private static ReportSpec MakeReportSpec()
{
var specList = new ReportSpecList();
var defaults = specList.GetDefaults();
return(defaults.First(spec => spec.Name == Resources.ReportSpecList_GetDefaults_Peak_Boundaries));
}
public void TestReportSpecList()
{
ReportSpecList reportSpecList = new ReportSpecList();
using (Database database = new Database())
{
ColumnSet columnSet = ColumnSet.GetTransitionsColumnSet(database.GetSchema());
TreeView treeView = new TreeView();
treeView.Nodes.AddRange(columnSet.GetTreeNodes().ToArray());
foreach (ReportSpec reportSpec in reportSpecList.GetDefaults())
{
Report report = Report.Load(reportSpec);
ResultSet resultSet = report.Execute(database);
List <NodeData> nodeDatas;
columnSet.GetColumnInfos(report, treeView, out nodeDatas);
Assert.IsFalse(nodeDatas.Contains(null));
if (reportSpec.GroupBy == null)
{
SimpleReport simpleReport = (SimpleReport)report;
Assert.AreEqual(simpleReport.Columns.Count, resultSet.ColumnInfos.Count);
Assert.AreEqual(simpleReport.Columns.Count, nodeDatas.Count);
}
}
}
}
private static ReportSpec GetDefaultReport(string name)
{
var reportSpecList = new ReportSpecList();
reportSpecList.AddDefaults();
return(reportSpecList.First(reportSpec => name == reportSpec.Name));
}
public void TestReportSpecListXml()
{
ReportSpecList reportSpecList = new ReportSpecList();
reportSpecList.AddDefaults();
Assert.AreNotEqual(0, reportSpecList.Count);
StringBuilder stringBuilder = new StringBuilder();
using (XmlWriter xmlWriter = XmlWriter.Create(stringBuilder))
{
Debug.Assert(xmlWriter != null);
xmlWriter.WriteStartDocument();
xmlWriter.WriteStartElement("testElement");
reportSpecList.WriteXml(xmlWriter);
xmlWriter.WriteEndElement();
xmlWriter.WriteEndDocument();
}
XmlReader xmlReader = XmlReader.Create(new StringReader(stringBuilder.ToString()));
ReportSpecList compare = new ReportSpecList();
compare.ReadXml(xmlReader);
Assert.AreEqual(reportSpecList.Count, compare.Count);
for (int i = 0; i < reportSpecList.Count; i++)
{
ReportSpec reportSpec = reportSpecList[i];
ReportSpec reportSpecCompare = compare[i];
Assert.AreNotSame(reportSpec, reportSpecCompare);
Assert.AreEqual(reportSpec, reportSpecCompare);
Assert.AreEqual(reportSpec.GetHashCode(), reportSpecCompare.GetHashCode());
}
}
public ReportOrViewSpecList(ReportSpecList oldList)
{
RevisionIndex = oldList.RevisionIndex;
var oldReports = oldList.Select(item => new ReportOrViewSpec(item));
var convertedReports = ReportSharing.ConvertAll(oldReports, new SrmDocument(SrmSettingsList.GetDefault()));
AddRange(convertedReports.Select(view => new ReportOrViewSpec(view)));
ValidateLoad();
}
public ReportOrViewSpecList(ReportSpecList oldList)
{
RevisionIndex = oldList.RevisionIndex;
var oldReports = oldList.Select(item => new ReportOrViewSpec(item));
var convertedReports = ReportSharing.ConvertAll(oldReports, new SrmDocument(SrmSettingsList.GetDefault()));
AddRange(convertedReports.Select(view => new ReportOrViewSpec(view)));
// ReSharper disable once VirtualMemberCallInConstructor
ValidateLoad();
}
public void TestUpgradedReportSpecList()
{
var toolList = new ToolList();
toolList.AddDefaults();
var cleanPersistedViews = new PersistedViews(null, null, toolList);
for (int oldRevision = 0; oldRevision < 2; oldRevision++)
{
var oldReportSpecList = new ReportSpecList {RevisionIndex = oldRevision};
oldReportSpecList.AddRange(oldReportSpecList.GetDefaults(oldRevision));
var upgradedPersistedViews = new PersistedViews(oldReportSpecList, null, toolList);
foreach (var group in new[] {PersistedViews.MainGroup, PersistedViews.ExternalToolsGroup})
{
var cleanViews = cleanPersistedViews.GetViewSpecList(group.Id).ViewSpecs.ToArray();
var upgragedViews = upgradedPersistedViews.GetViewSpecList(group.Id).ViewSpecs.ToArray();
CollectionAssert.AreEquivalent(cleanViews, upgragedViews,
"Upgraded from rev {0} in group {1}", oldRevision, group);
}
}
}
public void TestLoadReportFile()
{
SrmDocument srmDocument = ResultsUtil.DeserializeDocument("silac_1_to_4.sky", GetType());
