private void PrepareNextSection(FileServer fs, string sectionHeader, ReportSettings settings)
{
//When using one file for the whole report, this function writes the
//section header in the file. When using split files, this function
//creates a new file with the section header as a part of the file name.
if (settings.Get(ReportSettings.Bools.SplitFile))
{
fs.CloseFile();
fs.OpenFileForWriting(settings.Get(ReportSettings.Strings.FilePath) + "\\"
+ settings.Get(ReportSettings.Strings.FileName) + "_" + sectionHeader.Replace(" ", "") + ".txt");
}
else
{
if (!fs.FileIsOpen)
{
fs.OpenFileForWriting(settings.Get(ReportSettings.Strings.FilePath) + "\\"
+ settings.Get(ReportSettings.Strings.FileName));
}
fs.AppendStringToFile(sectionHeader + Environment.NewLine);
}
}
public void WriteFromClient(ReportSettings repSettings, SessionSettings sesSettings, AdvancedListView2 markerList, AdvancedListView2 itemList, AdvancedListView2 controlItemList)
{
switch (repSettings.Get(ReportSettings.Strings.ReportType))
{
case ReportSettings.ReportTypeText:
this.WriteTextReport(repSettings, sesSettings, markerList, itemList, controlItemList);
break;
case ReportSettings.ReportTypeXML:
this.WriteXMLReport(repSettings, sesSettings, markerList, itemList, controlItemList);
break;
default:
throw new Exception("Unknown report type encountered.");
}
}
private void WriteTextReportStreaming(ReportSettings repSettings, SessionSettings sesSettings)
{
FileServer fs;
Identifiable[] selectedAnnotationTypes;
fs = new FileServer();
try
{
//Program name and version.
if (repSettings.Get(ReportSettings.Bools.IncludeSourceInfo))
{
PrepareNextSection(fs, SECTION_HEADER_VERSION, repSettings);
fs.AppendStringToFile(this.GetApplicationVersionDescription());
fs.AppendStringToFile(Environment.NewLine);
}
//Plates section.
if (repSettings.Get(ReportSettings.Bools.IncludeSelectedPlates))
{
PrepareNextSection(fs, SECTION_HEADER_PLATES, repSettings);
MyDataServer.GetPlatesInSelection(fs);
fs.AppendStringToFile(Environment.NewLine);
}
//Groups section.
if (repSettings.Get(ReportSettings.Bools.IncludeSelectedGroups))
{
PrepareNextSection(fs, SECTION_HEADER_GROUPS, repSettings);
MyDataServer.GetGroupsInSelection(fs);
fs.AppendStringToFile(Environment.NewLine);
}
//Detailed filter section.
if (repSettings.Get(ReportSettings.Bools.IncludeSelectedDetailedFilter))
{
PrepareNextSection(fs, SECTION_HEADER_DETAILS, repSettings);
MyDataServer.GetDetailedFilter(fs);
fs.AppendStringToFile(Environment.NewLine);
}
//Control item statistics section.
if (repSettings.Get(ReportSettings.Bools.IncludeControlItemStat))
{
PrepareNextSection(fs, SECTION_HEADER_CTRL_ITEM_STAT, repSettings);
MyDataServer.StreamControlItemStatToFile(fs);
fs.AppendStringToFile(Environment.NewLine);
}
//Experiment statistics section.
if (repSettings.Get(ReportSettings.Bools.IncludeExperimentStat))
{
PrepareNextSection(fs, SECTION_HEADER_EXP_STAT, repSettings);
MyDataServer.StreamExperimentStatToFile(fs, repSettings.Get(ReportSettings.BoolArrays.ExperimentStatFlags));
fs.AppendStringToFile(Environment.NewLine);
}
//Marker annotations section.
if (repSettings.Get(ReportSettings.Bools.IncludeAnnotations))
{
PrepareNextSection(fs, SECTION_HEADER_ANNOTATIONS, repSettings);
selectedAnnotationTypes = repSettings.Get(ReportSettings.Identifiables.AnnotationTypes);
MyDataServer.GetMarkerAnnotations(selectedAnnotationTypes, sesSettings, fs);
fs.AppendStringToFile(Environment.NewLine);
}
//Item statistics section.
