Implement Lauris parsing in LabItem.

This commit is contained in:
Daniel Kraus 2015-06-20 16:26:10 +02:00
parent 130d0eabdb
commit aa2ad96774
4 changed files with 349 additions and 8 deletions

View File

@ -20,11 +20,111 @@ using System.Collections.Generic;
using System.Linq;
using System.Text;
using NUnit.Framework;
using zaaReloaded2.Models;
namespace Tests
{
[TestFixture]
class LabItemTest
{
[Test]
[TestCase("Natrium: 139 [135 - 145] mmol/l", "Natrium", 139, "mmol/l", 135, 145, true)]
[TestCase("Kalium: 5.2 [3.5 - 5] mmol/l", "Kalium", 5.2, "mmol/l", 3.5, 5, false)]
public void ParseLaurisWithBothLimits(
string laurisString, string name, double value,
string unit, double lowerLimit, double upperLimit, bool isNormal)
{
LabItem i = new LabItem(laurisString);
Assert.AreEqual(name, i.Name, "Name");
Assert.AreEqual(unit, i.Unit, "Unit");
Assert.IsTrue(i.IsNumerical, "IsNumerical");
Assert.AreEqual(value, i.NumericalValue, "NumericalValue");
Assert.AreEqual(lowerLimit, i.LowerLimit, "Lower limit");
Assert.AreEqual(upperLimit, i.UpperLimit, "Upper limit");
Assert.AreEqual(isNormal, i.IsNormal, "IsNormal");
Assert.IsTrue(i.HasLimits, "HasLimits");
Assert.IsTrue(i.HasLowerLimit, "HasLowerLimit");
Assert.IsTrue(i.HasUpperLimit, "HasUpperLimit");
}
[TestCase("HDL - Cholesterin: 45 [>= 35] mg/dl", "HDL - Cholesterin", 45, "mg/dl", 35, true)]
public void ParseLaurisWithLowerLimit(
string laurisString, string name, double value,
string unit, double lowerLimit, bool isNormal)
{
LabItem i = new LabItem(laurisString);
Assert.AreEqual(name, i.Name, "Name");
Assert.AreEqual(unit, i.Unit, "Unit");
Assert.IsTrue(i.IsNumerical, "IsNumerical");
Assert.AreEqual(value, i.NumericalValue, "NumericalValue");
Assert.AreEqual(lowerLimit, i.LowerLimit, "Lower limit");
Assert.AreEqual(isNormal, i.IsNormal, "IsNormal");
Assert.IsTrue(i.HasLimits, "HasLimits");
Assert.IsTrue(i.HasLowerLimit, "HasLowerLimit");
Assert.IsFalse(i.HasUpperLimit, "HasUpperLimit");
}
[TestCase("GOT (ASAT): 303.0 [<= 50] U/l; ", "GOT (ASAT)", 303, "U/l", 50, false)]
public void ParseLaurisWithUpperLimit(
string laurisString, string name, double value,
string unit, double upperLimit, bool isNormal)
{
LabItem i = new LabItem(laurisString);
Assert.AreEqual(name, i.Name, "Name");
Assert.AreEqual(unit, i.Unit, "Unit");
Assert.IsTrue(i.IsNumerical, "IsNumerical");
Assert.AreEqual(value, i.NumericalValue, "NumericalValue");
Assert.AreEqual(upperLimit, i.UpperLimit, "Upper limit");
Assert.AreEqual(isNormal, i.IsNormal, "IsNormal");
Assert.IsTrue(i.HasLimits, "HasLimits");
Assert.IsFalse(i.HasLowerLimit, "HasLowerLimit");
Assert.IsTrue(i.HasUpperLimit, "HasUpperLimit");
}
[TestCase("Niedermol. Heparin (Anti-Xa): 0.99 U/ml;", "Niedermol. Heparin (Anti-Xa)", 0.99, "U/ml")]
[TestCase("glomerul. Filtrationsr. CKD-EP: 42 ml/min /1,73qm;", "glomerul. Filtrationsr. CKD-EP", 42, "ml/min /1,73qm")]
public void ParseLaurisWithoutLimits(
string laurisString, string name, double value,
string unit)
{
LabItem i = new LabItem(laurisString);
Assert.AreEqual(name, i.Name, "Name");
Assert.AreEqual(unit, i.Unit, "Unit");
Assert.IsTrue(i.IsNumerical, "IsNumerical");
Assert.AreEqual(value, i.NumericalValue, "NumericalValue");
Assert.IsFalse(i.HasLimits, "HasLimits");
Assert.IsFalse(i.HasLowerLimit, "HasLowerLimit");
Assert.IsFalse(i.HasUpperLimit, "HasUpperLimit");
}
[TestCase("HBs-Antigen: neg. ;", "HBs-Antigen", "neg.")]
public void ParseLaurisNonNumericNoNormal(
string laurisString, string name, string value)
{
LabItem i = new LabItem(laurisString);
Assert.AreEqual(name, i.Name, "Name");
Assert.AreEqual(value, i.Value, "Value");
Assert.IsTrue(String.IsNullOrEmpty(i.Unit), "Unit should be a null string");
Assert.IsFalse(i.HasLimits, "HasLimits");
Assert.IsFalse(i.HasLowerLimit, "HasLowerLimit");
Assert.IsFalse(i.HasUpperLimit, "HasUpperLimit");
// TODO: Define the behavior of LabItem.IsNormal if no normal value known
}
[TestCase("Erythrozyten (U): + [negativ]", "Erythrozyten (U)", "+", "negativ", false)]
[TestCase("Bilirubin (U): negativ [negativ]", "Bilirubin (U)", "negativ", "negativ", true)]
public void ParseLaurisNonNumericWithNormal(
string laurisString, string name, string value, string normal, bool isNormal)
{
LabItem i = new LabItem(laurisString);
Assert.AreEqual(name, i.Name, "Name");
Assert.AreEqual(value, i.Value, "Value");
Assert.AreEqual(normal, i.Normal, "Normal");
Assert.AreEqual(isNormal, i.IsNormal, "IsNormal");
Assert.IsFalse(i.HasLimits, "HasLimits");
Assert.IsFalse(i.HasLowerLimit, "HasLowerLimit");
Assert.IsFalse(i.HasUpperLimit, "HasUpperLimit");
// TODO: Define the behavior of LabItem.IsNormal if no normal value known
}
}
}

