private void ShareMinimal(ZipFileShare zip)
{
TemporaryDirectory tempDir = null;
try
{
var docOriginal = Document;
if (Document.Settings.HasBackgroundProteome)
{
// Remove any background proteome reference
Document = Document.ChangeSettings(Document.Settings.ChangePeptideSettings(
set => set.ChangeBackgroundProteome(BackgroundProteome.NONE)));
}
if (Document.Settings.HasRTCalcPersisted)
{
// Minimize any persistable retention time calculator
tempDir = new TemporaryDirectory();
string tempDbPath = Document.Settings.PeptideSettings.Prediction.RetentionTime
.Calculator.PersistMinimized(tempDir.DirPath, Document);
if (tempDbPath != null)
{
zip.AddFile(tempDbPath);
}
}
if (Document.Settings.HasOptimizationLibraryPersisted)
{
if (tempDir == null)
{
tempDir = new TemporaryDirectory();
}
string tempDbPath = Document.Settings.TransitionSettings.Prediction.OptimizedLibrary.PersistMinimized(
tempDir.DirPath, Document);
if (tempDbPath != null)
{
zip.AddFile(tempDbPath);
}
}
if (Document.Settings.HasIonMobilityLibraryPersisted)
{
// Minimize any persistable ion mobility predictor
if (tempDir == null)
{
tempDir = new TemporaryDirectory();
}
string tempDbPath = Document.Settings.TransitionSettings.IonMobilityFiltering.IonMobilityLibrary
.PersistMinimized(tempDir.DirPath, Document, null, out _);
if (tempDbPath != null)
{
zip.AddFile(tempDbPath);
}
}
if (Document.Settings.HasLibraries)
{
// Minimize all libraries in a temporary directory, and add them
if (tempDir == null)
{
tempDir = new TemporaryDirectory();
}
Document = BlibDb.MinimizeLibraries(Document, tempDir.DirPath,
Path.GetFileNameWithoutExtension(DocumentPath),
null,
ProgressMonitor);
if (ProgressMonitor != null && ProgressMonitor.IsCanceled)
{
return;
}
foreach (var librarySpec in Document.Settings.PeptideSettings.Libraries.LibrarySpecs)
{
var tempLibPath = Path.Combine(tempDir.DirPath, Path.GetFileName(librarySpec.FilePath) ?? string.Empty);
zip.AddFile(tempLibPath);
// If there is a .redundant.blib file that corresponds to a .blib file
// in the temp temporary directory, add that as well
IncludeRedundantBlib(librarySpec, zip, tempLibPath);
}
}
var auditLogDocPath = DocumentPath;
tempDir = ShareDataAndView(zip, tempDir);
if (ReferenceEquals(docOriginal, Document) && null == ShareType.SkylineVersion)
{
zip.AddFile(DocumentPath);
}
else
{
tempDir = ShareDocument(zip, tempDir, out auditLogDocPath);
}
SafeAuditLog(zip, auditLogDocPath);
Save(zip);
}
finally
{
DeleteTempDir(tempDir);
}
}
private void ShareMinimal(ZipFile zip)
{
TemporaryDirectory tempDir = null;
try
{
var docOriginal = Document;
if (Document.Settings.HasBackgroundProteome)
{
// Remove any background proteome reference
Document = Document.ChangeSettings(Document.Settings.ChangePeptideSettings(
set => set.ChangeBackgroundProteome(BackgroundProteome.NONE)));
}
if (Document.Settings.HasRTCalcPersisted)
{
// Minimize any persistable retention time calculator
tempDir = new TemporaryDirectory();
string tempDbPath = Document.Settings.PeptideSettings.Prediction.RetentionTime
.Calculator.PersistMinimized(tempDir.DirPath, Document);
if (tempDbPath != null)
{
zip.AddFile(tempDbPath, string.Empty);
}
}
if (Document.Settings.HasOptimizationLibraryPersisted)
{
tempDir = new TemporaryDirectory();
string tempDbPath = Document.Settings.TransitionSettings.Prediction.OptimizedLibrary.PersistMinimized(
tempDir.DirPath, Document);
if (tempDbPath != null)
{
zip.AddFile(tempDbPath, string.Empty);
}
}
if (Document.Settings.HasIonMobilityLibraryPersisted)
{
// Minimize any persistable drift time predictor
tempDir = new TemporaryDirectory();
string tempDbPath = Document.Settings.PeptideSettings.Prediction.DriftTimePredictor
.IonMobilityLibrary.PersistMinimized(tempDir.DirPath, Document);
if (tempDbPath != null)
{
zip.AddFile(tempDbPath, string.Empty);
}
}
if (Document.Settings.HasLibraries)
{
// Minimize all libraries in a temporary directory, and add them
if (tempDir == null)
{
tempDir = new TemporaryDirectory();
}
Document = BlibDb.MinimizeLibraries(Document, tempDir.DirPath,
Path.GetFileNameWithoutExtension(DocumentPath),
ProgressMonitor);
if (ProgressMonitor != null && ProgressMonitor.IsCanceled)
{
return;
}
foreach (var librarySpec in Document.Settings.PeptideSettings.Libraries.LibrarySpecs)
{
var tempLibPath = Path.Combine(tempDir.DirPath, Path.GetFileName(librarySpec.FilePath) ?? string.Empty);
zip.AddFile(tempLibPath, string.Empty);
// If there is a .redundant.blib file that corresponds to a .blib file
// in the temp temporary directory, add that as well
IncludeRedundantBlib(librarySpec, zip, tempLibPath);
}
}
ShareDataAndView(zip);
if (ReferenceEquals(docOriginal, Document))
{
zip.AddFile(DocumentPath, string.Empty);
}
else
{
// If minimizing changed the document, then serialize and archive the new document
var stringWriter = new XmlStringWriter();
using (var writer = new XmlTextWriter(stringWriter)
{
Formatting = Formatting.Indented
})
{
XmlSerializer ser = new XmlSerializer(typeof(SrmDocument));
ser.Serialize(writer, Document);
zip.AddEntry(Path.GetFileName(DocumentPath), stringWriter.ToString(), Encoding.UTF8);
}
}
Save(zip);
}
finally
{
if (tempDir != null)
{
try
{
tempDir.Dispose();
}
catch (IOException x)
{
var message = TextUtil.LineSeparate(string.Format(Resources.SrmDocumentSharing_ShareMinimal_Failure_removing_temporary_directory__0__,
tempDir.DirPath),
x.Message);
throw new IOException(message);
}
}
}
}