if (repSettings.Get(ReportSettings.Bools.IncludeItemStat))
{
PrepareNextSection(fs, SECTION_HEADER_ITEM_STAT, repSettings);
MyDataServer.StreamItemStatToFile(fs, repSettings.Get(ReportSettings.BoolArrays.ItemStatFlags));
fs.AppendStringToFile(Environment.NewLine);
}
//Result section.
if (repSettings.Get(ReportSettings.Bools.IncludeResults))
{
PrepareNextSection(fs, SECTION_HEADER_RESULTS, repSettings);
if (repSettings.Get(ReportSettings.Strings.ResultTableType) == ReportSettings.ResultTableTypePairAll)
{
MyDataServer.GetApprovedResultFormattedOuter(true, repSettings.Get(ReportSettings.Strings.EmptyResultString), fs);
}
else if (repSettings.Get(ReportSettings.Strings.ResultTableType) == ReportSettings.ResultTableTypePairApp)
{
MyDataServer.GetApprovedResultFormatted(fs);
}
fs.AppendStringToFile(Environment.NewLine);
}
}
catch (Exception ex)
{
throw (ex);
}
finally
{
if (fs != null)
{
fs.CloseFile();
}
}
}
private void WriteXMLReport(ReportSettings repSettings, SessionSettings sesSettings, AdvancedListView2 markerList, AdvancedListView2 itemList, AdvancedListView2 controlItemList)
{
string appVersion, appName, userName, itemSetting, experimentSetting, noCallIndicator;
int userId;
DataTable metaDataTable = null, pairwiseTable = null;
DataTable markerTable = null, annotationTable = null, annotationTableCopy = null, itemTable = null;
DataTable plateTable = null, groupTable = null, singleTable = null, controlItemTable = null;
object[] metaDataValues;
DataColumn idColumn;
bool[] expmFlags, itemFlags;
Identifiable[] annotationTypes;
bool includeAnnoType;
XmlTextWriter xw = null;
if (repSettings.Get(ReportSettings.Bools.IncludeSourceInfo))
{
appVersion = Assembly.GetExecutingAssembly().GetName().Version.Major + "." +
Assembly.GetExecutingAssembly().GetName().Version.Minor + "." +
Assembly.GetExecutingAssembly().GetName().Version.Build + "." +
Assembly.GetExecutingAssembly().GetName().Version.Revision;
appName = Assembly.GetExecutingAssembly().GetName().Name;
userName = MyDataServer.GetCurrentUserName();
userId = MyDataServer.GetCurrentUserId();
itemSetting = sesSettings.Get(SessionSettings.Strings.ViewMode);
experimentSetting = sesSettings.Get(SessionSettings.Strings.ExperimentMode);
noCallIndicator = repSettings.Get(ReportSettings.Strings.EmptyResultString);
metaDataValues = new Object[13];
metaDataValues[0] = appName;
metaDataValues[1] = appVersion;
metaDataValues[2] = userName;
metaDataValues[3] = userId;
metaDataValues[4] = itemSetting;
metaDataValues[5] = experimentSetting;
metaDataValues[6] = noCallIndicator;
metaDataValues[7] = Convert.ToString(sesSettings.Get(SessionSettings.Bools.DemandDuplicates));
metaDataValues[8] = Convert.ToString(sesSettings.Get(SessionSettings.Bools.DoHWTest));
metaDataValues[9] = Convert.ToString(sesSettings.Get(SessionSettings.Bools.DoInheritanceTest));
metaDataValues[10] = Convert.ToString(sesSettings.Get(SessionSettings.Bools.HumanXChr));
metaDataValues[11] = Convert.ToString(sesSettings.Get(SessionSettings.Bools.HWSkipChildren));
metaDataValues[12] = sesSettings.Get(SessionSettings.Doubles.HWLimit);
metaDataTable = new DataTable("MetaData");
metaDataTable.Columns.Add("ProgramName", Type.GetType("System.String"));
metaDataTable.Columns.Add("ProgramVersion", Type.GetType("System.String"));
metaDataTable.Columns.Add("AuthorityName", Type.GetType("System.String"));
metaDataTable.Columns.Add("authority_id", Type.GetType("System.Int32"));
metaDataTable.Columns.Add("ItemSetting", Type.GetType("System.String"));
metaDataTable.Columns.Add("ExperimentSetting", Type.GetType("System.String"));
metaDataTable.Columns.Add("NoCallIndicator", Type.GetType("System.String"));
