Attempt loading so.json for testing

GMOD · Dec 4, 2024 · d902170 · d902170
1 parent bd97982
commit d902170
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Showing 5 changed files with 16 additions and 5 deletions.
diff --git a/packages/apollo-collaboration-server/.development.env b/packages/apollo-collaboration-server/.development.env
@@ -32,10 +32,10 @@ SESSION_SECRET=g9fGaRuw06T7hs960Tm7KYyfcFaYEIaG9jfFnVEQ4QyFXmq7
 ##############################################################################
 
 # Google client id and secret.
-GOOGLE_CLIENT_ID=1054515969695-3hpfg1gd0ld3sgj135kfgikolu86vv30.apps.googleusercontent.com
+GOOGLE_CLIENT_ID=1000521104117-bhd8r4v11cc053g0b80ui00ss9s5fitv.apps.googleusercontent.com
 # Alternatively, can be a path to a file with the client ID
 # GOOGLE_CLIENT_ID_FILE=/run/secrets/google-client-id
-GOOGLE_CLIENT_SECRET=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
+GOOGLE_CLIENT_SECRET=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
 # Alternatively, can be a path to a file with the client secret
 # GOOGLE_CLIENT_SECRET_FILE=/run/secrets/google-client-secret
 

diff --git a/packages/jbrowse-plugin-apollo/cypress.config.js b/packages/jbrowse-plugin-apollo/cypress.config.js
@@ -11,7 +11,7 @@ module.exports = defineConfig({
   // Make viewport long and thin to avoid the scrollbar on the right interfere
   // with the coordinates
   viewportHeight: 2000,
-  viewportWidth: 1000,
+  viewportWidth: 1500,
   retries: {
     runMode: 2,
   },

diff --git a/packages/jbrowse-plugin-apollo/cypress/data/so.json.gz b/packages/jbrowse-plugin-apollo/cypress/data/so.json.gz
diff --git a/packages/jbrowse-plugin-apollo/cypress/e2e/editFeature.cy.ts b/packages/jbrowse-plugin-apollo/cypress/e2e/editFeature.cy.ts
@@ -174,7 +174,7 @@ describe('Different ways of editing features', () => {
     cy.contains('td', '=CDS1').should('not.exist')
   })
 
-  it('Suggest only valid SO terms from dropdown', () => {
+  it.only('Suggest only valid SO terms from dropdown', () => {
     cy.addAssemblyFromGff('onegene.fasta.gff3', 'test_data/onegene.fasta.gff3')
     cy.selectAssemblyToView('onegene.fasta.gff3')
     cy.searchFeatures('gx1', 1)
@@ -186,6 +186,7 @@ describe('Different ways of editing features', () => {
       timeout: 60_000,
       force: true,
     })
+
     cy.contains('li', /^start_codon$/, {
       timeout: 60_000,
       matchCase: false,

diff --git a/packages/jbrowse-plugin-apollo/cypress/support/commands.ts b/packages/jbrowse-plugin-apollo/cypress/support/commands.ts
@@ -76,7 +76,7 @@ Cypress.Commands.add('addOntologies', () => {
             },
             {
               name: 'Sequence Ontology',
-              version: '3.1',
+              version: 'unversioned',
               source: {
                 uri: 'http://localhost:9000/test_data/so-v3.1.json',
                 locationType: 'UriLocation',
@@ -94,6 +94,16 @@ Cypress.Commands.add('addOntologies', () => {
       { timeout: 120_000 },
     )
   })
+  cy.readFile('cypress/data/so.json.gz', null).then((soGZip: Buffer) => {
+    cy.wrap<Promise<void>>(
+      loadOntology(
+        soGZip,
+        'Apollo Ontology "Sequence Ontology" "unversioned"',
+        2,
+      ),
+      { timeout: 120_000 },
+    )
+  })
 })
 
 Cypress.Commands.add('addAssemblyFromGff', (assemblyName, fin) => {