public void TestChorusContents()
{
ChorusSession chorusSession = new ChorusSession();
ChorusContents chorusContents = chorusSession.FetchContents(TEST_ACCOUNT, new Uri(TEST_ACCOUNT.ServerUrl + "/skyline/api/contents/my/projects"));
Assert.IsNotNull(chorusContents);
}
private bool TestChorusAccount(ChorusAccount chorusAccount)
{
using (ChorusSession chorusSession = new ChorusSession(chorusAccount))
{
try
{
CookieContainer cookieContainer = new CookieContainer();
try
{
chorusSession.Login(chorusAccount, cookieContainer);
MessageDlg.Show(this, Resources.EditChorusAccountDlg_TestSettings_Settings_are_correct);
return(true);
}
catch (RemoteServerException chorusException)
{
MessageDlg.ShowException(this, chorusException);
textPassword.Focus();
return(false);
}
}
catch (Exception x)
{
MessageDlg.ShowWithException(this, Resources.EditChorusAccountDlg_TestSettings_Error_connecting_to_server__ + x.Message, x);
textServerURL.Focus();
return(false);
}
}
}
public bool TestSettings()
{
if (!ValidateValues())
{
return(false);
}
ChorusAccount chorusAccount = GetChorusAccount();
ChorusSession chorusSession = new ChorusSession();
try
{
CookieContainer cookieContainer = new CookieContainer();
try
{
chorusSession.Login(chorusAccount, cookieContainer);
MessageDlg.Show(this, Resources.EditChorusAccountDlg_TestSettings_Settings_are_correct);
return(true);
}
catch (ChorusServerException chorusException)
{
MessageDlg.ShowException(this, chorusException);
textPassword.Focus();
return(false);
}
}
catch (Exception x)
{
MessageDlg.ShowWithException(this, Resources.EditChorusAccountDlg_TestSettings_Error_connecting_to_server__ + x.Message, x);
textServerURL.Focus();
return(false);
}
}
public void TestChorusInstrumentModels()
{
var accounts = new[]
{
new ChorusAccount("https://chorusproject.org", "*****@*****.**", "pwd"),
};
ChorusSession chorusSession = new ChorusSession();
var instrumentModels = new HashSet <string>();
foreach (var account in accounts)
{
ChorusContents chorusContents = chorusSession.FetchContents(account, new Uri(account.ServerUrl + "/skyline/api/contents/my/files"));
Assert.IsNotNull(chorusContents);
foreach (var file in ListAllFiles(chorusContents))
{
instrumentModels.Add(file.instrumentModel);
}
}
Assert.AreNotEqual(0, instrumentModels.Count);
var unknownInstrumentModels = new List <string>();
foreach (var instrumentModel in instrumentModels)
{
if (null == ChorusSession.GetFileTypeFromInstrumentModel(instrumentModel))
{
unknownInstrumentModels.Add(instrumentModel);
}
}
Assert.AreEqual(0, unknownInstrumentModels.Count, "Unknown instrument models {0}", string.Join(",", unknownInstrumentModels));
}
/// <summary>
/// Tests that all instrument models are identified as something by ChorusSession.GetFileTypeFromInstrumentModel
/// </summary>
// Disabled 20170123 because Skyline Chorus API is offline
//[TestMethod]
public void TestChorusInstrumentModels()
{
var accounts = new[]
{
new ChorusAccount("https://chorusproject.org", "*****@*****.**", "pwd"),
};
ChorusSession chorusSession = new ChorusSession(TEST_ACCOUNT);
var instrumentModels = new HashSet <string>();
foreach (var account in accounts)
{
ChorusContents chorusContents;
for (int retry = 4;; retry--)
{
try
{