metaDataTable.Columns.Add("DemandDuplicates", Type.GetType("System.String"));
metaDataTable.Columns.Add("DoHWTest", Type.GetType("System.String"));
metaDataTable.Columns.Add("DoInheritanceTest", Type.GetType("System.String"));
metaDataTable.Columns.Add("HumanXChr", Type.GetType("System.String"));
metaDataTable.Columns.Add("HWSkipChildren", Type.GetType("System.String"));
metaDataTable.Columns.Add("HWLimit", Type.GetType("System.Double"));
metaDataTable.Rows.Add(metaDataValues);
}
if (repSettings.Get(ReportSettings.Bools.IncludeSelectedPlates))
{
plateTable = MyDataServer.GetPlatesInSelection();
plateTable.TableName = "PlateRow";
foreach (DataColumn tempColumn in plateTable.Columns)
{
tempColumn.ColumnName = tempColumn.ColumnName.Replace(" ", "");
}
plateTable.DataSet.Tables.Remove(plateTable);
}
if (repSettings.Get(ReportSettings.Bools.IncludeSelectedGroups))
{
groupTable = MyDataServer.GetGroupsInSelection();
groupTable.TableName = "GroupRow";
foreach (DataColumn tempColumn in groupTable.Columns)
{
tempColumn.ColumnName = tempColumn.ColumnName.Replace(" ", "");
}
groupTable.DataSet.Tables.Remove(groupTable);
}
if (repSettings.Get(ReportSettings.Bools.IncludeSelectedDetailedFilter))
{
singleTable = MyDataServer.GetDetailedFilter();
singleTable.TableName = "FilterRow";
foreach (DataColumn tempColumn in singleTable.Columns)
{
tempColumn.ColumnName = tempColumn.ColumnName.Replace(" ", "");
}
singleTable.DataSet.Tables.Remove(singleTable);
}
if (repSettings.Get(ReportSettings.Bools.IncludeControlItemStat))
{
controlItemTable = controlItemList.Table.Copy();
controlItemTable.TableName = "CtrlItemStatRow";
expmFlags = repSettings.Get(ReportSettings.BoolArrays.ExperimentStatFlags);
//Remove spaces in column names.
foreach (DataColumn tempColumn in controlItemTable.Columns)
{
tempColumn.ColumnName = tempColumn.ColumnName.Replace(" ", "");
}
}
if (repSettings.Get(ReportSettings.Bools.IncludeItemStat))
{
itemTable = itemList.Table.Copy();
itemTable.TableName = "ItemStatRow";
itemFlags = repSettings.Get(ReportSettings.BoolArrays.ItemStatFlags);
//Remove deselected columns (the flags and columns are off by 1 since the list contains
//the ID column as well).
for (int i = 1; i < itemList.Table.Columns.Count; i++)
{
if (!itemFlags[i - 1])
{
itemTable.Columns.Remove(itemList.Table.Columns[i].ColumnName);
}
}
//Remove spaces in column names.
foreach (DataColumn tempColumn in itemTable.Columns)
{
tempColumn.ColumnName = tempColumn.ColumnName.Replace(" ", "");
}
PrepareItemTable(itemTable);
}
if (repSettings.Get(ReportSettings.Bools.IncludeExperimentStat))
{
markerTable = markerList.Table.Copy();
markerTable.TableName = "ExpmStatRow";
expmFlags = repSettings.Get(ReportSettings.BoolArrays.ExperimentStatFlags);
//Remove deselected columns (the flags and columns are off by 1 since the list contains
//the ID column as well).
for (int i = 1; i < markerList.Table.Columns.Count; i++)
{
if (!expmFlags[i - 1])
{
markerTable.Columns.Remove(markerList.Table.Columns[i].ColumnName);
}
}
//Remove spaces in column names.
foreach (DataColumn tempColumn in markerTable.Columns)
{
tempColumn.ColumnName = tempColumn.ColumnName.Replace(" ", "");
}
}
if (repSettings.Get(ReportSettings.Bools.IncludeAnnotations))
{
annotationTable = MyDataServer.GetMarkerAnnotations(repSettings.Get(ReportSettings.Identifiables.AnnotationTypes), sesSettings);
annotationTable.TableName = "MrkAnnotRow";
annotationTableCopy = annotationTable.Copy();
annotationTypes = repSettings.Get(ReportSettings.Identifiables.AnnotationTypes);
//Remove deselected columns from the copy (the flags and columns are off by 2 since the columns contain
//the marker ID and marker name as well).
