public FastaSeqV01 GetModel()
{
// For backward compatibility, check the first amino acid
// for 'X', and assume it is a peptide list, if it is.
bool peptideList = PeptideList || Sequence[0] == 'X'; // Not L10N
FastaSeqV01Builder seqBuilder = new FastaSeqV01Builder
{
Id = Name, PeptideList = peptideList
};
List <string> descriptions = new List <string> {
Description
};
if (Alternatives != null)
{
foreach (XmlAlternativeProtein alternative in Alternatives)
{
descriptions.Add(alternative.Name + " " + alternative.Description); // Not L10N
}
}
seqBuilder.Descriptions = descriptions.ToArray();
string sequence = Sequence.Trim();
if (peptideList && sequence.Length > 0 && sequence[0] == FastaSeqV01.PEPTIDE_SEPARATOR)
{
peptideList = false;
sequence = sequence.Substring(1);
}
foreach (char aa in sequence)
{
if (peptideList && aa == '\n')
{
seqBuilder.EndPeptide();
}
if (!char.IsWhiteSpace(aa))
{
seqBuilder.Append(aa);
}
}
if (peptideList)
{
seqBuilder.EndPeptide();
}
return(seqBuilder.ToFastaSequence());
}
public FastaSeqV01 GetModel()
{
// For backward compatibility, check the first amino acid
// for 'X', and assume it is a peptide list, if it is.
bool peptideList = PeptideList || Sequence[0] == 'X'; // Not L10N
FastaSeqV01Builder seqBuilder = new FastaSeqV01Builder
{ Id = Name, PeptideList = peptideList };
List<string> descriptions = new List<string> {Description};
if (Alternatives != null)
{
foreach (XmlAlternativeProtein alternative in Alternatives)
descriptions.Add(alternative.Name + " " + alternative.Description); // Not L10N
}
seqBuilder.Descriptions = descriptions.ToArray();
string sequence = Sequence.Trim();
if (peptideList && sequence.Length > 0 && sequence[0] == FastaSeqV01.PEPTIDE_SEPARATOR)
{
peptideList = false;
sequence = sequence.Substring(1);
}
foreach (char aa in sequence)
{
if (peptideList && aa == '\n')
seqBuilder.EndPeptide();
if (!char.IsWhiteSpace(aa))
seqBuilder.Append(aa);
}
if (peptideList)
seqBuilder.EndPeptide();
return seqBuilder.ToFastaSequence();
}