chorusContents = chorusSession.FetchContents(
new Uri(account.ServerUrl + "/skyline/api/contents/my/files"));
break;
}
catch (WebException webException)
{
if (retry == 0 || webException.Status != WebExceptionStatus.Timeout)
{
throw;
}
}
}
Assert.IsNotNull(chorusContents);
foreach (var file in ListAllFiles(chorusContents))
{
instrumentModels.Add(file.instrumentModel);
}
}
Assert.AreNotEqual(0, instrumentModels.Count);
var unknownInstrumentModels = new List <string>();
foreach (var instrumentModel in instrumentModels)
{
if (null == ChorusSession.GetFileTypeFromInstrumentModel(instrumentModel))
{
unknownInstrumentModels.Add(instrumentModel);
}
}
if (0 != unknownInstrumentModels.Count)
{
String message = string.Format("Unknown instrument models {0}", string.Join(",", unknownInstrumentModels));
try
{
TestContext.WriteLine(message);
}
catch (Exception)
{
Console.Error.WriteLine(message);
}
}
}
//[TestMethod]
public void TestAuthenticate()
{
CookieContainer cookieContainer = new CookieContainer();
ChorusSession chorusSession = new ChorusSession();
Assert.AreEqual(0, cookieContainer.Count);
chorusSession.Login(TEST_ACCOUNT, cookieContainer);
Assert.AreEqual(1, cookieContainer.Count);
}
public ChorusScanProvider(string docFilePath, ChorusUrl chorusUrl, ChromSource source, float[] times,
TransitionFullScanInfo[] transitions)
{
ChorusUrl = chorusUrl;
DocFilePath = docFilePath;
DataFilePath = chorusUrl;
Source = source;
Times = times;
Transitions = transitions;
_chorusSession = new ChorusSession();
}
public ChromTaskList(Action checkCancelledAction, SrmDocument srmDocument, ChorusAccount chorusAccount, ChorusUrl chorusUrl, IEnumerable<ChromatogramRequestDocument> chromatogramRequestDocuments)
{
SrmDocument = srmDocument;
ChorusSession = new ChorusSession();
_checkCancelledAction = checkCancelledAction;
_chromatogramGeneratorTasks = new List<ChromatogramGeneratorTask>();
_chromKeys = new Dictionary<ChromKey, ChromatogramGeneratorTask>();
foreach (var chunk in chromatogramRequestDocuments)
{
ChromatogramGeneratorTask task = new ChromatogramGeneratorTask(this, chorusAccount, chorusUrl, chunk);
_chromatogramGeneratorTasks.Add(task);
foreach (ChromKey chromKey in ListChromKeys(chunk))
{
_chromKeys[chromKey] = task;
}
}
_executingTasks = new HashSet<ChromatogramGeneratorTask>();
}
private void populateListViewFromDirectory(MsDataFileUri directory)
{
_abortPopulateList = false;
listView.Cursor = Cursors.Default;
_waitingForData = false;
listView.Items.Clear();
var listSourceInfo = new List <SourceInfo>();
if (null == directory || directory is MsDataFilePath && string.IsNullOrEmpty(((MsDataFilePath)directory).FilePath))
{
foreach (DriveInfo driveInfo in DriveInfo.GetDrives())
{
string label = string.Empty;
string sublabel = driveInfo.Name;
ImageIndex imageIndex = ImageIndex.Folder;
_driveReadiness[sublabel] = false;
try
{
switch (driveInfo.DriveType)
{
case DriveType.Fixed:
imageIndex = ImageIndex.LocalDrive;
label = Resources.OpenDataSourceDialog_populateListViewFromDirectory_Local_Drive;
if (driveInfo.VolumeLabel.Length > 0)
{
label = driveInfo.VolumeLabel;
}
break;
case DriveType.CDRom:
imageIndex = ImageIndex.OpticalDrive;
label = Resources.OpenDataSourceDialog_populateListViewFromDirectory_Optical_Drive;
