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@JFriel
JFriel committed Feb 23, 2024
1 parent 12ccd86 commit af84e87
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196 changes: 133 additions & 63 deletions Rdmp.Dicom.Tests/IsolationReviewTests.cs
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@@ -1,98 +1,168 @@
using System.Data;
using System;
using System.Collections.Generic;
using System.Data;
using System.Diagnostics;
using System.Linq;
using System.Threading;
using FAnsi;
using NPOI.HPSF;
using NUnit.Framework;
using Rdmp.Core.Curation.Data;
using Rdmp.Core.Curation.Data.DataLoad;
using Rdmp.Core.ReusableLibraryCode.Progress;
using Rdmp.Dicom.Extraction.FoDicomBased;
using Rdmp.Dicom.PipelineComponents;
using Rdmp.Dicom.PipelineComponents.CFind;
using Rdmp.Dicom.PipelineComponents.DicomSources;
using Tests.Common;

namespace Rdmp.Dicom.Tests;

class IsolationReviewTests : DatabaseTests
class IsolationReviewTests //: DatabaseTests
{

[TestCase(DatabaseType.MicrosoftSQLServer)]
[TestCase(DatabaseType.Oracle)]
[TestCase(DatabaseType.PostgreSql)]
[TestCase(DatabaseType.MySql)]
public void TestFindTables(DatabaseType dbType)
[Test]
public void pathTest()
{
var db = GetCleanedServer(dbType);
var ArchiveRootIfAny = "C:";
//var filePath = "GoFUSION/2018/01/03/T101H05957407.7z";
var filePath = "C:/temp/testdicoms/1969.7z";
var source = new DicomFileCollectionSource();
source.ArchiveRoot = ArchiveRootIfAny;

var a = new DicomFileCollectionSource();
a.ArchiveRoot = ArchiveRootIfAny;
var x = source.ApplyArchiveRootToMakeRelativePath(filePath);
var filepaths = new List<(string, string)>
{
(filePath, filePath)
};
var y = new AmbiguousFilePath(ArchiveRootIfAny, filepaths).GetDataset();
List<string> z = new();
foreach(var dicomFile in y)
{

using var dt = new DataTable();
dt.Columns.Add("A");
dt.Columns.Add("B");
dt.Columns.Add("C");
var t = a.ApplyArchiveRootToMakeRelativePath(dicomFile.Item1);
z.Add(t);
}
Assert.Pass();
}

// 'pk' 1 differs on col B AND col C
dt.Rows.Add(1, 2, 3);
dt.Rows.Add(1, 3, 2);
[Test]
public void pathTest2()
{
var toProcess = new DataTable();
toProcess.Columns.Add("RelativeArchiveColumnName");
toProcess.Columns.Add("GetRuntimeName");
toProcess.Rows.Add(new Object[]{ "./temp/testdicoms/1969.7z", "Name"});
var ArchiveRootIfAny = "C:";
var fileRows = new Dictionary<string, DataRow>();
var releaseIDs = new Dictionary<string, string>();
var dicomFiles = new List<(string, string)>();
foreach (DataRow processRow in toProcess.Rows)
{
var file = (string)processRow["RelativeArchiveColumnName"];
if (file.StartsWith("./"))
{
file = file.Substring(2);
}
fileRows.Add(file, processRow);
dicomFiles.Add((file, file));
releaseIDs.Add(file, processRow["GetRuntimeName"].ToString());
}
foreach (var dicomFile in new AmbiguousFilePath(ArchiveRootIfAny, dicomFiles).GetDataset())
{
var x = 1 + 1;

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//if (_errors > 0 && _errors > ErrorThreshold)
// throw new Exception($"Number of errors reported ({_errors}) reached the threshold ({ErrorThreshold})");
//cancellationToken.ThrowIfAbortRequested();
//ProcessFile(dicomFile.Item2, listener, releaseIDs[dicomFile.Item1], _putter, fileRows[dicomFile.Item1]);
}

Assert.Pass();
}

//novel (should not appear in diff table)
dt.Rows.Add(4, 1, 1);
//[TestCase(DatabaseType.MicrosoftSQLServer)]
//[TestCase(DatabaseType.Oracle)]
//[TestCase(DatabaseType.PostgreSql)]
//[TestCase(DatabaseType.MySql)]
//public void TestFindTables(DatabaseType dbType)
//{
// var db = GetCleanedServer(dbType);

//novel (should not appear in diff table)
dt.Rows.Add(5, 1, 1);
// using var dt = new DataTable();
// dt.Columns.Add("A");
// dt.Columns.Add("B");
// dt.Columns.Add("C");

// 'pk' 2 differs on col C
dt.Rows.Add(2, 1, 1);
dt.Rows.Add(2, 1, 2);
// // 'pk' 1 differs on col B AND col C
// dt.Rows.Add(1, 2, 3);
// dt.Rows.Add(1, 3, 2);

//novel (should not appear in diff table)
dt.Rows.Add(6, 1, 1);
// //novel (should not appear in diff table)
// dt.Rows.Add(4, 1, 1);

// 'pk' 3 differs on col B
dt.Rows.Add(3, 1, 1);
dt.Rows.Add(3, 2, 1);
// //novel (should not appear in diff table)
// dt.Rows.Add(5, 1, 1);

