public FrmMain()
{
InitializeComponent();
// ******* testing - backgroundworkers
init_backgroundWorkers();
// ******* testing - backgroundworkers
// Display loading splash screen while app init all vars
//SplashScreen ss = new SplashScreen();
ss = new SplashScreen();
ss.Show();
m_previousWindowState = (this.WindowState == FormWindowState.Minimized ? FormWindowState.Normal : this.WindowState);
context = new DefaultExtractorContext();
// get conf
conf = context.GetConfiguration();
// init logger
log = new Log(bool.Parse(conf.VerboseLogEnable), txtStatusLog);
// get webproxy and set webproxy
ReloadProxy();
// get orgSite
bool RESTError = false;
bool retry = true;
// A loop that checks connection to the web, if unable to connect it allows user to jump into proxy
// settings and retry connecting until either a connection can be established or user kills it.
while (retry)
{
try
{
// try to get orgsite via REST calls if this fails then close app.
_orgSite = DataLoader.GetOrgSite("OrgHashCode", conf.OrganisationHashCode);
retry = false;
RESTError = false;
}
catch (Exception ex)
{
// close the splash screen
ss.Close();
RESTError = true;
// write debug message to log
log.write(ex.ToString());
// rename buttons to messagebox
MessageBoxManager.Yes = "Retry";
MessageBoxManager.No = "Settings";
MessageBoxManager.Cancel = "Quit";
// registers the buttons renamed
MessageBoxManager.Register();
DialogResult result = MessageBox.Show("Could not connect to HVP servers, there maybe issues with your current connection or the server maybe down please try again. \nIf you are connected to the internet via proxies please click on settings to configure your web proxies.",
"Error! Could not connect to HVP servers", MessageBoxButtons.YesNoCancel, MessageBoxIcon.Error);
// unregisters the naming back to default
MessageBoxManager.Unregister();
// no == settings
if (result == DialogResult.No)
{
// open settings frm
FrmConf frmConf = new FrmConf(conf, context, this, true);
frmConf.ShowDialog();
}
// cancel == cancel
if (result == DialogResult.Cancel)
{
// kill loop
retry = false;
// exit app
System.Environment.Exit(0);
}
}
}
// close loading splash screen
ss.Close();
// if no error from REST
if (RESTError == false)
{
// nibhernate factory for sqlite db connection
_slFactory = new SQLiteDBFactory();
// Clear Cache
ClearCache = bool.Parse(conf.ClearCache);
// start the file watcher if there are any uploads that require it.
_watcher = new Util.FileWatcher(this);
// check if there is an update when program loads up
AutoUpdater.Start(conf.AutoUpdateLink);
// set the timer for auto update in milliseconds
CheckForUpdatesTimedEvent(3600000); // every 1 hour
// get the commonAppPath, if release version then should be under user data
_commonAppPath = CommonAppPath.GetCommonAppPath();
// start with the modal upload form on screen first
FrmUpload frmUpload = new FrmUpload(this, conf.OrganisationHashCode);
frmUpload.Focus();
frmUpload.ShowDialog();
}
// get the build version from the assembly
_Version = Assembly.GetExecutingAssembly().GetName().Version.ToString();
// display the version number in the form window text
// remove the last 2 chars from version since we dont display that to the user
this.Text = "HVP - Variant Exporter (" + _Version.Remove(_Version.Length - 2) + ")";
// display notes on icon hover
notifyIcon1.Icon = this.Icon;
}
private void btnSave_Click(object sender, EventArgs e)
{
SplashScreen ss = new SplashScreen();
try
{
// wait while do stuff
ss.Show();
// disable controls for this form and frmMain
DisableAllControls();
_frmMain.DisableAllControls();
// checked if proxy settings have changed
bool proxyChang = HasProxyChanged();
// write changes to config.xml
SaveControls();
// reload fields into main form
if (proxyChang)
_frmMain.ReloadProxy();
ss.Close();
// close this dialogue form
this.Close();
}
catch(Exception ex)
{
ss.Close();
Log log = new Log(true);
log.write(ex.ToString());
MessageBox.Show("Something went wrong while saving. Please try again.", "Error", MessageBoxButtons.OK, MessageBoxIcon.Error);
}
finally
{
// re-enable all controls again
EnableAllControls();
_frmMain.EnableAllControls();
}
}
/// <summary>
/// Process data from datagrid which includes encrypting and zipping data and
/// sending data to the specified destination
/// </summary>
/// <param name="serverAddress">Destination server data is sent to</param>
/// <param name="audit">Log data sent in the internal audit database</param>
private void ProcessAndSendData(string serverAddress, bool audit, bool isTest)
{
bool DataSuccessfullySent = false;
int sentVariants = 0;
Cursor.Current = Cursors.WaitCursor;
SplashScreen ss = new SplashScreen();
ss.Show();
DisableAllControls();
// if data is read from a data source file check if file is in use by another
// process, otherwise file can not be moved to the "sent" subdirectory.
if (_spreadsheetPath != string.Empty)
{
try
{
using (System.IO.Stream stream = new System.IO.FileStream(_spreadsheetPath, System.IO.FileMode.Open))
{
// Nothing to see here. Just testing to see if file is not opened or in use by another process.