if (driveInfo.IsReady && driveInfo.VolumeLabel.Length > 0)
{
label = driveInfo.VolumeLabel;
}
break;
case DriveType.Removable:
imageIndex = ImageIndex.OpticalDrive;
label = Resources.OpenDataSourceDialog_populateListViewFromDirectory_Removable_Drive;
if (driveInfo.IsReady && driveInfo.VolumeLabel.Length > 0)
{
label = driveInfo.VolumeLabel;
}
break;
case DriveType.Network:
label = Resources.OpenDataSourceDialog_populateListViewFromDirectory_Network_Share;
break;
}
_driveReadiness[sublabel] = IsDriveReady(driveInfo);
}
catch (Exception)
{
label += string.Format(" ({0})", Resources.OpenDataSourceDialog_populateListViewFromDirectory_access_failure); // Not L10N
}
string name = driveInfo.Name;
if (label != string.Empty)
{
name = string.Format("{0} ({1})", label, name); // Not L10N
}
listSourceInfo.Add(new SourceInfo(new MsDataFilePath(driveInfo.RootDirectory.FullName))
{
type = DataSourceUtil.FOLDER_TYPE,
imageIndex = imageIndex,
name = name,
dateModified = GetDriveModifiedTime(driveInfo)
});
}
}
else if (directory is ChorusUrl)
{
ChorusUrl chorusUrl = directory as ChorusUrl;
if (null == _chorusSession)
{
_chorusSession = new ChorusSession();
_chorusSession.ContentsAvailable += ChorusContentsAvailable;
}
if (string.IsNullOrEmpty(chorusUrl.ServerUrl))
{
foreach (var chorusAccount in _chorusAccounts)
{
listSourceInfo.Add(new SourceInfo(chorusAccount.GetChorusUrl())
{
name = chorusAccount.GetKey(),
type = DataSourceUtil.FOLDER_TYPE,
imageIndex = ImageIndex.Chorus,
});
}
}
else
{
ChorusAccount chorusAccount = GetChorusAccount(chorusUrl);
ChorusServerException exception;
bool isComplete = _chorusSession.AsyncFetchContents(chorusAccount, chorusUrl, out exception);
foreach (var item in _chorusSession.ListContents(chorusAccount, chorusUrl))
{
var imageIndex = DataSourceUtil.IsFolderType(item.Type)
? ImageIndex.Folder
: ImageIndex.MassSpecFile;
listSourceInfo.Add(new SourceInfo(item.ChorusUrl)
{
name = item.Label,
type = item.Type,
imageIndex = imageIndex,
dateModified = item.LastModified,
size = item.FileSize
});
}
if (null != exception)
{
if (MultiButtonMsgDlg.Show(this, exception.Message, Resources.OpenDataSourceDialog_populateListViewFromDirectory_Retry) != DialogResult.Cancel)
{
_chorusSession.RetryFetchContents(chorusAccount, chorusUrl);
isComplete = false;
}
}
if (!isComplete)
{
listView.Cursor = Cursors.WaitCursor;
_waitingForData = true;
}
}
}
else if (directory is MsDataFilePath)
{
MsDataFilePath msDataFilePath = (MsDataFilePath)directory;
DirectoryInfo dirInfo = new DirectoryInfo(msDataFilePath.FilePath);
DirectoryInfo[] arraySubDirInfo;
FileInfo[] arrayFileInfo;
try
{
// subitems: Name, Type, Spectra, Size, Date Modified
arraySubDirInfo = dirInfo.GetDirectories();
Array.Sort(arraySubDirInfo, (d1, d2) => string.Compare(d1.Name, d2.Name, StringComparison.CurrentCultureIgnoreCase));
arrayFileInfo = dirInfo.GetFiles();
Array.Sort(arrayFileInfo, (f1, f2) => string.Compare(f1.Name, f2.Name, StringComparison.CurrentCultureIgnoreCase));
}
catch (Exception x)
{
var message = TextUtil.LineSeparate(
Resources.OpenDataSourceDialog_populateListViewFromDirectory_An_error_occurred_attempting_to_retrieve_the_contents_of_this_directory,
x.Message);
// Might throw access violation.
