/// <summary>
/// A helper function that generates the report with reportTitle from the SrmDocument.
/// Throws an error if the reportSpec no longer exists in Settings.Default.
/// </summary>
/// <param name="doc">Document to create the report from.</param>
/// <param name="reportTitle">Title of the reportSpec to make a report from.</param>
/// <param name="toolTitle">Title of tool for exception error message.</param>
/// <param name="progressMonitor">Progress monitor.</param>
/// <param name="writer">TextWriter that the report should be written to.</param>
/// <returns> Returns a string representation of the ReportTitle report, or throws an error that the reportSpec no longer exist. </returns>
public static void GetReport(SrmDocument doc, string reportTitle, string toolTitle, IProgressMonitor progressMonitor, TextWriter writer)
{
var container = new MemoryDocumentContainer();
container.SetDocument(doc, container.Document);
var dataSchema = new SkylineDataSchema(container, DataSchemaLocalizer.INVARIANT);
var viewContext = new DocumentGridViewContext(dataSchema);
ViewInfo viewInfo = viewContext.GetViewInfo(PersistedViews.ExternalToolsGroup.Id.ViewName(reportTitle));
if (null == viewInfo)
{
throw new ToolExecutionException(
string.Format(
Resources.ToolDescriptionHelpers_GetReport_Error_0_requires_a_report_titled_1_which_no_longer_exists__Please_select_a_new_report_or_import_the_report_format,
toolTitle, reportTitle));
}
IProgressStatus status =
new ProgressStatus(string.Format(Resources.ReportSpec_ReportToCsvString_Exporting__0__report,
reportTitle));
progressMonitor.UpdateProgress(status);
if (!viewContext.Export(CancellationToken.None, progressMonitor, ref status, viewInfo, writer,
viewContext.GetCsvWriter()))
{
throw new OperationCanceledException();
}
}
public void TestExportWithCurrentLanguage()
{
CultureInfo cultureInfo = CultureInfo.CurrentUICulture;
SkylineDataSchema skylineDataSchema =
new SkylineDataSchema(CreateMemoryDocumentContainer(LoadTestDocument()), SkylineDataSchema.GetLocalizedSchemaLocalizer());
SkylineViewContext viewContext = new DocumentGridViewContext(skylineDataSchema);
string testFile = Path.Combine(TestContext.TestDir, "TestExportWithCurrentLanguage.csv");
var dsvWriter = viewContext.GetCsvWriter();
viewContext.ExportToFile(null, GetTestReport(skylineDataSchema), testFile, dsvWriter);
string strExported = File.ReadAllText(testFile);
var actualLines = strExported.Split(new[] { Environment.NewLine }, StringSplitOptions.None);
var expectedLines = ExpectedInvariantReport.Split(new[] { Environment.NewLine }, StringSplitOptions.None);
var invariantHeaders = expectedLines[0].Split(',');
var expectedHeaders =
invariantHeaders.Select(header => ColumnCaptions.ResourceManager.GetString(header, cultureInfo) ?? header).ToArray();
var actualHeaders = actualLines[0].Split(TextUtil.GetCsvSeparator(cultureInfo));
CollectionAssert.AreEqual(expectedHeaders, actualHeaders);
// If the language in English, then the exported report will be identical to the invariant report except for the headers
if (cultureInfo.Name == "en-US")
{
CollectionAssert.AreEqual(expectedLines.Skip(1).ToArray(), actualLines.Skip(1).ToArray());
}
}
public void TestInvariantExport()
{
SkylineDataSchema skylineDataSchema =
new SkylineDataSchema(CreateMemoryDocumentContainer(LoadTestDocument()), DataSchemaLocalizer.INVARIANT);
SkylineViewContext viewContext = new DocumentGridViewContext(skylineDataSchema);
string testFile = Path.Combine(TestContext.TestDir, "TestInvariantExport.csv");
var dsvWriter = viewContext.GetCsvWriter();
viewContext.ExportToFile(null, GetTestReport(skylineDataSchema), testFile, dsvWriter);
string strExported = File.ReadAllText(testFile);
Assert.AreEqual(ExpectedInvariantReport, strExported);
// Assert that the file written out was UTF8 encoding without any byte order mark
byte[] bytesExported = File.ReadAllBytes(testFile);
CollectionAssert.AreEqual(Encoding.UTF8.GetBytes(strExported), bytesExported);
}
private string GetReportRows(SrmDocument document, ViewSpec viewSpec, IProgressMonitor progressMonitor)
{
var container = new MemoryDocumentContainer();
container.SetDocument(document, container.Document);
var dataSchema = new SkylineDataSchema(container, DataSchemaLocalizer.INVARIANT);
var viewContext = new DocumentGridViewContext(dataSchema);
IProgressStatus status = new ProgressStatus(string.Format(Resources.ReportSpec_ReportToCsvString_Exporting__0__report,
viewSpec.Name));
var writer = new StringWriter();
if (viewContext.Export(CancellationToken.None, progressMonitor, ref status, viewContext.GetViewInfo(null, viewSpec), writer,
viewContext.GetCsvWriter()))
{
return(writer.ToString());
}
return(null);
}
public void TestGenerateMsStatsInput()
{
SrmDocument testDocument = OpenTestDocument();
var memoryDocumentContainer = new MemoryDocumentContainer();
Assert.IsTrue(memoryDocumentContainer.SetDocument(testDocument, memoryDocumentContainer.Document));
SkylineDataSchema skylineDataSchema = new SkylineDataSchema(memoryDocumentContainer, DataSchemaLocalizer.INVARIANT);
var view = ReportSharing.DeserializeReportList(OpenTestFile("MSstats_report.skyr")).First().ViewSpec;
var viewContext = new DocumentGridViewContext(skylineDataSchema);
StringWriter stringWriter = new StringWriter();
IProgressStatus progressStatus = new ProgressStatus();
viewContext.Export(new SilentProgressMonitor(), ref progressStatus,
viewContext.GetViewInfo(ViewGroup.BUILT_IN, view), stringWriter,
viewContext.GetCsvWriter());
string expectedReport = new StreamReader(OpenTestFile("BrudererSubset_MSstatsInput.csv")).ReadToEnd();
AssertEx.NoDiff(expectedReport, stringWriter.ToString());
}
public static void ReportToCsv(ReportSpec reportSpec, SrmDocument doc, string fileName, CultureInfo cultureInfo)
{
var documentContainer = new MemoryDocumentContainer();
Assert.IsTrue(documentContainer.SetDocument(doc, documentContainer.Document));
var skylineDataSchema = new SkylineDataSchema(documentContainer, new DataSchemaLocalizer(cultureInfo, cultureInfo));
var viewSpec = ReportSharing.ConvertAll(new[] { new ReportOrViewSpec(reportSpec) }, doc).First();
var viewContext = new DocumentGridViewContext(skylineDataSchema);
using (var writer = new StreamWriter(fileName))
{
IProgressStatus status = new ProgressStatus();
viewContext.Export(CancellationToken.None, new SilentProgressMonitor(), ref status,
viewContext.GetViewInfo(ViewGroup.BUILT_IN, viewSpec), writer, viewContext.GetCsvWriter());
}
}