for (int i = 2; i < annotationTable.Columns.Count; i++)
{
includeAnnoType = false;
for (int j = 0; j < annotationTypes.GetLength(0); j++)
{
if (annotationTable.Columns[i].ColumnName.ToUpper() == annotationTypes[j].Name.ToUpper())
{
includeAnnoType = true;
}
}
if (!includeAnnoType)
{
annotationTableCopy.Columns.Remove(annotationTable.Columns[i].ColumnName);
}
}
//Remove spaces in column names.
foreach (DataColumn tempColumn in annotationTableCopy.Columns)
{
tempColumn.ColumnName = tempColumn.ColumnName.Replace(" ", "");
}
}
if (repSettings.Get(ReportSettings.Bools.IncludeResults))
{
pairwiseTable = MyDataServer.GetApprovedResultFormattedOuterWithId(true, repSettings.Get(ReportSettings.Strings.EmptyResultString));
//Remove the ID column.
idColumn = pairwiseTable.Columns[0];
pairwiseTable.Columns.Remove(idColumn);
pairwiseTable.DataSet.Tables.Remove(pairwiseTable);
pairwiseTable.TableName = "Result";
}
try
{
xw = new XmlTextWriter(repSettings.Get(ReportSettings.Strings.FilePath) + "\\" + repSettings.Get(ReportSettings.Strings.FileName), null);
xw.Formatting = Formatting.Indented;
xw.WriteStartDocument(true);
xw.WriteStartElement("GenotypingReport");
WriteDataTableToXml(metaDataTable, xw, "");
WriteDataTableToXml(plateTable, xw, "Plates");
WriteDataTableToXml(groupTable, xw, "Groups");
WriteDataTableToXml(singleTable, xw, "Filters");
WriteDataTableToXml(controlItemTable, xw, "CtrlItems");
WriteDataTableToXml(itemTable, xw, "Items");
WriteDataTableToXml(markerTable, xw, "Experiments");
WriteDataTableToXml(annotationTableCopy, xw, "Annotations");
WriteDataTableToXml(pairwiseTable, xw, "Results");
xw.WriteEndElement();
xw.WriteEndDocument();
}
catch (Exception ex)
{
throw ex;
}
finally
{
if (xw != null)
{
xw.Close();
}
}
}
private void WriteTextReport(ReportSettings repSettings, SessionSettings sesSettings, AdvancedListView2 markerList, AdvancedListView2 itemList, AdvancedListView2 controlItemList)
{
bool[] markerColumnFlags, itemColumnFlags;
Identifiable[] selectedAnnotationTypes;
ResultTable resultMatrix;
DataTable pairwiseTable, annotationTable, plateTable, groupTable, singleTable;
DataColumn idColumn;
AdvancedListView2 annotationList, plateList, groupList, singleList;
FileServer fs;
fs = new FileServer();
try
{
//Program name and version.
if (repSettings.Get(ReportSettings.Bools.IncludeSourceInfo))
{
PrepareNextSection(fs, SECTION_HEADER_VERSION, repSettings);
fs.AppendStringToFile(this.GetApplicationVersionDescription());
fs.AppendStringToFile(Environment.NewLine);
}
//Plates section.
if (repSettings.Get(ReportSettings.Bools.IncludeSelectedPlates))
{
plateTable = MyDataServer.GetPlatesInSelection();
plateList = new AdvancedListView2();
plateList.ShowFormattedTable(plateTable);
PrepareNextSection(fs, SECTION_HEADER_PLATES, repSettings);
fs.AppendStringToFile(plateList.GetListAsString(true, true));
fs.AppendStringToFile(Environment.NewLine);
}
//Groups section.
if (repSettings.Get(ReportSettings.Bools.IncludeSelectedGroups))
{
groupTable = MyDataServer.GetGroupsInSelection();
groupList = new AdvancedListView2();
groupList.ShowFormattedTable(groupTable);
PrepareNextSection(fs, SECTION_HEADER_GROUPS, repSettings);
fs.AppendStringToFile(groupList.GetListAsString(true, true));
fs.AppendStringToFile(Environment.NewLine);
}
//Detailed filter section.