MessageBox.Show(this, message, Program.Name);
return;
}
// Calculate information about the files, allowing the user to cancel
foreach (var info in arraySubDirInfo)
{
listSourceInfo.Add(getSourceInfo(info));
Application.DoEvents();
if (_abortPopulateList)
{
//MessageBox.Show( "abort" );
break;
}
}
if (!_abortPopulateList)
{
foreach (var info in arrayFileInfo)
{
listSourceInfo.Add(getSourceInfo(info));
Application.DoEvents();
if (_abortPopulateList)
{
//MessageBox.Show( "abort" );
break;
}
}
}
}
// Populate the list
var items = new List <ListViewItem>();
foreach (var sourceInfo in listSourceInfo)
{
if (sourceInfo != null &&
(sourceTypeComboBox.SelectedIndex == 0 ||
sourceTypeComboBox.SelectedItem.ToString() == sourceInfo.type ||
// Always show folders
sourceInfo.isFolder))
{
ListViewItem item = new ListViewItem(sourceInfo.ToArray(), (int)sourceInfo.imageIndex)
{
Tag = sourceInfo,
};
item.SubItems[2].Tag = sourceInfo.size;
item.SubItems[3].Tag = sourceInfo.dateModified;
items.Add(item);
}
}
listView.Items.AddRange(items.ToArray());
}
private void populateListViewFromDirectory(MsDataFileUri directory)
{
_abortPopulateList = false;
listView.Cursor = Cursors.Default;
_waitingForData = false;
listView.Items.Clear();
var listSourceInfo = new List<SourceInfo>();
if (null == directory || directory is MsDataFilePath && string.IsNullOrEmpty(((MsDataFilePath) directory).FilePath))
{
foreach (DriveInfo driveInfo in DriveInfo.GetDrives())
{
string label = string.Empty;
string sublabel = driveInfo.Name;
ImageIndex imageIndex = ImageIndex.Folder;
_driveReadiness[sublabel] = false;
try
{
switch (driveInfo.DriveType)
{
case DriveType.Fixed:
imageIndex = ImageIndex.LocalDrive;
label = Resources.OpenDataSourceDialog_populateListViewFromDirectory_Local_Drive;
if (driveInfo.VolumeLabel.Length > 0)
label = driveInfo.VolumeLabel;
break;
case DriveType.CDRom:
imageIndex = ImageIndex.OpticalDrive;
label = Resources.OpenDataSourceDialog_populateListViewFromDirectory_Optical_Drive;
if (driveInfo.IsReady && driveInfo.VolumeLabel.Length > 0)
label = driveInfo.VolumeLabel;
break;
case DriveType.Removable:
imageIndex = ImageIndex.OpticalDrive;
label = Resources.OpenDataSourceDialog_populateListViewFromDirectory_Removable_Drive;
if (driveInfo.IsReady && driveInfo.VolumeLabel.Length > 0)
label = driveInfo.VolumeLabel;
break;
case DriveType.Network:
label = Resources.OpenDataSourceDialog_populateListViewFromDirectory_Network_Share;
break;
}
_driveReadiness[sublabel] = IsDriveReady(driveInfo);
}
catch (Exception)
{
label += string.Format(" ({0})", Resources.OpenDataSourceDialog_populateListViewFromDirectory_access_failure); // Not L10N
}
string name = driveInfo.Name;
if (label != string.Empty)
name = string.Format("{0} ({1})", label, name); // Not L10N
listSourceInfo.Add(new SourceInfo(new MsDataFilePath(driveInfo.RootDirectory.FullName))
{
type = DataSourceUtil.FOLDER_TYPE,
imageIndex = imageIndex,
name = name,
dateModified = GetDriveModifiedTime(driveInfo)
});
}
}
else if (directory is ChorusUrl)
{
ChorusUrl chorusUrl = directory as ChorusUrl;
if (null == _chorusSession)
{
_chorusSession = new ChorusSession();
_chorusSession.ContentsAvailable += ChorusContentsAvailable;
}
if (string.IsNullOrEmpty(chorusUrl.ServerUrl))
{
foreach (var chorusAccount in _chorusAccounts)
{
listSourceInfo.Add(new SourceInfo(chorusAccount.GetChorusUrl())
{
name = chorusAccount.GetKey(),
type = DataSourceUtil.FOLDER_TYPE,
imageIndex = ImageIndex.Chorus,
});
}
}
else
{
