public Chromatogram(ChromatogramGenerator.Chromatogram chromatogram) : this() { MzMin = chromatogram.MzRange.Min; MzMax = chromatogram.MzRange.Max; ChromatogramPoints = ImmutableList.ValueOf(chromatogram.Points); }
public void TestChromatogramGenerator() { String dbPath = Path.Combine(TestContext.TestDir, "test" + Guid.NewGuid() + ".tpg"); using (var sessionFactory = SessionFactoryFactory.CreateSessionFactory(dbPath, SessionFactoryFlags.CreateSchema)) { using (var session = sessionFactory.OpenSession()) { session.BeginTransaction(); DbWorkspace dbWorkspace = new DbWorkspace { TracerDefCount = 1, }; session.Save(dbWorkspace); DbTracerDef dbTracerDef = TracerDef.GetN15Enrichment(); dbTracerDef.Workspace = dbWorkspace; dbTracerDef.Name = "Tracer"; session.Save(dbTracerDef); session.Save(new DbSetting { Workspace = dbWorkspace, Name = SettingEnum.data_directory.ToString(), Value = GetDataDirectory() }); session.Transaction.Commit(); } } Workspace workspace = new Workspace(dbPath); workspace.SetTaskScheduler(TaskScheduler.Default); var dbMsDataFile = new DbMsDataFile { Name = "20090724_HT3_0", }; using (var session = workspace.OpenWriteSession()) { session.BeginTransaction(); session.Save(dbMsDataFile); session.Transaction.Commit(); } workspace.DatabasePoller.LoadAndMergeChanges(null); var msDataFile = workspace.MsDataFiles.FindByKey(dbMsDataFile.GetId()); Assert.IsTrue(MsDataFileUtil.InitMsDataFile(workspace, msDataFile)); DbPeptide dbPeptide; using (var session = workspace.OpenWriteSession()) { session.BeginTransaction(); dbPeptide = new DbPeptide { Protein = "TestProtein", Sequence = "YLAAYLLLVQGGNAAPSAADIK", FullSequence = "K.YLAAYLLLVQGGNAAPSAADIK.A", }; session.Save(dbPeptide); var searchResult = new DbPeptideSpectrumMatch { Peptide = dbPeptide, MsDataFile = session.Load<DbMsDataFile>(msDataFile.Id), PrecursorCharge = 3, RetentionTime = 20.557 * 60, }; session.Save(searchResult); session.Transaction.Commit(); } var peptide = new Peptide(workspace, dbPeptide); var peptideAnalysis = peptide.EnsurePeptideAnalysis(); peptideAnalysis.IncChromatogramRefCount(); var peptideFileAnalysis = PeptideFileAnalysis.EnsurePeptideFileAnalysis(peptideAnalysis, msDataFile); workspace.DatabasePoller.LoadAndMergeChanges(null); peptideAnalysis.IncChromatogramRefCount(); var chromatogramGenerator = new ChromatogramGenerator(workspace); chromatogramGenerator.Start(); while (peptideFileAnalysis.ChromatogramSet == null) { Thread.Sleep(100); } var chromatogramDatas = peptideFileAnalysis.GetChromatograms(); Assert.IsFalse(chromatogramDatas.Chromatograms.Count == 0); chromatogramGenerator.Stop(); while (chromatogramGenerator.IsThreadAlive) { Thread.Sleep(100); } }