Implement Lauris parsing in LabItem.
This commit is contained in:
Daniel Kraus
parent
130d0eabdb
commit
aa2ad96774
@ -20,11 +20,111 @@ using System.Collections.Generic;
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using System.Linq;
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using System.Text;
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using NUnit.Framework;
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using zaaReloaded2.Models;
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namespace Tests
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{
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[TestFixture]
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class LabItemTest
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{
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[Test]
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[TestCase("Natrium: 139 [135 - 145] mmol/l", "Natrium", 139, "mmol/l", 135, 145, true)]
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[TestCase("Kalium: 5.2 [3.5 - 5] mmol/l", "Kalium", 5.2, "mmol/l", 3.5, 5, false)]
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public void ParseLaurisWithBothLimits(
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string laurisString, string name, double value,
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string unit, double lowerLimit, double upperLimit, bool isNormal)
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{
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LabItem i = new LabItem(laurisString);
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Assert.AreEqual(name, i.Name, "Name");
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Assert.AreEqual(unit, i.Unit, "Unit");
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Assert.IsTrue(i.IsNumerical, "IsNumerical");
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Assert.AreEqual(value, i.NumericalValue, "NumericalValue");
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Assert.AreEqual(lowerLimit, i.LowerLimit, "Lower limit");
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Assert.AreEqual(upperLimit, i.UpperLimit, "Upper limit");
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Assert.AreEqual(isNormal, i.IsNormal, "IsNormal");
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Assert.IsTrue(i.HasLimits, "HasLimits");
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Assert.IsTrue(i.HasLowerLimit, "HasLowerLimit");
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Assert.IsTrue(i.HasUpperLimit, "HasUpperLimit");
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}
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[TestCase("HDL - Cholesterin: 45 [>= 35] mg/dl", "HDL - Cholesterin", 45, "mg/dl", 35, true)]
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public void ParseLaurisWithLowerLimit(
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string laurisString, string name, double value,
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string unit, double lowerLimit, bool isNormal)
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{
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LabItem i = new LabItem(laurisString);
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Assert.AreEqual(name, i.Name, "Name");
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Assert.AreEqual(unit, i.Unit, "Unit");
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Assert.IsTrue(i.IsNumerical, "IsNumerical");
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Assert.AreEqual(value, i.NumericalValue, "NumericalValue");
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Assert.AreEqual(lowerLimit, i.LowerLimit, "Lower limit");
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Assert.AreEqual(isNormal, i.IsNormal, "IsNormal");
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Assert.IsTrue(i.HasLimits, "HasLimits");
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Assert.IsTrue(i.HasLowerLimit, "HasLowerLimit");
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Assert.IsFalse(i.HasUpperLimit, "HasUpperLimit");
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}
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[TestCase("GOT (ASAT): 303.0 [<= 50] U/l; ", "GOT (ASAT)", 303, "U/l", 50, false)]
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public void ParseLaurisWithUpperLimit(
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string laurisString, string name, double value,
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string unit, double upperLimit, bool isNormal)
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{
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LabItem i = new LabItem(laurisString);
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Assert.AreEqual(name, i.Name, "Name");
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Assert.AreEqual(unit, i.Unit, "Unit");
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Assert.IsTrue(i.IsNumerical, "IsNumerical");
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Assert.AreEqual(value, i.NumericalValue, "NumericalValue");
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Assert.AreEqual(upperLimit, i.UpperLimit, "Upper limit");
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Assert.AreEqual(isNormal, i.IsNormal, "IsNormal");
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Assert.IsTrue(i.HasLimits, "HasLimits");
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Assert.IsFalse(i.HasLowerLimit, "HasLowerLimit");
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Assert.IsTrue(i.HasUpperLimit, "HasUpperLimit");
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}
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[TestCase("Niedermol. Heparin (Anti-Xa): 0.99 U/ml;", "Niedermol. Heparin (Anti-Xa)", 0.99, "U/ml")]
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[TestCase("glomerul. Filtrationsr. CKD-EP: 42 ml/min /1,73qm;", "glomerul. Filtrationsr. CKD-EP", 42, "ml/min /1,73qm")]
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public void ParseLaurisWithoutLimits(
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string laurisString, string name, double value,
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string unit)
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{
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LabItem i = new LabItem(laurisString);
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Assert.AreEqual(name, i.Name, "Name");
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Assert.AreEqual(unit, i.Unit, "Unit");
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Assert.IsTrue(i.IsNumerical, "IsNumerical");
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Assert.AreEqual(value, i.NumericalValue, "NumericalValue");
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Assert.IsFalse(i.HasLimits, "HasLimits");
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Assert.IsFalse(i.HasLowerLimit, "HasLowerLimit");
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Assert.IsFalse(i.HasUpperLimit, "HasUpperLimit");
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}
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[TestCase("HBs-Antigen: neg. ;", "HBs-Antigen", "neg.")]
