/// <summary>
/// Returns parser which supports the specified file.
/// </summary>
/// <param name="fileName">File name for which the parser is required.</param>
/// <param name="parserName">Name of the parser to use.</param>
/// <returns>If found returns the open parser as ISequenceParser else returns null.</returns>
public static ISequenceParser FindParserByName(string fileName, string parserName)
{
ISequenceParser parser = null;
if (!string.IsNullOrEmpty(fileName) && !string.IsNullOrEmpty(parserName))
{
if (parserName == Properties.Resource.FastAName)
{
parser = fasta;
}
else if (parserName == Properties.Resource.FastQName)
{
parser = new SequenceParserDecorator <FastQParser, IQualitativeSequence>(fastq);
}
else if (parserName == Properties.Resource.GENBANK_NAME)
{
parser = genBank;
}
else if (parserName == Properties.Resource.GFF_NAME)
{
parser = gff;
}
else
{
// Do a search through the known parsers to pick up custom parsers added through add-in.
parser = All.FirstOrDefault(p => p.Name == parserName);
}
}
return(parser);
}
/// <summary>
/// Finds a suitable parser that supports the specified file, opens the file and returns the parser.
/// </summary>
/// <param name="fileName">File name for which the parser is required.</param>
/// <returns>If found returns the open parser as ISequenceParser else returns null.</returns>
public static ISequenceParser FindParserByFileName(string fileName)
{
ISequenceParser parser = null;
if (!string.IsNullOrEmpty(fileName))
{
if (IsFasta(fileName))
{
parser = fasta;
}
else if (IsFastQ(fileName))
{
parser = new SequenceParserDecorator <FastQParser, IQualitativeSequence>(fastq);
}
else if (IsGenBank(fileName))
{
parser = genBank;
}
else if (fileName.EndsWith(Properties.Resource.GFF_FILEEXTENSION, StringComparison.OrdinalIgnoreCase))
{
parser = gff;
}
else
{
// Do a search through the known parsers to pick up custom parsers added through add-in.
string fileExtension = Path.GetExtension(fileName);
if (!string.IsNullOrEmpty(fileExtension))
{
parser = All.FirstOrDefault(p => p.SupportedFileTypes.Contains(fileExtension));
}
}
}
return(parser);
}