private IDictionary <ResultKey, ResultFile> MakeResults()
{
var dict = new Dictionary <ResultKey, ResultFile>();
var document = SrmDocument;
if (document.Settings.HasResults)
{
for (int iResult = 0; iResult < document.Settings.MeasuredResults.Chromatograms.Count; iResult++)
{
var replicate = new Replicate(DataSchema, iResult);
var chromatogramSet = document.Settings.MeasuredResults.Chromatograms[iResult];
for (int iFile = 0; iFile < chromatogramSet.MSDataFileInfos.Count; iFile++)
{
var resultFile = new ResultFile(replicate, chromatogramSet.MSDataFileInfos[iFile].FileId, 0);
dict.Add(new ResultKey(replicate, iFile), resultFile);
}
}
}
return(dict);
}
public TransitionResult(Transition transition, ResultFile resultFile) : base(transition, resultFile)
{
_chromInfo = CachedValue.Create(DataSchema, () => GetResultFile().FindChromInfo(transition.DocNode.Results));
_chromatogram = CachedValue.Create(DataSchema,
() => new Chromatogram(new ChromatogramGroup(PrecursorResult), Transition));
}
public PeptideResult(Peptide peptide, ResultFile file) : base(peptide, file)
{
_chromInfo = CachedValue.Create(DataSchema, () => ResultFile.FindChromInfo(peptide.DocNode.Results));
_quantificationResult = CachedValue.Create(DataSchema, GetQuantification);
_calibrationCurveFitter = CachedValue.Create(DataSchema, GetCalibrationCurveFitter);
}
public PrecursorResult(Precursor precursor, ResultFile file) : base(precursor, file)
{
_chromInfo = CachedValue.Create(DataSchema, () => GetResultFile().FindChromInfo(precursor.DocNode.Results));
}
protected IDictionary <ResultKey, TResult> MakeChromInfoResultsMap <TChromInfo, TResult>(
Results <TChromInfo> results, Func <ResultFile, TResult> newResultFunc) where TChromInfo : ChromInfo
{
if (results == null)
{
return(ImmutableSortedList <ResultKey, TResult> .EMPTY.AsDictionary());
}
var replicates = DataSchema.ReplicateList;
var resultFiles = DataSchema.ResultFileList;
if (replicates.Count == results.Count && results.All(r => r.Count == 1 && r[0] != null))
{
// If every replicate has exactly one result, then we can reuse the keys in "DataSchema.ReplicateList".
var newValues = new List <TResult>(replicates.Count);
for (int replicateIndex = 0; replicateIndex < replicates.Count; replicateIndex++)
{
var chromInfo = results[replicateIndex][0];
var optStep = ResultFile.GetOptStep(chromInfo);
ResultFile resultFile = null;
if (optStep == 0)
{
resultFiles.TryGetValue(new ResultFileKey(replicateIndex, chromInfo.FileId, optStep), out resultFile);
}
if (resultFile == null)
{
resultFile = new ResultFile(replicates.Values[replicateIndex], chromInfo.FileId, optStep);
}
newValues.Add(newResultFunc(resultFile));
}
return(replicates.ReplaceValues(newValues).AsDictionary());
}
var newEntries = new List <KeyValuePair <ResultKey, TResult> >();
for (int replicateIndex = 0; replicateIndex < results.Count; replicateIndex++)
{
var replicate = new Replicate(DataSchema, replicateIndex);
var files = results[replicateIndex];
for (int fileIndex = 0; fileIndex < files.Count; fileIndex++)
{
var chromInfo = files[fileIndex];
if (null == chromInfo)
{
continue;
}
var key = fileIndex == 0 ? replicates.Keys[replicateIndex] : new ResultKey(replicate, fileIndex);
int optStep = ResultFile.GetOptStep(chromInfo);
ResultFile resultFile = null;
if (optStep == 0)
{
resultFiles.TryGetValue(new ResultFileKey(replicateIndex, chromInfo.FileId, optStep), out resultFile);
}
if (resultFile == null)
{
resultFile = new ResultFile(replicates.Values[replicateIndex], chromInfo.FileId, optStep);
}
newEntries.Add(new KeyValuePair <ResultKey, TResult>(key, newResultFunc(resultFile)));
}
}
return(ImmutableSortedList <ResultKey, TResult> .FromValues(newEntries, Comparer <ResultKey> .Default)
.AsDictionary());
}
protected Result(SkylineDocNode docNode, ResultFile resultFile) : base(docNode.DataSchema)
{
SkylineDocNode = docNode;
_resultFile = resultFile;
}
public ProteinResult(Protein protein, ResultFile resultFile) : base(protein, resultFile)
{
}
protected static bool MatchesWithoutOptStep(ResultFile resultFile1, ResultFile resultFile2)
{
return(Equals(resultFile1.Replicate.ReplicateIndex, resultFile2.Replicate.ReplicateIndex) &&
ReferenceEquals(resultFile1.ChromFileInfoId, resultFile2.ChromFileInfoId));
}
protected static IEnumerable <TResult> FindResults(IDictionary <ResultKey, TResult> results, ResultFile resultFile)
{
return(results.Values.Where(result => MatchesWithoutOptStep(result.GetResultFile(), resultFile)));
}
public TransitionResult(Transition transition, ResultFile resultFile) : base(transition, resultFile)
{
_chromInfo = CachedValue.Create(DataSchema, () => GetResultFile().FindChromInfo(transition.DocNode.Results));
}