if (repSettings.Get(ReportSettings.Bools.IncludeSelectedDetailedFilter))
{
singleTable = MyDataServer.GetDetailedFilter();
singleList = new AdvancedListView2();
singleList.ShowFormattedTable(singleTable);
PrepareNextSection(fs, SECTION_HEADER_DETAILS, repSettings);
fs.AppendStringToFile(singleList.GetListAsString(true, true));
fs.AppendStringToFile(Environment.NewLine);
}
//Control item statistics section.
if (repSettings.Get(ReportSettings.Bools.IncludeControlItemStat))
{
PrepareNextSection(fs, SECTION_HEADER_CTRL_ITEM_STAT, repSettings);
fs.AppendStringToFile(controlItemList.GetListAsString(true, true));
fs.AppendStringToFile(Environment.NewLine);
}
//Experiment statistics section.
if (repSettings.Get(ReportSettings.Bools.IncludeExperimentStat))
{
markerColumnFlags = repSettings.Get(ReportSettings.BoolArrays.ExperimentStatFlags);
PrepareNextSection(fs, SECTION_HEADER_EXP_STAT, repSettings);
fs.AppendStringToFile(markerList.GetListAsString(true, true, markerColumnFlags));
fs.AppendStringToFile(Environment.NewLine);
}
//Marker annotations section.
if (repSettings.Get(ReportSettings.Bools.IncludeAnnotations))
{
selectedAnnotationTypes = repSettings.Get(ReportSettings.Identifiables.AnnotationTypes);
annotationTable = MyDataServer.GetMarkerAnnotations(selectedAnnotationTypes, sesSettings);
annotationList = new AdvancedListView2();
annotationList.ShowFormattedTable(annotationTable);
PrepareNextSection(fs, SECTION_HEADER_ANNOTATIONS, repSettings);
fs.AppendStringToFile(annotationList.GetListAsString(true, true));
fs.AppendStringToFile(Environment.NewLine);
}
//Item statistics section.
if (repSettings.Get(ReportSettings.Bools.IncludeItemStat))
{
itemColumnFlags = repSettings.Get(ReportSettings.BoolArrays.ItemStatFlags);
PrepareNextSection(fs, SECTION_HEADER_ITEM_STAT, repSettings);
fs.AppendStringToFile(itemList.GetListAsString(true, true, itemColumnFlags));
fs.AppendStringToFile(Environment.NewLine);
}
//Result section.
if (repSettings.Get(ReportSettings.Bools.IncludeResults))
{
PrepareNextSection(fs, SECTION_HEADER_RESULTS, repSettings);
if (repSettings.Get(ReportSettings.Strings.ResultTableType) == ReportSettings.ResultTableTypeExpmRows)
{
resultMatrix = new ResultTable(MyDataServer, ResultTable.Mode.ExperimentByItem, repSettings.Get(ReportSettings.Strings.EmptyResultString));
fs.AppendStringToFile(resultMatrix.GetTabDelimited());
}
else if (repSettings.Get(ReportSettings.Strings.ResultTableType) == ReportSettings.ResultTableTypeExpmCol)
{
resultMatrix = new ResultTable(MyDataServer, ResultTable.Mode.ItemByExperiment, repSettings.Get(ReportSettings.Strings.EmptyResultString));
fs.AppendStringToFile(resultMatrix.GetTabDelimited());
}
else if (repSettings.Get(ReportSettings.Strings.ResultTableType) == ReportSettings.ResultTableTypePairAll)
{
pairwiseTable = MyDataServer.GetApprovedResultFormattedOuter(true, repSettings.Get(ReportSettings.Strings.EmptyResultString));
//Remove the ID column.
idColumn = pairwiseTable.Columns[0];
pairwiseTable.Columns.Remove(idColumn);
fs.AppendStringToFile(TabDelimiter.GetString(pairwiseTable, true));
}
else if (repSettings.Get(ReportSettings.Strings.ResultTableType) == ReportSettings.ResultTableTypePairApp)
{
pairwiseTable = MyDataServer.GetApprovedResultFormatted();
//Remove the ID column.
idColumn = pairwiseTable.Columns[0];
pairwiseTable.Columns.Remove(idColumn);
fs.AppendStringToFile(TabDelimiter.GetString(pairwiseTable, true));
}
fs.AppendStringToFile(Environment.NewLine);
}
}
catch (Exception ex)
{
throw (ex);
}
finally
{
if (fs != null)
{
fs.CloseFile();
}
}
}