public override string GetValue(string fieldName)
{
switch (fieldName)
{
case Fields.Identifier:
return(Identifiers == null ? MzTab.NullFieldText : string.Join("|", Identifiers));
case Fields.ChemicalFormula:
return(ChemicalFormula.ToString());
case Fields.Smiles:
return(Smiles ?? MzTab.NullFieldText);
case Fields.InChIKey:
return(InChIKeys == null ? MzTab.NullFieldText : string.Join("|", InChIKeys));
case Fields.Description:
return(Description ?? MzTab.NullFieldText);
case Fields.ExperimentMZ:
return(ExperimentalMZ.ToString());
case Fields.TheoreticalMZ:
return(TheoreticalMZ.ToString());
case Fields.Charge:
return(Charge.ToString());
case Fields.RetentionTime:
return(RetentionTimes == null ? MzTab.NullFieldText : string.Join("|", RetentionTimes));
case Fields.TaxID:
return(TaxID.ToString());
case Fields.Species:
return(Species ?? MzTab.NullFieldText);
case Fields.Database:
return(Database ?? MzTab.NullFieldText);
case Fields.DatabaseVersion:
return(DatabaseVersion ?? MzTab.NullFieldText);
case Fields.Reliability:
return((Reliability == MzTab.MetabolomicsReliabilityScore.NotSet) ? MzTab.NullFieldText : ((int)Reliability).ToString());
case Fields.Uri:
return(Uri == null ? MzTab.NullFieldText : Uri.ToString());
case Fields.SpectralReference:
return(SpectralReference ?? MzTab.NullFieldText);
case Fields.SearchEngine:
return(SearchEngines == null ? MzTab.NullFieldText : string.Join("|", SearchEngines));
case Fields.Modifications:
return(Modifications ?? MzTab.NullFieldText);
}
if (fieldName.Contains("["))
{
string condensedFieldName;
List <int> indices = MzTab.GetFieldIndicies(fieldName, out condensedFieldName);
switch (condensedFieldName)
{
case Fields.BestSearchEngineScores:
return(GetListValue(_bestSearchEngineScores, indices[0]));
case Fields.SearchEngineScorePerMsRun:
return(GetListValue(_searchEngineScorePerMsRun, indices[0], indices[1]));
case Fields.AbundanceAssay:
return(GetListValue(_abundanceAssays, indices[0]));
case Fields.AbundanceStudyVariable:
return(GetListValue(_abundanceStudyVariables, indices[0]));
case Fields.AbundanceStDevStudyVariable:
return(GetListValue(_abundanceStdevStudyVariables, indices[0]));
case Fields.AbudnanceStdErrorStudyVariable:
return(GetListValue(_abundanceStandardErrorStudyVariables, indices[0]));
}
}
if (fieldName.StartsWith(MzTab.OptionalColumnPrefix))
{
return(GetOptionalData(fieldName));
}
throw new ArgumentException("Unexpected field name: " + fieldName);
}
public override string GetValue(string fieldName)
{
switch (fieldName)
{
case Fields.Sequence:
return(string.IsNullOrEmpty(Sequence) ? MzTab.NullFieldText : Sequence);
case Fields.ID:
return(ID.ToString());
case Fields.Accession:
return(Accession);
case Fields.Unique:
return(Unique ? "1" : "0");
case Fields.Database:
return(string.IsNullOrEmpty(Database) ? MzTab.NullFieldText : Database);
case Fields.DatabaseVersion:
return(string.IsNullOrEmpty(DatabaseVersion) ? MzTab.NullFieldText : DatabaseVersion);
case Fields.SearchEngine:
return(SearchEngines == null ? MzTab.NullFieldText : string.Join("|", SearchEngines));
case Fields.Reliability:
if (Reliability == MzTab.ReliabilityScore.NotSet)
{
return(MzTab.NullFieldText);
}
return(((int)Reliability).ToString());
case Fields.Modifications:
return(string.IsNullOrEmpty(Modifications) ? MzTab.NullFieldText : Modifications);
case Fields.RetentionTime:
return(RetentionTime == null ? MzTab.NullFieldText : string.Join("|", RetentionTime));
case Fields.Charge:
return(Charge.ToString());
case Fields.ExperimentalMZ:
return(ExperimentalMZ.ToString());
case Fields.TheoreticalMZ:
return(TheoreticalMZ.ToString());
case Fields.Uri:
return(Uri == null ? MzTab.NullFieldText : Uri.ToString());
case Fields.SpectraReference:
return(string.IsNullOrEmpty(SpectraReference) ? MzTab.NullFieldText : SpectraReference);
case Fields.PreviousAminoAcid:
return(default(char).Equals(PreviousAminoAcid) ? "-" : PreviousAminoAcid.ToString());
case Fields.FollowingAminoAcid:
return(default(char).Equals(FollowingAminoAcid) ? "-" : FollowingAminoAcid.ToString());
case Fields.StartResidue:
return(StartResiduePosition.ToString());
case Fields.EndResidue:
return(EndResiduePosition.ToString());
}
if (fieldName.Contains("["))
{
string condensedFieldName;
List <int> indices = MzTab.GetFieldIndicies(fieldName, out condensedFieldName);
if (condensedFieldName == Fields.SearchEngineScore)
{
return(GetListValue(_searchEngineScores, indices[0]));
}
}
if (fieldName.StartsWith(MzTab.OptionalColumnPrefix))
{
return(GetOptionalData(fieldName));
}
throw new ArgumentException("Unexpected field name: " + fieldName);
}
