd2()
{
ParserItem item = new ParserItem();
ParserFormat format = new ParserFormat();
format.FormatName = "TurboRAW2MGF, Cmpd";
format.Add(new ParserItem("rawFile", ""));
format.Add(new ParserItem("scanNumber", @"Cmpd\s*(\d+)\s*,"));
TitleParser parser = new TitleParser(format);
SequestFilename sf = parser.GetValue("Cmpd 2345, xxxxx");
Assert.AreEqual(2345, sf.FirstScan);
Assert.AreEqual(2345, sf.LastScan);
}
public void TestDta()
{
ParserItem item = new ParserItem();
ParserFormat format = new ParserFormat();
format.FormatName = "TurboRAW2MGF, DTA Format";
format.Add(new ParserItem("rawFile", @"(.+)\.\d+\.\d+\.\d\.(?:dta|DTA)"));
format.Add(new ParserItem("scanNumber", @".+\.(\d+)\.(\d+)\.\d\.(?:dta|DTA)"));
TitleParser parser = new TitleParser(format);
SequestFilename sf = parser.GetValue("TEST.2345.2346.1.dta");
Assert.AreEqual("TEST", sf.Experimental);
Assert.AreEqual(2345, sf.FirstScan);
Assert.AreEqual(2346, sf.LastScan);
}
public void TestCmpd2()
{
ParserItem item = new ParserItem();
ParserFormat format = new ParserFormat();
format.FormatName = "TurboRAW2MGF, Cmpd";
format.Add(new ParserItem("rawFile", ""));
format.Add(new ParserItem("scanNumber", @"Cmpd\s*(\d+)\s*,"));
TitleParser parser = new TitleParser(format);
SequestFilename sf = parser.GetValue("Cmpd 2345, xxxxx");
Assert.AreEqual(2345, sf.FirstScan);
Assert.AreEqual(2345, sf.LastScan);
}
public void TestDta()
{
ParserItem item = new ParserItem();
ParserFormat format = new ParserFormat();
format.FormatName = "TurboRAW2MGF, DTA Format";
format.Add(new ParserItem("rawFile", @"(.+)\.\d+\.\d+\.\d\.(?:dta|DTA)"));
format.Add(new ParserItem("scanNumber", @".+\.(\d+)\.(\d+)\.\d\.(?:dta|DTA)"));
TitleParser parser = new TitleParser(format);
SequestFilename sf = parser.GetValue("TEST.2345.2346.1.dta");
Assert.AreEqual("TEST", sf.Experimental);
Assert.AreEqual(2345, sf.FirstScan);
Assert.AreEqual(2346, sf.LastScan);
}
public AccessNumberParser(ParserFormat format)
{
formatName = format.FormatName;
example = format.Sample;
foreach (ParserItem item in format)
{
if (item.ItemName.Equals("accessNumber") && item.RegularExpression.Length > 0)
{
regexString = item.RegularExpression;
}
}
if (regexString == null)
{
throw new ArgumentException("There is no accessNumber parsing definition at " + format.FormatName);
}
InitRegex();
}
public AccessNumberParser(ParserFormat format)
{
formatName = format.FormatName;
example = format.Sample;
foreach (ParserItem item in format)
{
if (item.ItemName.Equals("accessNumber") && item.RegularExpression.Length > 0)
{
regexString = item.RegularExpression;
}
}
if (regexString == null)
{
throw new ArgumentException("There is no accessNumber parsing definition at " + format.FormatName);
}
InitRegex();
}