using (Database database = new Database())
using (var streamR = GetType().Assembly.GetManifestResourceStream(GetType().Namespace + ".Study9p_template_0721_2009_v3.skyr"))
{
Assert.IsNotNull(streamR);
database.AddSrmDocument(srmDocument);
ReportSpecList reportSpecList = new ReportSpecList();
var xmlSerializer = new XmlSerializer(reportSpecList.DeserialType);
reportSpecList = (ReportSpecList)xmlSerializer.Deserialize(streamR);
Report report = Report.Load(reportSpecList["Study 9p_0721_2009_v6"]);
ResultSet resultSet = report.Execute(database);
Assert.AreEqual(26, resultSet.ColumnInfos.Count);
// The file contains one transition that does not map to the imported results
Assert.AreEqual(srmDocument.PeptideTransitionCount / 2 - 1, resultSet.RowCount);
}
}
public void TestUpgradedReportSpecList()
{
var toolList = new ToolList();
toolList.AddDefaults();
var cleanPersistedViews = new PersistedViews(null, null, toolList);
for (int oldRevision = 0; oldRevision < 2; oldRevision++)
{
var oldReportSpecList = new ReportSpecList {
RevisionIndex = oldRevision
};
oldReportSpecList.AddRange(oldReportSpecList.GetDefaults(oldRevision));
var upgradedPersistedViews = new PersistedViews(oldReportSpecList, null, toolList);
foreach (var group in new[] { PersistedViews.MainGroup, PersistedViews.ExternalToolsGroup })
{
var cleanViews = cleanPersistedViews.GetViewSpecList(group.Id).ViewSpecs.ToArray();
var upgragedViews = upgradedPersistedViews.GetViewSpecList(group.Id).ViewSpecs.ToArray();
CollectionAssert.AreEquivalent(cleanViews, upgragedViews,
"Upgraded from rev {0} in group {1}", oldRevision, group);
}
}
}
/// <summary>
/// Construct a new PersistedViews, migrating over the values from the old ViewSpecList
/// and ReportSpecList properties. Views that are in use by an external tool get put in
/// the External Tools group, and views that are
/// </summary>
public PersistedViews(ReportSpecList reportSpecList, ViewSpecList viewSpecList, ToolList toolList)
{
var viewItems = new List <ViewSpec>();
if (null != viewSpecList)
{
viewItems.AddRange(viewSpecList.ViewSpecs);
}
if (null != reportSpecList)
{
RevisionIndex = reportSpecList.RevisionIndex + 1;
foreach (var newView in ReportSharing.ConvertAll(reportSpecList.Select(reportSpec => new ReportOrViewSpec(reportSpec)),
new SrmDocument(SrmSettingsList.GetDefault())))
{
if (viewItems.Any(viewSpec => viewSpec.Name == newView.Name))
{
continue;
}
viewItems.Add(newView);
}
}
var viewSpecLists = new Dictionary <ViewGroup, Dictionary <string, ViewSpec> >();
foreach (var viewItem in viewItems)
{
ViewGroup group;
if (toolList.Any(tool => tool.ReportTitle == viewItem.Name))
{
group = ExternalToolsGroup;
}
else
{
group = MainGroup;
}
Dictionary <string, ViewSpec> list;
if (!viewSpecLists.TryGetValue(group, out list))
{
list = new Dictionary <string, ViewSpec>();
viewSpecLists.Add(group, list);
}
if (!list.ContainsKey(viewItem.Name))
{
list.Add(viewItem.Name, viewItem);
}
else
{
for (int i = 1;; i++)
{
string name = viewItem.Name + i;
if (!list.ContainsKey(name))
{
list.Add(name, viewItem.SetName(name));
break;
}
}
}
}
foreach (var entry in viewSpecLists)
{
SetViewSpecList(entry.Key.Id, new ViewSpecList(entry.Value.Values));
}
AddDefaults();
}
/// <summary>
/// Construct a new PersistedViews, migrating over the values from the old ViewSpecList
/// and ReportSpecList properties. Views that are in use by an external tool get put in
/// the External Tools group, and views that are
/// </summary>
public PersistedViews(ReportSpecList reportSpecList, ViewSpecList viewSpecList, ToolList toolList)
{
var viewItems = new List<ViewSpec>();
if (null != viewSpecList)
{
viewItems.AddRange(viewSpecList.ViewSpecs);
}
if (null != reportSpecList)
{
RevisionIndex = reportSpecList.RevisionIndex + 1;
foreach (var newView in ReportSharing.ConvertAll(reportSpecList.Select(reportSpec => new ReportOrViewSpec(reportSpec)),
new SrmDocument(SrmSettingsList.GetDefault())))
{
if (viewItems.Any(viewSpec => viewSpec.Name == newView.Name))
