public ResultFile(Replicate replicate, ChromFileInfoId chromFileInfoId, int optStep) : base(replicate.DataSchema)
{
Replicate = replicate;
ChromFileInfoId = chromFileInfoId;
_chromFileInfo = CachedValue.Create(DataSchema, () => Replicate.ChromatogramSet.GetFileInfo(ChromFileInfoId));
OptimizationStep = optStep;
}
public override ElementRef GetElementRef()
{
var sibling = ResultFileRef.PROTOTYPE.ChangeParent(Replicate.GetElementRef());
int fileIndex = Replicate.ChromatogramSet.IndexOfId(ChromFileInfoId);
return(sibling.ListChildrenOfParent(SrmDocument).Skip(fileIndex).FirstOrDefault());
}
protected IDictionary <ResultKey, TResult> MakeChromInfoResultsMap <TChromInfo, TResult>(
Results <TChromInfo> results, Func <ResultFile, TResult> newResultFunc) where TChromInfo : ChromInfo
{
var resultMap = new Dictionary <ResultKey, TResult>();
if (results == null)
{
return(resultMap);
}
for (int replicateIndex = 0; replicateIndex < results.Count; replicateIndex++)
{
var replicate = new Replicate(DataSchema, replicateIndex);
var files = results[replicateIndex];
if (null == files)
{
continue;
}
for (int fileIndex = 0; fileIndex < files.Count; fileIndex++)
{
var chromInfo = files[fileIndex];
if (null == chromInfo)
{
continue;
}
var key = new ResultKey(replicate, fileIndex);
var resultFile = new ResultFile(replicate, chromInfo.FileId, ResultFile.GetOptStep(chromInfo));
resultMap.Add(key, newResultFunc(resultFile));
}
}
return(resultMap);
}
public int CompareTo(object obj)
{
if (null == obj)
{
return(1);
}
var resultFile = (ResultFile)obj;
int replicateCompare = Replicate.CompareTo(resultFile.Replicate);
if (0 != replicateCompare)
{
return(replicateCompare);
}
return(string.Compare(FileName, resultFile.FileName, StringComparison.CurrentCultureIgnoreCase));
}
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);
}
protected bool Equals(Replicate other)
{
return(Equals(DataSchema, other.DataSchema) &&
ReplicateIndex == other.ReplicateIndex);
}
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());
}
public ResultKey(Replicate replicate, int fileIndex)
: this(replicate.Name, replicate.ReplicateIndex, fileIndex)
{
}
public override string ToString()
{
return(TextUtil.SpaceSeparate(Protein.ToString(), Replicate.ToString()));
}
public ProteinResult(Protein protein, Replicate replicate) : base(protein.DataSchema)
{
Replicate = replicate;
Protein = protein;
}