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public void ParseLaurisNonNumericNoNormal(
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string laurisString, string name, string value)
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{
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LabItem i = new LabItem(laurisString);
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Assert.AreEqual(name, i.Name, "Name");
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Assert.AreEqual(value, i.Value, "Value");
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Assert.IsTrue(String.IsNullOrEmpty(i.Unit), "Unit should be a null string");
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Assert.IsFalse(i.HasLimits, "HasLimits");
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Assert.IsFalse(i.HasLowerLimit, "HasLowerLimit");
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Assert.IsFalse(i.HasUpperLimit, "HasUpperLimit");
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// TODO: Define the behavior of LabItem.IsNormal if no normal value known
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}
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[TestCase("Erythrozyten (U): + [negativ]", "Erythrozyten (U)", "+", "negativ", false)]
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[TestCase("Bilirubin (U): negativ [negativ]", "Bilirubin (U)", "negativ", "negativ", true)]
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public void ParseLaurisNonNumericWithNormal(
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string laurisString, string name, string value, string normal, bool isNormal)
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{
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LabItem i = new LabItem(laurisString);
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Assert.AreEqual(name, i.Name, "Name");
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Assert.AreEqual(value, i.Value, "Value");
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Assert.AreEqual(normal, i.Normal, "Normal");
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Assert.AreEqual(isNormal, i.IsNormal, "IsNormal");
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Assert.IsFalse(i.HasLimits, "HasLimits");
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Assert.IsFalse(i.HasLowerLimit, "HasLowerLimit");
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Assert.IsFalse(i.HasUpperLimit, "HasUpperLimit");
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// TODO: Define the behavior of LabItem.IsNormal if no normal value known
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}
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}
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}
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@ -64,6 +64,12 @@
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<None Include="packages.config" />
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<None Include="Tests.licenseheader" />
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</ItemGroup>
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<ItemGroup>
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<ProjectReference Include="..\zaaReloaded2\zaaReloaded2.csproj">
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<Project>{0478f1b0-17f2-4151-8f93-1cb6eb9732c5}</Project>
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<Name>zaaReloaded2</Name>
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</ProjectReference>
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</ItemGroup>
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<Choose>
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<When Condition="'$(VisualStudioVersion)' == '10.0' And '$(IsCodedUITest)' == 'True'">
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<ItemGroup>
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@ -16,9 +16,8 @@
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* limitations under the License.
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*/
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using System;
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using System.Collections.Generic;
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using System.Linq;
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using System.Text;
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using System.Globalization;
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using System.Text.RegularExpressions;
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namespace zaaReloaded2.Models
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{
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@ -29,12 +28,162 @@ namespace zaaReloaded2.Models
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{
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#region Properties
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/// <summary>
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/// Gets or sets the original name of the item (as known by Lauris).
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/// </summary>
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public string Name { get; set; }
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/// <summary>
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/// Gets or sets the unit of the item (as known by Lauris).
