Update PRIDE package to v1.0.3

tests/ReferenceObjects.fs

@@ -62,5 +62,16 @@ module invenio =
         let validationResultCritical =
             ValidationResult.create(10,9,1,0)
 
+        let validationResultNonCritical =
+            ValidationResult.create(0,0,0,0)
+
+
+module pride =
+
+    module testARC_proteomicsCorrect =
+
+        let validationResultCritical =
+            ValidationResult.create(22,22,0,0)
+
         let validationResultNonCritical =
             ValidationResult.create(0,0,0,0)

tests/ValidationPackages.Tests.fsproj

@@ -16,11 +16,10 @@
     <Compile Include="TestObjects.fs" />
     <Compile Include="GitSubmodulesTests.fs" />
     <Compile Include="invenio%403.0.0.fs" />
+    <Compile Include="pride%401.0.3.fs" />
     <Compile Include="Program.fs" />
   </ItemGroup>
 
-  <ItemGroup />
-
   <ItemGroup>
     <PackageReference Include="ARCExpect" Version="4.0.1" />
     <PackageReference Include="Fake.Core.Process" Version="6.0.0" />

tests/fixtures/validationReport/pride/1.0.3/testARC_proteomicsCorrect/validation_report.xml

@@ -0,0 +1,27 @@
+<?xml version="1.0" encoding="utf-8"?>
+<testsuites>
+    <testsuite name="fsi">
+        <testcase name="[ Critical; INVESTIGATION; Investigation Title ]" time="0.003" />
+        <testcase name="[ Critical; INVESTIGATION; Investigation Description ]" time="0.003" />
+        <testcase name="[ Critical; INVESTIGATION; Investigation Person First Name exists ]" time="0.003" />
+        <testcase name="[ Critical; INVESTIGATION; Investigation Person First Name is not empty ]" time="0.003" />
+        <testcase name="[ Critical; INVESTIGATION; Investigation Person Last Name exists ]" time="0.003" />
+        <testcase name="[ Critical; INVESTIGATION; Investigation Person Last Name is not empty ]" time="0.003" />
+        <testcase name="[ Critical; INVESTIGATION; Investigation Person Affiliation exists ]" time="0.003" />
+        <testcase name="[ Critical; INVESTIGATION; Investigation Person Affiliation is not empty ]" time="0.003" />
+        <testcase name="[ Critical; INVESTIGATION; Investigation Person Email ]" time="0.001" />
+        <testcase name="[ Critical; STUDY; STUDY PROTOCOLS ]" time="0.001" />
+        <testcase name="[ Critical; STUDY; STUDY PROTOCOLS description ]" time="0.001" />
+        <testcase name="[ Critical; STUDY; Tissue ]" time="0.001" />
+        <testcase name="[ Critical; STUDY; Organism ]" time="0.001" />
+        <testcase name="[ Critical; INVESTIGATION; Investigation Person Email exists ]" time="0.000" />
+        <testcase name="[ Critical; STUDY; Tissue terms ]" time="0.000" />
+        <testcase name="[ Critical; STUDY; Organism terms ]" time="0.000" />
+        <testcase name="[ Critical; ASSAY; Assay Technology Type Term Accession Number ]" time="0.000" />
+        <testcase name="[ Critical; ASSAY; Assay Technology Type ]" time="0.000" />
+        <testcase name="[ Critical; ASSAY; Assay Technology Type Term Source REF ]" time="0.000" />
+        <testcase name="[ Critical; ASSAY; instrument model ]" time="0.000" />
+        <testcase name="[ Critical; ASSAY; instrument model terms ]" time="0.000" />
+        <testcase name="[ Critical; ASSAY; modification ]" time="0.000" />
+    </testsuite>
+</testsuites>

tests/pride@1.0.3.fs

@@ -0,0 +1,61 @@
+module pride
+
+
+open ValidationPackages.Tests
+open TestUtils
+
+open Xunit
+open ARCExpect
+
+open System.IO
+open System
+
+
+type BaseTool_Fixture(scriptName : string, version : string, arcfolder : string) =
+
+    let result = runTool "dotnet" [|"fsi"; $"../../validation_packages/{scriptName}/{scriptName}@{version}.fsx"|] $"fixtures/{arcfolder}"
+
+    let arcExpectValidationResult = ARCExpect.ValidationSummary.fromJson (File.ReadAllText $"fixtures/{arcfolder}/.arc-validate-results/{scriptName}@{version}/validation_summary.json")
+
+    let jUnitResult = JUnitResults.fromJUnitFile $"fixtures/{arcfolder}/.arc-validate-results/{scriptName}@{version}/validation_report.xml"
+
+    let jUnitExpected = JUnitResults.fromJUnitFile $"fixtures/validationReport/{scriptName}/{version}/{arcfolder}/validation_report.xml"
+
+    interface IDisposable with
+        override this.Dispose() =
+            Directory.Delete($"fixtures/{arcfolder}/.arc-validate-results/{scriptName}@{version}/", true)
+
+    member this.Result = result
+
+    member this.ArcExpectValidationResult = arcExpectValidationResult
+
+    member this.JUnitResult = jUnitResult
+
+    member this.JUnitExpected = jUnitExpected
+
+
+type testARC_proteomicsCorrect_Fixture() =
+
+    inherit BaseTool_Fixture("pride", "1.0.3", "testARC_proteomicsCorrect")
+
+
+type testARC_proteomicsCorrect() =
+
+    let tool_fixture = new testARC_proteomicsCorrect_Fixture()
+
+    interface IClassFixture<testARC_proteomicsCorrect_Fixture>
+
+    member this.Fixture with get() = tool_fixture
+
+    [<Fact>]
+    member this.``result Exitcode is 0`` () =
+        Assert.Equal(0, this.Fixture.Result.ExitCode)
+
+    [<Fact>]
+    member this.``validation_summary JSON is equal`` () =
+        Assert.Equal(ReferenceObjects.pride.testARC_proteomicsCorrect.validationResultCritical, this.Fixture.ArcExpectValidationResult.Critical)
+        Assert.Equal(ReferenceObjects.pride.testARC_proteomicsCorrect.validationResultNonCritical, this.Fixture.ArcExpectValidationResult.NonCritical)
+
+    [<Fact>]
+    member this.``validation_report XML is equal`` () =
+        Assert.Equal(this.Fixture.JUnitExpected, this.Fixture.JUnitResult)