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Add test for Analysis object Fill form and check Summary amount of ob… #125

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merged 4 commits into from
Jan 11, 2021
Merged

Add test for Analysis object Fill form and check Summary amount of ob… #125

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f4a6ea2
Add test for Analysis object Fill form and check Summary amount of ob…
hannyle Jan 8, 2021
73c5dab
Try to fix Fill form error
hannyle Jan 8, 2021
8e35b7d
Fix for Fill Form button not clicking
hannyle Jan 11, 2021
b4d408d
Fix Experiment typos
hannyle Jan 11, 2021
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86 changes: 81 additions & 5 deletions cypress/integration/app.spec.js
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Original file line number Diff line number Diff line change
Expand Up @@ -6,7 +6,7 @@ describe("Basic e2e", function () {
cy.get('[alt="CSC Login"]').click()
})

it("should create new folder, add study form and publish folder", () => {
it("should create new folder, add Study form, upload Study XML file, add Analysis form and publish folder", () => {
cy.visit(baseUrl)
cy.get('[alt="CSC Login"]').click()
cy.visit(baseUrl + "newdraft")
Expand All @@ -19,15 +19,15 @@ describe("Basic e2e", function () {
cy.get("textarea[name='description']").type("Test description")
cy.get("button[type=button]").contains("Next").click()

// Fill a study form and submit object
// Fill a Study form and submit object
cy.get("div[role=button]").contains("Study").click()
cy.get("div[role=button]").contains("Fill Form").click()
cy.get("input[name='descriptor.studyTitle']").type("Test title")
cy.get("select[name='descriptor.studyType']").select("Metagenomics")
cy.get("button[type=submit]").contains("Submit").click()
cy.get(".MuiListItem-container", { timeout: 10000 }).should("have.length", 1)

// Upload an xml file.
// Upload a Study xml file.
cy.get("div[role=button]").contains("Upload XML File").click()
cy.fixture("study_test.xml").then(fileContent => {
cy.get('input[type="file"]').attachFile({
Expand All @@ -40,11 +40,87 @@ describe("Basic e2e", function () {
// Hacky way to get past RHF watch -method problem that doesn't allow cypress to get updated value for file
cy.get("form").submit()

// Saved objects list should have newly added item
// Saved objects list should have newly added item from Study object
cy.get(".MuiListItem-container", { timeout: 10000 }).should("have.length", 2)

// // Navigate to summary and publish
// Fill an Analysis form and submit object
cy.get("div[role=button]").contains("Analysis").click()
cy.get("div[role=button]").contains("Fill Form").click()
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cy.get("form").within(() => {
// Experiment
cy.get("input[name='experimentRef.accessionId']").type("Experiement Test Accession Id")
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cy.get("input[name='experimentRef.identifiers.submitterId.namespace']").type("Experiement Test Namespace")
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cy.get("input[name='experimentRef.identifiers.submitterId.value']").type("Experiement Test Value")
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// Study
cy.get("input[name='studyRef.accessionId']").type("Study Test Accession Id")
cy.get("input[name='studyRef.identifiers.submitterId.namespace']").type("Study Test Namespace")
cy.get("input[name='studyRef.identifiers.submitterId.value']").type("Study Test Value")

// Sample
cy.get("input[name='sampleRef.accessionId']").type("Sample Test Accession Id")
cy.get("input[name='sampleRef.identifiers.submitterId.namespace']").type("Sample Test Namespace")
cy.get("input[name='sampleRef.identifiers.submitterId.value']").type("Sample Test Value")

// Run
cy.get("input[name='runRef.accessionId']").type("Run Test Accession Id")
cy.get("input[name='runRef.identifiers.submitterId.namespace']").type("Run Test Namespace")
cy.get("input[name='runRef.identifiers.submitterId.value']").type("Run Test Value")

// Analysis
cy.get("input[name='analysisRef.accessionId']").type("Analysis Test Accession Id")
cy.get("input[name='analysisRef.identifiers.submitterId.namespace']").type("Analysis Test Namespace")
cy.get("input[name='analysisRef.identifiers.submitterId.value']").type("Analysis Test Value")

cy.get("h3")
.contains("Reference Alignment")
.parent("div.formSection")
.within(() => {
cy.get("button").contains("Add new item").click()
cy.get("input[name='analysisType.referenceAlignment.sequence[0].accessionId']").type("Reference Accession Id")
})

cy.get("h3")
.contains("Sequence Variation")
.parent("div.formSection")
.within(() => {
cy.get("input[name='analysisType.sequenceVariation.assembly.standard.accessionId']").type(
"Sequence Standard Accession Id"
)
cy.get("button").contains("Add new item").click()
cy.get("input[name='analysisType.sequenceVariation.sequence[0].accessionId']").type(
"Squence Sequence Accession Id"
)
})

cy.get("h3")
.contains("Processed Reads")
.parent("div.formSection")
.within(() => {
cy.get("input[name='analysisType.processedReads.assembly.standard.accessionId']").type(
"Processed Standard Accession Id"
)
cy.get("button").contains("Add new item").click()

cy.get("input[name='analysisType.processedReads.sequence[0].accessionId']").type(
"Processed Sequence Accession Id"
)
})
cy.root().submit()
})

// Saved objects list should have newly added item from Analysis object
cy.get(".MuiListItem-container", { timeout: 10000 }).should("have.length", 1)

// Navigate to summary
cy.get("button[type=button]").contains("Next").click()

// Check the amount of submitted objects in each object type
cy.get("h6").contains("Study").parent("div").children().eq(1).should("have.text", 2)
cy.get("h6").contains("Analysis").parent("div").children().eq(1).should("have.text", 1)

// Navigate to publish
cy.get("button[type=button]").contains("Publish").click()
cy.get('button[aria-label="Publish folder contents and move to frontpage"]').contains("Publish").click()
})
Expand Down