private void UpdateProject()
{
try
{
this.Analysis.DataProviders.DatabaseLock.EnterWriteLock();
this.Analysis.DataProviders.DatasetCache.UpdateAll(this.Datasets.Select(d => d.Dataset).ToList());
this.Analysis.DataProviders.OptionsDao.AddAll(OptionsTransformer.PropertiesToList(this.Analysis.Options));
}
finally
{
this.Analysis.DataProviders.DatabaseLock.ExitWriteLock();
}
}
private void PersistProject()
{
if (this.Analysis.DataProviders == null)
{
return;
}
if (string.IsNullOrWhiteSpace(this.projectDirectory))
{
this.projectDirectory = Path.GetDirectoryName(this.ProjectPath) + Path.DirectorySeparatorChar;
}
// Get the relative paths set up.
foreach (var dataset in this.Datasets.Select(d => d.Dataset))
{
foreach (var file in dataset.InputFiles)
{
file.RelativePath = PathUtils.MakeRelativePath(this.projectDirectory, file.Path);
}
}
// Persist
try
{
this.Analysis.DataProviders.DatabaseLock.EnterWriteLock();
this.Analysis.DataProviders.DatasetCache.AddAll(this.Datasets.Select(d => d.Dataset).ToList());
this.Analysis.DataProviders.DatasetCache.DeleteAll(this.deletedDatasets);
// TODO: remove features and such from the database as well.
this.deletedDatasets.Clear();
this.Analysis.DataProviders.OptionsDao.AddAll(
OptionsTransformer.PropertiesToList(this.Analysis.Options));
}
finally
{
this.Analysis.DataProviders.DatabaseLock.ExitWriteLock();
}
}
/// <summary>
/// Load a project
/// </summary>
/// <param name="isNewProject">If the project is a new one</param>
/// <param name="datasets">Datasets to add to the project, if it is a new project.</param>
/// <returns></returns>
private async Task LoadRogueProject(bool isNewProject, List <DatasetInformation> datasets = null)
{
Directory.SetCurrentDirectory(this.outputDirectory);
this.Analysis = new MultiAlignAnalysis
{
DataProviders = this.SetupDataProviders(this.ProjectPath, isNewProject),
};
var fileName = Path.GetFileNameWithoutExtension(this.projectPath);
this.Analysis.AnalysisName = fileName;
this.WindowTitle = string.Format("MultiAlign Rogue ({0})", fileName);
this.deletedDatasets.Clear();
var dbOptions = this.Analysis.DataProviders.OptionsDao.FindAll();
this.Analysis.Options = OptionsTransformer.ListToProperties(dbOptions);
if (datasets != null)
{
this.analysis.MetaData.Datasets.AddRange(datasets);
}
//Prevent updates of ViewModels (that we will recreate anyway) while loading datasets
this.clusterViewFactory = null;
this.DataLoadingSettingsViewModel = null;
this.FeatureFindingSettingsViewModel = null;
this.AlignmentSettingsViewModel = null;
this.StacSettingsViewModel = null;
var dbDatasets = this.Analysis.DataProviders.DatasetCache.FindAll();
// Resolve the relative paths
if (!string.IsNullOrWhiteSpace(this.projectDirectory))
{
foreach (var dataset in dbDatasets)
{
foreach (var file in dataset.InputFiles)
{
if (!string.IsNullOrWhiteSpace(file.RelativePath))
{
var combined = Path.Combine(this.projectDirectory, file.RelativePath);
var cleaned = Path.GetFullPath(combined);
if (File.Exists(cleaned))
{
file.Path = cleaned;
}
}
// TODO: show warning if file cannot be found.
// TODO: OR disable redo of step that needs specified file, if file is only needed for e.g. feature finding
}
}
}
this.Analysis.MetaData.Datasets.AddRange(dbDatasets);
this.Analysis.MetaData.BaselineDataset = this.Analysis.MetaData.Datasets.FirstOrDefault(ds => ds.IsBaseline);
this.analysisConfig.AnalysisPath = this.ProjectPath;
await this.UpdateDatasets();
this.clusterViewFactory = new ClusterViewFactory(this.Analysis.DataProviders);
this.DataLoadingSettingsViewModel = new DataLoadingSettingsViewModel(this.Analysis);
this.FeatureFindingSettingsViewModel = new FeatureFindingSettingsViewModel(this.Analysis, this.Datasets);
this.AlignmentSettingsViewModel = new AlignmentSettingsViewModel(this.Analysis, this.Datasets);
this.StacSettingsViewModel = new StacSettingsViewModel(this.Analysis, this.Datasets);
DatabaseSelectionViewModel.Instance.Analysis = this.Analysis;
if (this.Analysis.Options.AlignmentOptions.InputDatabase != null)
{
await DatabaseSelectionViewModel.Instance.LoadMassTagDatabase(this.Analysis.Options.AlignmentOptions.InputDatabase);
}
this.ClusterSettingsViewModel = new ClusterSettingsViewModel(this.Analysis, this.Datasets, this.clusterViewFactory);
}