}
}
catch (Exception ex)
{
ss.Close();
EnableAllControls();
// alert user file is being used by another process
MessageBox.Show("The current file: " + _spreadsheetPath +
" is being used by another process. " +
"\n" +
"\nIf you have the file open in an application, please close the application before continuing.",
"File in use: " + _spreadsheetPath,
MessageBoxButtons.OK, MessageBoxIcon.Asterisk);
// log error exception
log.write("The file: " + _spreadsheetPath + " is being used by another process.");
log.write(ex.ToString());
log.write("No data was sent!");
// end this function
return;
}
}
if (dgVariant.Rows.Count != 0)
{
DataTable original = (DataTable)dgVariant.DataSource;
DataTable yesOnly = original.Clone();
SiteConf.Upload.Object upload = ExporterCommon.DataLoader.GetUpload(_uploadID);
// get all the genes with the disease tags
IList<SiteConf.Gene.Object> geneList = ExporterCommon.DataLoader.GetGeneList(upload.ID);
// sorting data to send
log.write("======= Begin Data Transfer =======");
log.write("Sorting data for sending....");
foreach (DataGridViewRow row in dgVariant.Rows)
{
if (Convert.ToBoolean(row.Cells[0].Value))
{
yesOnly.ImportRow(((DataRowView)row.DataBoundItem).Row);
}
}
sentVariants = yesOnly.Rows.Count;
if (yesOnly.Rows.Count > 0)
{
// timestamp for use in the xml and zip file names
DateTime dt = DateTime.Now;
string timestamp = String.Format("{0:yyyyMMddHHmmss}", dt);
XmlOutput output = new XmlOutput();
string xmlFileName = timestamp + ".xml";
CommonAppPath.CreateDirectory("raw");
string xmlFilePath = _commonAppPath + "\\raw\\" + xmlFileName;
// hash table to store the refseq names and versions
Hashtable refSeqNameHT = new Hashtable();
Hashtable refSeqVerHT = new Hashtable();
// hash tables to store patient grhanite hashes
getHashTableRefSeq(refSeqNameHT, refSeqVerHT, upload);
// generate xml file
log.write("Writing to xml...");
output.Generate(conf.PortalWebSite, xmlFilePath, yesOnly, refSeqNameHT,
refSeqVerHT, _OrgHashCode, geneList);
// send xml to server
try
{
string encryptedFile = timestamp + ".txt";
CommonAppPath.CreateDirectory("temp");
string encryptedFilePath = _commonAppPath + "\\temp\\" + encryptedFile;
// start the encryption executable
log.write("Encrypting data....");
// location of HVP_Encryption executable
string appPath = System.IO.Path.GetDirectoryName(
System.Reflection.Assembly.GetEntryAssembly().Location)
+ "\\Executables\\HVP_Encryption.exe";
// Encrypt file
Encryption.HVP_EncryptFile(appPath, xmlFilePath, encryptedFilePath, _commonAppPath + "\\keys\\",
conf.PrivateKey, conf.PublicKey, log);
// zip file name is combination of org hash code and date
string zippedFileName = _orgSite.OrgHashCode + "_" + DateTime.Now.ToString("yyyyMMddHHmmss");
string zippedFilePath = _commonAppPath + "\\temp\\" + zippedFileName;
// zip files
Decompression.ZippUpTransferFiles(zippedFileName, encryptedFilePath, _commonAppPath + "\\temp\\", conf.PrivateKey.Replace(".private", ""), log);
// send the zip file to destination server
log.write("Sending data to: " + serverAddress);
// webclient for uploading data
WebClient client = new WebClient();
// set proxy to webclient if any
client.Proxy = _proxy;
// send zipped file
string sent = Transmit.SendData(zippedFilePath + ".zip", serverAddress, client, log);
if (_CancelledAuth)
{
log.write("User cancelled proxy auth login");
return;
}
// sent ok we should get a post
if (sent == "<HTML>POST OK.</HTML>")
{
log.write("Data successfully sent!!! " + sentVariants + " variants sent.");
// only log data sent to db if sending to live server and not the test server
if (audit)
{
// save the transaction of each instance to the auditdb
log.write("Saving transaction to db...");
SaveAuditTransaction(yesOnly, xmlFilePath);
}
// clear the Invalid results table and disable the invalid data button
invalidResults = null;
btnErrors.Enabled = false;
// rename the sent xls and move to folder called "sent", creates folder if not exist
if (rbnSpreadsheet.Checked == true && isTest != true)
{
if (!System.IO.File.Exists(upload.DataSourceName + "\\sent"))
{
// create new directory called sent in the source location of xls
System.IO.Directory.CreateDirectory(upload.DataSourceName + "\\sent");
}
// get the source file extension
string sourceFileExt = System.IO.Path.GetExtension(_spreadsheetPath);
// set the name of file to the datee/time sent
string renamedFile = "(" + timestamp + ")" + sourceFileExt;
// move spreadsheet to directory called sent
bool fileMoved = false;
// loop to check if file is in use by another process, will continue to loop
// until file can be moved to the sent folder or user acknowledges it can't
// be moved by the program and user should move it themselves manually to
// avoid sending data from the file again.