ChorusAccount chorusAccount = GetChorusAccount(chorusUrl);
ChorusServerException exception;
bool isComplete = _chorusSession.AsyncFetchContents(chorusAccount, chorusUrl, out exception);
foreach (var item in _chorusSession.ListContents(chorusAccount, chorusUrl))
{
var imageIndex = DataSourceUtil.IsFolderType(item.Type)
? ImageIndex.Folder
: ImageIndex.MassSpecFile;
listSourceInfo.Add(new SourceInfo(item.ChorusUrl)
{
name = item.Label,
type = item.Type,
imageIndex = imageIndex,
dateModified = item.LastModified,
size = item.FileSize
});
}
if (null != exception)
{
if (MultiButtonMsgDlg.Show(this, exception.Message, Resources.OpenDataSourceDialog_populateListViewFromDirectory_Retry) != DialogResult.Cancel)
{
_chorusSession.RetryFetchContents(chorusAccount, chorusUrl);
}
}
if (!isComplete)
{
listView.Cursor = Cursors.WaitCursor;
_waitingForData = true;
}
}
}
else if (directory is MsDataFilePath)
{
MsDataFilePath msDataFilePath = (MsDataFilePath) directory;
DirectoryInfo dirInfo = new DirectoryInfo(msDataFilePath.FilePath);
DirectoryInfo[] arraySubDirInfo;
FileInfo[] arrayFileInfo;
try
{
// subitems: Name, Type, Spectra, Size, Date Modified
arraySubDirInfo = dirInfo.GetDirectories();
Array.Sort(arraySubDirInfo, (d1, d2) => string.Compare(d1.Name, d2.Name, StringComparison.CurrentCultureIgnoreCase));
arrayFileInfo = dirInfo.GetFiles();
Array.Sort(arrayFileInfo, (f1, f2) => string.Compare(f1.Name, f2.Name, StringComparison.CurrentCultureIgnoreCase));
}
catch (Exception x)
{
var message = TextUtil.LineSeparate(
Resources.OpenDataSourceDialog_populateListViewFromDirectory_An_error_occurred_attempting_to_retrieve_the_contents_of_this_directory,
x.Message);
// Might throw access violation.
MessageBox.Show(this, message, Program.Name);
return;
}
// Calculate information about the files, allowing the user to cancel
foreach (var info in arraySubDirInfo)
{
listSourceInfo.Add(getSourceInfo(info));
Application.DoEvents();
if (_abortPopulateList)
{
//MessageBox.Show( "abort" );
break;
}
}
if (!_abortPopulateList)
{
foreach (var info in arrayFileInfo)
{
listSourceInfo.Add(getSourceInfo(info));
Application.DoEvents();
if (_abortPopulateList)
{
//MessageBox.Show( "abort" );
break;
}
}
}
}
// Populate the list
var items = new List<ListViewItem>();
foreach (var sourceInfo in listSourceInfo)
{
if (sourceInfo != null &&
(sourceTypeComboBox.SelectedIndex == 0 ||
sourceTypeComboBox.SelectedItem.ToString() == sourceInfo.type ||
// Always show folders
sourceInfo.isFolder))
{
ListViewItem item = new ListViewItem(sourceInfo.ToArray(), (int) sourceInfo.imageIndex)
{
Tag = sourceInfo,
};
item.SubItems[2].Tag = sourceInfo.size;
item.SubItems[3].Tag = sourceInfo.dateModified;
items.Add(item);
}
}
listView.Items.AddRange(items.ToArray());
}
public bool TestSettings()
{
if (!ValidateValues())
{
return false;
}
ChorusAccount chorusAccount = GetChorusAccount();
ChorusSession chorusSession = new ChorusSession();
try
{
CookieContainer cookieContainer = new CookieContainer();
try
{
chorusSession.Login(chorusAccount, cookieContainer);
MessageDlg.Show(this, Resources.EditChorusAccountDlg_TestSettings_Settings_are_correct);
return true;
}
catch (ChorusServerException chorusException)
{
MessageDlg.ShowException(this, chorusException);
textPassword.Focus();
return false;
}
}
catch (Exception x)
{
MessageDlg.ShowWithException(this, Resources.EditChorusAccountDlg_TestSettings_Error_connecting_to_server__ + x.Message, x);
textServerURL.Focus();
return false;
}
}