View File

@ -64,6 +64,12 @@
<None Include="packages.config" />
<None Include="Tests.licenseheader" />
</ItemGroup>
<ItemGroup>
<ProjectReference Include="..\zaaReloaded2\zaaReloaded2.csproj">
<Project>{0478f1b0-17f2-4151-8f93-1cb6eb9732c5}</Project>
<Name>zaaReloaded2</Name>
</ProjectReference>
</ItemGroup>
<Choose>
<When Condition="'$(VisualStudioVersion)' == '10.0' And '$(IsCodedUITest)' == 'True'">
<ItemGroup>

View File

@ -16,9 +16,8 @@
* limitations under the License.
*/
using System;
using System.Collections.Generic;
using System.Linq;
using System.Text;
using System.Globalization;
using System.Text.RegularExpressions;
namespace zaaReloaded2.Models
{
@ -29,12 +28,162 @@ namespace zaaReloaded2.Models
{
#region Properties
/// <summary>
/// Gets or sets the original name of the item (as known by Lauris).
/// </summary>
public string Name { get; set; }
/// <summary>
/// Gets or sets the unit of the item (as known by Lauris).
/// </summary>
public string Unit { get; set; }
public double Value { get; set; }
public double LowerLimit { get; set; }
public double UpperLimit { get; set; }
public string Lauris { get; set; }
/// <summary>
/// Gets or sets the value of the item. This may be a number or a string.
/// </summary>
public string Value { get; set; }
public double NumericalValue
{
get
{
if (IsNumerical)
{
return _numericalValue;
}
else
{
throw new InvalidOperationException(
String.Format("Value '{0}' is not numerical.", Value));
}
}
private set
{
_numericalValue = value;
}
}
public bool IsNumerical
{
get
{
return (Double.TryParse(Value,
NumberStyles.Any,
CultureInfo.InvariantCulture,
out _numericalValue));
}
}
/// <summary>
/// Gets or sets the normal value of the item. Need not be set. This is
/// used for items with nominal values (as opposed to numbers).
/// </summary>
public string Normal { get; set; }
/// <summary>
/// Gets or sets the lower limit of normal.
/// </summary>
public double LowerLimit
{
get
{
return _lowerLimit;
}
set
{
_lowerLimit = value;
HasLowerLimit = true;
}
}
/// <summary>
/// Is true if the item has a lower limit of normal.
/// </summary>
public bool HasLowerLimit { get; private set; }
/// <summary>
/// Gets or sets the upper limit of normal.
/// </summary>
public double UpperLimit
{
get
{
return _upperLimit;
}
set
{
_upperLimit = value;
HasUpperLimit = true;
}
}
/// <summary>
/// Is true if the item has an upper limit of normal.
/// </summary>
public bool HasUpperLimit { get; private set; }
/// <summary>
/// Is true if <see cref="Value"/> is normal.
/// </summary>
public bool IsNormal
{
get
{
if (HasLimits)
{
if (HasLowerLimit && HasUpperLimit)
{
return (LowerLimit <= NumericalValue &&
NumericalValue <= UpperLimit);
}
else
{
if (HasLowerLimit)
{
return (LowerLimit <= NumericalValue);
}
return (NumericalValue <= UpperLimit);
}
}
else
{
return (Value == Normal);
}
}
}
/// <summary>
/// Is true if the item has lower and/or upper limits. Is false if the
/// item does not have limits but a <see cref="Normal"/> value.
/// </summary>
public bool HasLimits
{
get { return (HasLowerLimit || HasUpperLimit); }
}
/// <summary>
/// The original Lauris string from which this lab item was created.
/// </summary>
public string Lauris { get; private set; }
/// <summary>
/// The canonical name of this item, or the Lauris <see cref="Name"/>
/// of the item if no canonical name is known.