while (!fileMoved)
{
try
{
System.IO.File.Move(_spreadsheetPath, upload.DataSourceName +
"\\sent\\" + System.IO.Path.GetFileName(_spreadsheetPath).Replace(sourceFileExt, "") + renamedFile);
fileMoved = true;
}
catch (System.IO.IOException ioEx)
{
// if unable to rename/move file
var result = MessageBox.Show("Unable to access file: " + _spreadsheetPath +
"\n" +
"\nThe exporter has successfully uploaded the data, however it is unable to move the file from datasource folder to the sent sub folder." +
"\n" +
"\nIf you have the file open in an application, please close the application and click Retry." +
"\n" +
"\nOr click Cancel and the file will remain in your datasource folder, you will need to manually move that file out of the datasource folder otherwise you may end up resending the data again.",
"Can not access file: " + _spreadsheetPath,
MessageBoxButtons.RetryCancel, MessageBoxIcon.Asterisk);
if (result == DialogResult.Cancel)
{
// if cancel exit loop with error
fileMoved = true;
// log error
log.write("Unable to access the file: " + _spreadsheetPath);
log.write(ioEx.ToString());
}
}
catch (Exception ex)
{
ss.Close();
EnableAllControls();
// log error
log.write("The data has been successfully uploaded however the Variant Exporter has encountered an error.");
log.write(ex.ToString());
// set to true to exit out of the loop
fileMoved = true;
}
}
}
// Data has been successfully sent
DataSuccessfullySent = true;
// clear the datagrid
dgVariant.DataSource = null;
// clear the spreadsheet path now that it has been sent
// keep the path if it was only a test send
if (!isTest)
_spreadsheetPath = "";
}
else
{
ss.Close();
EnableAllControls();
log.write("Error connecting to server!!!!");
MessageBox.Show("Error connecting to server, please try again.", "Connection Error", MessageBoxButtons.OK, MessageBoxIcon.Error); ;
}
}
catch (WebException ex)
{
ss.Close();
EnableAllControls();
log.write("Unexpected error!!!");
log.write(ex.ToString());
MessageBox.Show("Error connecting to server, please try again.", "Connection Error", MessageBoxButtons.OK, MessageBoxIcon.Error);
}
finally
{
Cursor.Current = Cursors.Default;
ss.Close();
EnableAllControls();
if (ClearCache)
{
// always clear the contents in the temp
log.write("Clearing contents from temp folder....");
System.IO.DirectoryInfo temp = new System.IO.DirectoryInfo(_commonAppPath + "\\temp");
foreach (System.IO.FileInfo file in temp.GetFiles())
{
file.Delete();
}
// remove the raw xml files
log.write("Clearing the contents from raw folder....");
System.IO.DirectoryInfo raw = new System.IO.DirectoryInfo(_commonAppPath + " \\raw");
foreach (System.IO.FileInfo file in raw.GetFiles())
{
file.Delete();
}
}
// clear the filename from title
lblTitle.Text = upload.Name;
}
}
else
{
ss.Close();
EnableAllControls();
MessageBox.Show("You have not selected any rows!!!", "Export Error", MessageBoxButtons.OK, MessageBoxIcon.Error);
}
}
else
{
ss.Close();
EnableAllControls();
MessageBox.Show("There is nothing to send", "No Data selected");
}
log.write("======= Data Transfer Complete =======");
if (DataSuccessfullySent)
MessageBox.Show("Data Successfully sent. " + sentVariants + " variants sent.", "Data sent", MessageBoxButtons.OK);
}