{
continue;
}
viewItems.Add(newView);
}
}
var viewSpecLists = new Dictionary<ViewGroup, Dictionary<string, ViewSpec>>();
foreach (var viewItem in viewItems)
{
ViewGroup group;
if (toolList.Any(tool => tool.ReportTitle == viewItem.Name))
{
group = ExternalToolsGroup;
}
else
{
group = MainGroup;
}
Dictionary<string, ViewSpec> list;
if (!viewSpecLists.TryGetValue(group, out list))
{
list = new Dictionary<string, ViewSpec>();
viewSpecLists.Add(group, list);
}
if (!list.ContainsKey(viewItem.Name))
{
list.Add(viewItem.Name, viewItem);
}
else
{
for (int i = 1;; i++)
{
string name = viewItem.Name + i;
if (!list.ContainsKey(name))
{
list.Add(name, viewItem.SetName(name));
break;
}
}
}
}
foreach (var entry in viewSpecLists)
{
SetViewSpecList(entry.Key.Id, new ViewSpecList(entry.Value.Values));
}
AddDefaults();
}
private static ReportSpec MakeReportSpec()
{
var specList = new ReportSpecList();
var defaults = specList.GetDefaults();
return defaults.First(spec => spec.Name == Resources.ReportSpecList_GetDefaults_Peak_Boundaries);
}
private static ReportSpec GetDefaultReport(string name)
{
var reportSpecList = new ReportSpecList();
reportSpecList.AddDefaults();
return reportSpecList.First(reportSpec => name == reportSpec.Name);
}
public void TestReportSpecListXml()
{
ReportSpecList reportSpecList = new ReportSpecList();
reportSpecList.AddDefaults();
Assert.AreNotEqual(0, reportSpecList.Count);
StringBuilder stringBuilder = new StringBuilder();
using (XmlWriter xmlWriter = XmlWriter.Create(stringBuilder))
{
Debug.Assert(xmlWriter != null);
xmlWriter.WriteStartDocument();
xmlWriter.WriteStartElement("testElement");
reportSpecList.WriteXml(xmlWriter);
xmlWriter.WriteEndElement();
xmlWriter.WriteEndDocument();
}
XmlReader xmlReader = XmlReader.Create(new StringReader(stringBuilder.ToString()));
ReportSpecList compare = new ReportSpecList();
compare.ReadXml(xmlReader);
Assert.AreEqual(reportSpecList.Count, compare.Count);
for (int i = 0; i < reportSpecList.Count; i++)
{
ReportSpec reportSpec = reportSpecList[i];
ReportSpec reportSpecCompare = compare[i];
Assert.AreNotSame(reportSpec, reportSpecCompare);
Assert.AreEqual(reportSpec, reportSpecCompare);
Assert.AreEqual(reportSpec.GetHashCode(), reportSpecCompare.GetHashCode());
}
}
public void TestReportSpecList()
{
ReportSpecList reportSpecList = new ReportSpecList();
using (Database database = new Database())
{
ColumnSet columnSet = ColumnSet.GetTransitionsColumnSet(database.GetSchema());
TreeView treeView = new TreeView();
treeView.Nodes.AddRange(columnSet.GetTreeNodes().ToArray());
foreach (ReportSpec reportSpec in reportSpecList.GetDefaults())
{
Report report = Report.Load(reportSpec);
ResultSet resultSet = report.Execute(database);
List<NodeData> nodeDatas;
columnSet.GetColumnInfos(report, treeView, out nodeDatas);
Assert.IsFalse(nodeDatas.Contains(null));
if (reportSpec.GroupBy == null)
{
SimpleReport simpleReport = (SimpleReport)report;
Assert.AreEqual(simpleReport.Columns.Count, resultSet.ColumnInfos.Count);
Assert.AreEqual(simpleReport.Columns.Count, nodeDatas.Count);
}
}
}
}
public void TestLoadReportFile()
{
SrmDocument srmDocument = ResultsUtil.DeserializeDocument("silac_1_to_4.sky", GetType());
using (Database database = new Database())
using (var streamR = GetType().Assembly.GetManifestResourceStream(GetType().Namespace + ".Study9p_template_0721_2009_v3.skyr"))
{
Assert.IsNotNull(streamR);
database.AddSrmDocument(srmDocument);
ReportSpecList reportSpecList = new ReportSpecList();
var xmlSerializer = new XmlSerializer(reportSpecList.DeserialType);
reportSpecList = (ReportSpecList)xmlSerializer.Deserialize(streamR);
Report report = Report.Load(reportSpecList["Study 9p_0721_2009_v6"]);
ResultSet resultSet = report.Execute(database);
Assert.AreEqual(26, resultSet.ColumnInfos.Count);
// The file contains one transition that does not map to the imported results
Assert.AreEqual(srmDocument.PeptideTransitionCount / 2 - 1, resultSet.RowCount);
}
}
