public override void ReadXml(XmlReader reader)
{
// Read tag attributes
base.ReadXml(reader);
UseForRetentionTimeFilter = reader.GetBoolAttribute(ATTR.use_for_retention_time_prediction, false);
AnalyteConcentration = reader.GetNullableDoubleAttribute(ATTR.analyte_concentration);
SampleType = SampleType.FromName(reader.GetAttribute(ATTR.sample_type));
// Consume tag
reader.Read();
// Check if there is an optimization function element, and read
// if if there is.
IXmlElementHelper <OptimizableRegression> helper =
reader.FindHelper(OPTIMIZATION_HELPERS);
if (helper != null)
{
OptimizationFunction = helper.Deserialize(reader);
}
var chromFileInfos = new List <ChromFileInfo>();
var fileLoadIds = new List <string>();
while (reader.IsStartElement(EL.sample_file) ||
reader.IsStartElement(EL.replicate_file) ||
reader.IsStartElement(EL.chromatogram_file))
{
// Note that the file path is actually be a URI that encodes things like lockmass correction as well as filename
ChromFileInfo chromFileInfo = new ChromFileInfo(MsDataFileUri.Parse(reader.GetAttribute(ATTR.file_path)));
chromFileInfo = chromFileInfo.ChangeHasMidasSpectra(reader.GetBoolAttribute(ATTR.has_midas_spectra, false));
chromFileInfos.Add(chromFileInfo);
string id = reader.GetAttribute(ATTR.id) ?? GetOrdinalSaveId(fileLoadIds.Count);
fileLoadIds.Add(id);
reader.Read();
if (reader.IsStartElement(EL.instrument_info_list))
{
reader.Skip();
reader.Read();
}
}
Annotations = SrmDocument.ReadAnnotations(reader);
MSDataFileInfos = chromFileInfos;
_fileLoadIds = fileLoadIds.ToArray();
// Consume end tag
reader.ReadEndElement();
}