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/// </summary>
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public string Unit { get; set; }
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public double Value { get; set; }
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public double LowerLimit { get; set; }
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public double UpperLimit { get; set; }
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public string Lauris { get; set; }
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/// <summary>
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/// Gets or sets the value of the item. This may be a number or a string.
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/// </summary>
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public string Value { get; set; }
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public double NumericalValue
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{
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get
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{
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if (IsNumerical)
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{
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return _numericalValue;
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}
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else
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{
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throw new InvalidOperationException(
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String.Format("Value '{0}' is not numerical.", Value));
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}
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}
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private set
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{
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_numericalValue = value;
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}
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}
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public bool IsNumerical
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{
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get
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{
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return (Double.TryParse(Value,
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NumberStyles.Any,
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CultureInfo.InvariantCulture,
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out _numericalValue));
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}
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}
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/// <summary>
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/// Gets or sets the normal value of the item. Need not be set. This is
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/// used for items with nominal values (as opposed to numbers).
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/// </summary>
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public string Normal { get; set; }
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/// <summary>
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/// Gets or sets the lower limit of normal.
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/// </summary>
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public double LowerLimit
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{
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get
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{
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return _lowerLimit;
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}
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set
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{
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_lowerLimit = value;
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HasLowerLimit = true;
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}
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}
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/// <summary>
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/// Is true if the item has a lower limit of normal.
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/// </summary>
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public bool HasLowerLimit { get; private set; }
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/// <summary>
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/// Gets or sets the upper limit of normal.
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/// </summary>
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public double UpperLimit
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{
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get
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{
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return _upperLimit;
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}
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set
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{
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_upperLimit = value;
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HasUpperLimit = true;
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}
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}
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/// <summary>
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/// Is true if the item has an upper limit of normal.
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/// </summary>
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public bool HasUpperLimit { get; private set; }
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/// <summary>
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/// Is true if <see cref="Value"/> is normal.
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/// </summary>
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public bool IsNormal
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{
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get
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{
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if (HasLimits)
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{
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if (HasLowerLimit && HasUpperLimit)
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{
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return (LowerLimit <= NumericalValue &&
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NumericalValue <= UpperLimit);
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}
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else
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{
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if (HasLowerLimit)
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{
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return (LowerLimit <= NumericalValue);
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}
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return (NumericalValue <= UpperLimit);
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}
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}
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else
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{
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return (Value == Normal);
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}
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}
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}
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/// <summary>
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/// Is true if the item has lower and/or upper limits. Is false if the
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/// item does not have limits but a <see cref="Normal"/> value.
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/// </summary>
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public bool HasLimits
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{
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get { return (HasLowerLimit || HasUpperLimit); }
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}
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/// <summary>
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/// The original Lauris string from which this lab item was created.
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/// </summary>
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public string Lauris { get; private set; }
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/// <summary>
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/// The canonical name of this item, or the Lauris <see cref="Name"/>
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/// of the item if no canonical name is known.