// // 'pk' 2 differs on col C
// dt.Rows.Add(2, 1, 1);
// dt.Rows.Add(2, 1, 2);

db.CreateTable("mytbl_Isolation", dt);
// //novel (should not appear in diff table)
// dt.Rows.Add(6, 1, 1);

var lmd = new LoadMetadata(CatalogueRepository, "ExampleLoad");
var pt = new ProcessTask(CatalogueRepository, lmd, LoadStage.AdjustRaw)
{
ProcessTaskType = ProcessTaskType.MutilateDataTable,
Path = typeof(PrimaryKeyCollisionIsolationMutilation).FullName
};
pt.SaveToDatabase();
// // 'pk' 3 differs on col B
// dt.Rows.Add(3, 1, 1);
// dt.Rows.Add(3, 2, 1);

//make an isolation db that is the
var eds = new ExternalDatabaseServer(CatalogueRepository, "Isolation db", null);
eds.SetProperties(db);

var args = pt.CreateArgumentsForClassIfNotExists(typeof(PrimaryKeyCollisionIsolationMutilation));
// db.CreateTable("mytbl_Isolation", dt);

var ti = new TableInfo(CatalogueRepository, "mytbl");
var ci = new ColumnInfo(CatalogueRepository, "A", "varchar(1)", ti) { IsPrimaryKey = true };
ci.SaveToDatabase();
// var lmd = new LoadMetadata(CatalogueRepository, "ExampleLoad");
// var pt = new ProcessTask(CatalogueRepository, lmd, LoadStage.AdjustRaw)
// {
// ProcessTaskType = ProcessTaskType.MutilateDataTable,
// Path = typeof(PrimaryKeyCollisionIsolationMutilation).FullName
// };
// pt.SaveToDatabase();

SetArg(args, "IsolationDatabase", eds);
SetArg(args, "TablesToIsolate", new[] { ti });
// //make an isolation db that is the
// var eds = new ExternalDatabaseServer(CatalogueRepository, "Isolation db", null);
// eds.SetProperties(db);

var reviewer = new IsolationReview(pt);
// var args = pt.CreateArgumentsForClassIfNotExists(typeof(PrimaryKeyCollisionIsolationMutilation));

//no error since it is configured correctly
Assert.That(reviewer.Error, Is.Null);
// var ti = new TableInfo(CatalogueRepository, "mytbl");
// var ci = new ColumnInfo(CatalogueRepository, "A", "varchar(1)", ti) { IsPrimaryKey = true };
// ci.SaveToDatabase();

//tables should exist
var isolationTables = reviewer.GetIsolationTables();
Assert.That(isolationTables.Single().Value.Exists());
// SetArg(args, "IsolationDatabase", eds);
// SetArg(args, "TablesToIsolate", new[] { ti });

// var reviewer = new IsolationReview(pt);

var diffDataTable = reviewer.GetDifferences(isolationTables.Single(), out var diffs);
// //no error since it is configured correctly
// Assert.That(reviewer.Error, Is.Null);

Assert.Multiple(() =>
{
Assert.That(diffDataTable.Rows, Has.Count.EqualTo(6));
Assert.That(diffs, Has.Count.EqualTo(6));
});
}
// //tables should exist
// var isolationTables = reviewer.GetIsolationTables();
// Assert.That(isolationTables.Single().Value.Exists());

private static void SetArg(IArgument[] args, string argName, object value)
{
var arg = args.Single(a => a.Name.Equals(argName));
arg.SetValue(value);
arg.SaveToDatabase();
}

// var diffDataTable = reviewer.GetDifferences(isolationTables.Single(), out var diffs);

// Assert.Multiple(() =>
// {
// Assert.That(diffDataTable.Rows, Has.Count.EqualTo(6));
// Assert.That(diffs, Has.Count.EqualTo(6));
// });
//}

//private static void SetArg(IArgument[] args, string argName, object value)
//{
// var arg = args.Single(a => a.Name.Equals(argName));
// arg.SetValue(value);
// arg.SaveToDatabase();
//}
}
12 changes: 6 additions & 6 deletions Rdmp.Dicom/Extraction/FoDicomBased/AmbiguousFilePath.cs
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Expand Up @@ -185,13 +185,13 @@ public static bool IsDicomReference(string fullPath)
var extension = Path.GetExtension(fullPath);


return
string.IsNullOrWhiteSpace(extension) ||
return true;
//string.IsNullOrWhiteSpace(extension) ||

// The following is a valid dicom file name but looks like it has an extension .5323
// 123.3221.23123.5325
RegexDigitsAndDotsOnly.IsMatch(extension) ||
extension.Equals(".dcm", StringComparison.CurrentCultureIgnoreCase);
//// The following is a valid dicom file name but looks like it has an extension .5323
//// 123.3221.23123.5325
//RegexDigitsAndDotsOnly.IsMatch(extension) ||
//extension.Equals(".dcm", StringComparison.CurrentCultureIgnoreCase);
}

public static bool IsZipReference(string path)
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6 changes: 3 additions & 3 deletions SharedAssemblyInfo.cs
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Expand Up @@ -12,7 +12,7 @@
[assembly: AssemblyCulture("")]

// These should be replaced with correct values by the release process
[assembly: AssemblyVersion("7.0.2")]
[assembly: AssemblyFileVersion("7.0.2")]
[assembly: AssemblyInformationalVersion("7.0.2")]
[assembly: AssemblyVersion("7.0.3")]
[assembly: AssemblyFileVersion("7.0.3")]
[assembly: AssemblyInformationalVersion("7.0.3-rc1")]
[assembly: InternalsVisibleTo("Rdmp.Dicom.Tests")]

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