public void WriteLine(MzTab.LinePrefix prefix, params string[] data)
{
WriteLine(prefix, string.Join(MzTab.FieldSeparator.ToString(), data));
}
private void WriteData <T>(MzTabSection section, IEnumerable <T> data, bool includeCommentLine = false) where T : MzTabEntity
{
if ((_currentState & MzTab.States.MetaData) != MzTab.States.MetaData)
{
throw new ArgumentException("Unable to write the " + section + " section, incorrect location. The Meta Data section must come first.");
}
List <T> objects = data.ToList();
if (objects.Count == 0)
{
return;
}
MzTab.LinePrefix headerPrefix = MzTab.LinePrefix.Comment;
MzTab.LinePrefix prefix = MzTab.LinePrefix.Comment;
switch (section)
{
case MzTabSection.SmallMolecule:
headerPrefix = MzTab.LinePrefix.SmallMoleculeTable;
prefix = MzTab.LinePrefix.SmallMoleculeData;
_currentState |= MzTab.States.SmallMoleculeData;
_currentState |= MzTab.States.SmallMoleculeHeader;
break;
case MzTabSection.Peptide:
headerPrefix = MzTab.LinePrefix.PeptideTable;
prefix = MzTab.LinePrefix.PeptideData;
_currentState |= MzTab.States.PeptideData;
_currentState |= MzTab.States.PeptideHeader;
break;
case MzTabSection.PSM:
headerPrefix = MzTab.LinePrefix.PsmTable;
prefix = MzTab.LinePrefix.PsmData;
_currentState |= MzTab.States.PsmData;
_currentState |= MzTab.States.PsmHeader;
break;
case MzTabSection.Protein:
headerPrefix = MzTab.LinePrefix.ProteinTable;
prefix = MzTab.LinePrefix.ProteinData;
_currentState |= MzTab.States.ProteinData;
_currentState |= MzTab.States.ProteinHeader;
break;
}
// Write Header
string[] header = MzTabEntity.GetHeader(objects).ToArray();
WriteLine(headerPrefix, header);
if (includeCommentLine)
{
WriteComment(string.Join("\t", header));
}
// Write table
foreach (string[] values in objects.Select(datum => datum.GetStringValues(header).ToArray()))
{
WriteLine(prefix, values);
}
}
public void WriteLine(MzTab.LinePrefix prefix, string line)
{
_writer.Write(MzTab.GetLinePrefixText(prefix));
_writer.Write(MzTab.FieldSeparator);
_writer.WriteLine(line);
}