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/// </summary>
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public string CanonicalName
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{
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get
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{
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if (!string.IsNullOrEmpty(_canonicalName))
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{
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return _canonicalName;
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}
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else
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{
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return Name;
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}
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}
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}
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#endregion
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@ -66,8 +215,84 @@ namespace zaaReloaded2.Models
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/// </summary>
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private void ParseLauris()
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{
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// Examples of Lauris output strings:
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// "Natrium: 139 [135 - 145] mmol/l"
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// "HDL - Cholesterin: 45 [>= 35] mg/dl"
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// "GOT (ASAT): 303.0 [<= 50] U/l; "
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// "Niedermol. Heparin (Anti-Xa): 0.99 U/ml;"
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// "HBs-Antigen: neg. ;"
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// "Erythrozyten (U): + [negativ]"
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Match match;
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Regex numericalRegex = new Regex(
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@"(?<name>[^:]+):\s*(?<value>[\d.]+)\s*(?<limits>\[[^\]]+])?\s*(?<unit>[^;]+)?");
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Regex categoricalRegex = new Regex(
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@"(?<name>[^:]+):\s*(?<value>[^[;]+)\s*(\[(?<normal>[^\]]+)])?");
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if (numericalRegex.IsMatch(Lauris))
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{
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match = numericalRegex.Match(Lauris);
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ParseLimits(match);
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}
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else
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{
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match = categoricalRegex.Match(Lauris);
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Normal = match.Groups["normal"].Value.Trim();
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}
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if (match != null)
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{
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Name = match.Groups["name"].Value.Trim();
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Value = match.Groups["value"].Value.Trim();
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Unit = match.Groups["unit"].Value.Trim();
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}
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}
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/// <summary>
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/// Parses a string containing value limits. The string must be like
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/// "[3.5 - 5]", "[>= 50]", or "[<= 100]".
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/// </summary>
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/// <param name="match">Match object that should contain a group "limits".</param>
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void ParseLimits(Match match)
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{
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if (match.Groups["limits"].Success)
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{
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Regex limitRegex = new Regex(@"\[(?<limit1>[\d.]+)?\s*(?<operator>\S+)\s*(?<limit2>[\d.]+)?]");
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Match limitMatch = limitRegex.Match(match.Groups["limits"].Value);
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if (limitMatch.Groups["limit1"].Success && limitMatch.Groups["limit2"].Success)
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{
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// Use InvariantCulture because Lauris always outputs dots as decimal separator
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LowerLimit = Double.Parse(limitMatch.Groups["limit1"].Value,
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CultureInfo.InvariantCulture);
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UpperLimit = Double.Parse(limitMatch.Groups["limit2"].Value,
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CultureInfo.InvariantCulture);
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}
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else
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{
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switch (limitMatch.Groups["operator"].Value.Trim())
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{
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case "<=":
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UpperLimit = Double.Parse(limitMatch.Groups["limit2"].Value,
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CultureInfo.InvariantCulture);
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break;
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case ">=":
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LowerLimit = Double.Parse(limitMatch.Groups["limit2"].Value,
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CultureInfo.InvariantCulture);
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break;
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default:
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throw new InvalidOperationException(
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String.Format("Unknown operator in {0}",
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match.Groups["limits"].Value));
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}
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}
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}
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}
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#endregion
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#region Fields
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string _canonicalName;
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double _numericalValue;
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double _lowerLimit;
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double _upperLimit;
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#endregion
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}
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@ -192,11 +192,21 @@
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</Compile>
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<AppDesigner Include="Properties\" />
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<None Include="zaaReloaded2.licenseheader" />
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<None Include="zaaReloaded2_TemporaryKey.pfx" />
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</ItemGroup>
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<PropertyGroup>
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<VisualStudioVersion Condition="'$(VisualStudioVersion)' == ''">10.0</VisualStudioVersion>
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<VSToolsPath Condition="'$(VSToolsPath)' == ''">$(MSBuildExtensionsPath32)\Microsoft\VisualStudio\v$(VisualStudioVersion)</VSToolsPath>
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</PropertyGroup>
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<PropertyGroup>
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<SignManifests>true</SignManifests>
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</PropertyGroup>
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<PropertyGroup>
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<ManifestKeyFile>zaaReloaded2_TemporaryKey.pfx</ManifestKeyFile>
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</PropertyGroup>
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<PropertyGroup>
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<ManifestCertificateThumbprint>0EDB0CD8E3605AC48387A527A80943403E568BD9</ManifestCertificateThumbprint>
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</PropertyGroup>
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<!-- Include the build rules for a C# project. -->
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<Import Project="$(MSBuildToolsPath)\Microsoft.CSharp.targets" />
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<!-- Include additional build rules for an Office application add-in. -->
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