public static PeptideFileAnalysis GetPeptideFileAnalysis(
PeptideAnalysis peptideAnalysis, DbPeptideFileAnalysis dbPeptideFileAnalysis)
{
PeptideFileAnalysis peptideFileAnalysis;
peptideAnalysis.FileAnalyses.TryGetValue(dbPeptideFileAnalysis.GetId(), out peptideFileAnalysis);
return(peptideFileAnalysis);
}
public AnalysisChromatograms(DbPeptideFileAnalysis dbPeptideFileAnalysis)
{
PeptideAnalysisId = dbPeptideFileAnalysis.PeptideAnalysis.Id.Value;
PeptideFileAnalysisId = dbPeptideFileAnalysis.Id.Value;
FirstTime = dbPeptideFileAnalysis.ChromatogramStartTime;
LastTime = dbPeptideFileAnalysis.ChromatogramEndTime;
MinCharge = dbPeptideFileAnalysis.PeptideAnalysis.MinCharge;
MaxCharge = dbPeptideFileAnalysis.PeptideAnalysis.MaxCharge;
Sequence = dbPeptideFileAnalysis.PeptideAnalysis.Peptide.Sequence;
}
public AnalysisChromatograms(DbPeptideFileAnalysis dbPeptideFileAnalysis)
{
PeptideAnalysisId = dbPeptideFileAnalysis.PeptideAnalysis.Id.Value;
PeptideFileAnalysisId = dbPeptideFileAnalysis.Id.Value;
FirstTime = dbPeptideFileAnalysis.ChromatogramStartTime;
LastTime = dbPeptideFileAnalysis.ChromatogramEndTime;
MinCharge = dbPeptideFileAnalysis.PeptideAnalysis.MinCharge;
MaxCharge = dbPeptideFileAnalysis.PeptideAnalysis.MaxCharge;
Sequence = dbPeptideFileAnalysis.PeptideAnalysis.Peptide.Sequence;
}
public static void DeleteResults(ISession session, DbPeptideFileAnalysis dbPeptideFileAnalysis)
{
dbPeptideFileAnalysis.PrecursorEnrichment = null;
dbPeptideFileAnalysis.PrecursorEnrichmentFormula = null;
dbPeptideFileAnalysis.TracerPercent = null;
dbPeptideFileAnalysis.Turnover = null;
dbPeptideFileAnalysis.DeconvolutionScore = null;
dbPeptideFileAnalysis.IntegrationNote = null;
session.CreateSQLQuery("DELETE FROM DbPeak WHERE PeptideFileAnalysis = :peptideFileAnalysisId")
.SetParameter("peptideFileAnalysisId", dbPeptideFileAnalysis.Id)
.ExecuteUpdate();
}
public PeptideFileAnalysisData(DbPeptideFileAnalysis dbPeptideFileAnalysis, IEnumerable<Peak> peaks)
{
MsDataFileId = dbPeptideFileAnalysis.MsDataFile.GetId();
ValidationStatus = dbPeptideFileAnalysis.ValidationStatus;
Note = dbPeptideFileAnalysis.Note;
ChromatogramStartTime = dbPeptideFileAnalysis.ChromatogramStartTime;
ChromatogramEndTime = dbPeptideFileAnalysis.ChromatogramEndTime;
AutoFindPeak = dbPeptideFileAnalysis.AutoFindPeak;
Peaks = new PeakSet(dbPeptideFileAnalysis, peaks);
if (null != dbPeptideFileAnalysis.ChromatogramSet)
{
ChromatogramSetId = dbPeptideFileAnalysis.ChromatogramSet.Id;
}
}
public PeptideFileAnalysisData(DbPeptideFileAnalysis dbPeptideFileAnalysis, IEnumerable <Peak> peaks)
{
MsDataFileId = dbPeptideFileAnalysis.MsDataFile.GetId();
ValidationStatus = dbPeptideFileAnalysis.ValidationStatus;
Note = dbPeptideFileAnalysis.Note;
ChromatogramStartTime = dbPeptideFileAnalysis.ChromatogramStartTime;
ChromatogramEndTime = dbPeptideFileAnalysis.ChromatogramEndTime;
AutoFindPeak = dbPeptideFileAnalysis.AutoFindPeak;
Peaks = new PeakSet(dbPeptideFileAnalysis, peaks);
if (null != dbPeptideFileAnalysis.ChromatogramSet)
{
ChromatogramSetId = dbPeptideFileAnalysis.ChromatogramSet.Id;
}
}
public PeakSet(DbPeptideFileAnalysis dbPeptideFileAnalysis, IEnumerable <Peak> peaks) : this()
{
TracerPercent = dbPeptideFileAnalysis.TracerPercent;
DeconvolutionScore = dbPeptideFileAnalysis.DeconvolutionScore;
PrecursorEnrichment = dbPeptideFileAnalysis.PrecursorEnrichment;
if (dbPeptideFileAnalysis.PrecursorEnrichmentFormula != null)
{
PrecursorEnrichmentFormula = TracerPercentFormula.Parse(dbPeptideFileAnalysis.PrecursorEnrichmentFormula);
}
Turnover = dbPeptideFileAnalysis.Turnover;
TurnoverScore = dbPeptideFileAnalysis.TurnoverScore;
IntegrationNote = IntegrationNote.Parse(dbPeptideFileAnalysis.IntegrationNote);
if (peaks != null)
{
_peaks = ImmutableList.ValueOf(peaks);
}
}
public static void DeleteResults(ISession session, DbPeptideFileAnalysis dbPeptideFileAnalysis)
{
dbPeptideFileAnalysis.PrecursorEnrichment = null;
dbPeptideFileAnalysis.PrecursorEnrichmentFormula = null;
dbPeptideFileAnalysis.TracerPercent = null;
dbPeptideFileAnalysis.Turnover = null;
dbPeptideFileAnalysis.DeconvolutionScore = null;
dbPeptideFileAnalysis.IntegrationNote = null;
session.CreateSQLQuery("DELETE FROM DbPeak WHERE PeptideFileAnalysis = :peptideFileAnalysisId")
.SetParameter("peptideFileAnalysisId", dbPeptideFileAnalysis.Id)
.ExecuteUpdate();
}
public PeakSet(DbPeptideFileAnalysis dbPeptideFileAnalysis, IEnumerable<Peak> peaks)
: this()
{
TracerPercent = dbPeptideFileAnalysis.TracerPercent;
DeconvolutionScore = dbPeptideFileAnalysis.DeconvolutionScore;
PrecursorEnrichment = dbPeptideFileAnalysis.PrecursorEnrichment;
if (dbPeptideFileAnalysis.PrecursorEnrichmentFormula != null)
{
PrecursorEnrichmentFormula = TracerPercentFormula.Parse(dbPeptideFileAnalysis.PrecursorEnrichmentFormula);
}
Turnover = dbPeptideFileAnalysis.Turnover;
TurnoverScore = dbPeptideFileAnalysis.TurnoverScore;
IntegrationNote = IntegrationNote.Parse(dbPeptideFileAnalysis.IntegrationNote);
if (peaks != null)
{
_peaks = ImmutableList.ValueOf(peaks);
}
}