/// </summary>
public string CanonicalName
{
get
{
if (!string.IsNullOrEmpty(_canonicalName))
{
return _canonicalName;
}
else
{
return Name;
}
}
}
#endregion
@ -66,8 +215,84 @@ namespace zaaReloaded2.Models
/// </summary>
private void ParseLauris()
{
// Examples of Lauris output strings:
// "Natrium: 139 [135 - 145] mmol/l"
// "HDL - Cholesterin: 45 [>= 35] mg/dl"
// "GOT (ASAT): 303.0 [<= 50] U/l; "
// "Niedermol. Heparin (Anti-Xa): 0.99 U/ml;"
// "HBs-Antigen: neg. ;"
// "Erythrozyten (U): + [negativ]"
Match match;
Regex numericalRegex = new Regex(
@"(?<name>[^:]+):\s*(?<value>[\d.]+)\s*(?<limits>\[[^\]]+])?\s*(?<unit>[^;]+)?");
Regex categoricalRegex = new Regex(
@"(?<name>[^:]+):\s*(?<value>[^[;]+)\s*(\[(?<normal>[^\]]+)])?");
if (numericalRegex.IsMatch(Lauris))
{
match = numericalRegex.Match(Lauris);
ParseLimits(match);
}
else
{
match = categoricalRegex.Match(Lauris);
Normal = match.Groups["normal"].Value.Trim();
}
if (match != null)
{
Name = match.Groups["name"].Value.Trim();
Value = match.Groups["value"].Value.Trim();
Unit = match.Groups["unit"].Value.Trim();
}
}
/// <summary>
/// Parses a string containing value limits. The string must be like
/// "[3.5 - 5]", "[>= 50]", or "[&lt;= 100]".
/// </summary>
/// <param name="match">Match object that should contain a group "limits".</param>
void ParseLimits(Match match)
{
if (match.Groups["limits"].Success)
{
Regex limitRegex = new Regex(@"\[(?<limit1>[\d.]+)?\s*(?<operator>\S+)\s*(?<limit2>[\d.]+)?]");
Match limitMatch = limitRegex.Match(match.Groups["limits"].Value);
if (limitMatch.Groups["limit1"].Success && limitMatch.Groups["limit2"].Success)
{
// Use InvariantCulture because Lauris always outputs dots as decimal separator
LowerLimit = Double.Parse(limitMatch.Groups["limit1"].Value,
CultureInfo.InvariantCulture);
UpperLimit = Double.Parse(limitMatch.Groups["limit2"].Value,
CultureInfo.InvariantCulture);
}
else
{
switch (limitMatch.Groups["operator"].Value.Trim())
{
case "<=":
UpperLimit = Double.Parse(limitMatch.Groups["limit2"].Value,
CultureInfo.InvariantCulture);
break;
case ">=":
LowerLimit = Double.Parse(limitMatch.Groups["limit2"].Value,
CultureInfo.InvariantCulture);
break;
default:
throw new InvalidOperationException(
String.Format("Unknown operator in {0}",
match.Groups["limits"].Value));
}
}
}
}
#endregion
#region Fields
string _canonicalName;
double _numericalValue;
double _lowerLimit;
double _upperLimit;
#endregion
}

View File

@ -192,11 +192,21 @@
</Compile>
<AppDesigner Include="Properties\" />
<None Include="zaaReloaded2.licenseheader" />
<None Include="zaaReloaded2_TemporaryKey.pfx" />
</ItemGroup>
<PropertyGroup>
<VisualStudioVersion Condition="'$(VisualStudioVersion)' == ''">10.0</VisualStudioVersion>
<VSToolsPath Condition="'$(VSToolsPath)' == ''">$(MSBuildExtensionsPath32)\Microsoft\VisualStudio\v$(VisualStudioVersion)</VSToolsPath>
</PropertyGroup>
<PropertyGroup>
<SignManifests>true</SignManifests>
</PropertyGroup>
<PropertyGroup>
<ManifestKeyFile>zaaReloaded2_TemporaryKey.pfx</ManifestKeyFile>
</PropertyGroup>
<PropertyGroup>
<ManifestCertificateThumbprint>0EDB0CD8E3605AC48387A527A80943403E568BD9</ManifestCertificateThumbprint>
</PropertyGroup>
<!-- Include the build rules for a C# project. -->
<Import Project="$(MSBuildToolsPath)\Microsoft.CSharp.targets" />
<!-- Include additional build rules for an Office application add-in. -->