TMMA-461 expand cypress tests (#223)

* user journey login, upload and delete, not including visualisation

* user journey from login, upload and delete. no visulations

* updated user journey test to include visualisation

* updated file path for select file, renamed description of test, deleted unused test file and old visualiations test script

* added test for large dataset, then delete file

* updated the large dataset test using different sample

* reduced wait time to 30 seconds for this test

---------

Co-authored-by: Tessa Alexander <1619343+asset-web@users.noreply.github.com>

cypress/integration/large-dataset.js

@@ -0,0 +1,249 @@
+describe('Login, upload and do a search using large dataset including selecting items from the tree, then delete.', () => {
+
+    beforeEach(() => {
+        cy.visit('/');
+        cy.viewport(1920, 1080)
+    });
+
+    it('Lets login, go to results page, check its empty then try to upload an abstract file', () => {
+            cy.visit('/logout');
+            cy.visit('/');
+            cy.get('#side-menu')
+                .contains('Login')
+                .click()
+            cy.get('title')
+                .invoke('text')
+                .should('equal', 'TeMMPo: Login')
+
+            cy.get('#id_username').type(Cypress.env('CREDENTIALS_USR'));
+            cy.get('#id_password').type(Cypress.env('CREDENTIALS_PSW'));
+            cy.get('button[type=submit]').click()
+
+            cy.get('title')
+                .invoke('text')
+                .should('equal', 'TeMMPo: My list')
+
+        // goto results tab and check its empty
+
+            cy.get('#side-menu')
+                .contains('Results')
+                .click()
+
+            cy.get('.page-header')
+                .should('have.text', 'Results')
+
+            cy.get('table')
+                .find('tr')
+                .eq(1)
+                .contains('No data available in table', { matchCase: false })
+
+        // lets go to the search page try to upload an ovid medline abstract file
+
+            cy.get('.controls')
+                .find('a.btn.btn-default')
+                .contains('New search', { matchCase: false })
+                .click()
+
+            cy.get('title')
+                .invoke('text')
+                .should('equal', 'TeMMPo: Search')
+
+            cy.get('.form-group')
+                .find('a.btn.btn-primary')
+                .eq(0)
+                .contains('Upload OVID MEDLINE® formatted abstracts', { matchCase: false })
+                .click()
+
+        // Goes to the ovid medline abstract file upload page
+
+            cy.get('title')
+                .invoke('text')
+                .should('equal', 'TeMMPo: Search Ovid MEDLINE®')
+
+            cy.get('input[type=file]')
+                .selectFile('tests/test-abstract.txt')
+
+            cy.get('#upload_button')
+                .contains('Upload', { matchCase: false })
+                .click()
+
+        // We should be on the Select exposure MeSH® terms page
+
+            cy.get('title')
+                .invoke('text')
+                .should('equal', 'TeMMPo: Select exposure MeSH® terms')
+
+        // Lets tick some exposure terms in the checkbox tree
+
+            cy.get('a')
+                .contains('Anatomy', { matchCase: false })
+                .click()
+
+        // Lets add some exposure terms in the textarea, click add, then move on to mediators
+
+            cy.get('#term_names').type('Neoplasm Metastasis;DNA Methylation;Gene Silencing;Neoplasm Invasiveness;Drug Design;Structure-Activity Relationship;Flow Cytometry;Enzyme-Linked Immunosorbent Assay;Real-Time Polymerase Chain Reaction;Reverse Transcriptase Polymerase Chain Reaction;Tumor Cells, Cultured;Castration;Mice, Nude;Radioimmunoassay;Tumor Burden;Xenograft Model Antitumor Assays;Disease Progression;Gene Knockout Techniques;Down-Regulation;Oxidation-Reduction;Humans');
+
+            cy.contains('Add', { matchCase: false })
+                .click()
+
+            cy.contains('Save and move on to select mediators', { matchCase: false })
+                .click()
+
+        // We should be on the Select mediator MeSH® terms page
+
+            cy.get('title')
+                .invoke('text')
+                .should('equal', 'TeMMPo: Select mediator MeSH® terms')
+
+        // Lets add terms in the textarea, click add, then move on to outcomes
+
+            cy.get('#term_names').type('Genetic Markers; Penetrance;Age of Onset;Alleles;Founder Effect;Base Sequence;Female;Molecular Sequence Data;Sequence Analysis, RNA;Aorta/ph [Physiology];Chick Embryo;Chorioallantoic Membrane/de [Drug Effects];Cytokines/bi [Biosynthesis];Rats;TOR Serine-Threonine Kinases/me [Metabolism];Xenograft Model Antitumor Assays;Cross-Sectional Studies;Infant;Child;Milk;Aged');
+
+            cy.contains('Add', { matchCase: false })
+                .click()
+
+        // add some more terms from the checkbox tree
+
+            cy.get('a')
+                .contains('Information Science', { matchCase: false })
+                .click()
+
+            cy.contains('Save and move on to select outcomes', { matchCase: false })
+                .click()
+
+        // We should be on the Select outcome MeSH® terms page
+
+            cy.get('title')
+                .invoke('text')
+                .should('equal', 'TeMMPo: Select outcome MeSH® terms')
+
+        // Lets add outcome term in the textarea, click add, move on to genes
+
+            cy.get('#term_names').type('Neoplasm Metastasis;Eryptosis;Randomized Controlled Trials as Topic;Risk Factors;Immunoassay;Disease-Free Survival;Prostatectomy;Sensitivity and Specificity;Microfluidic Analytical Techniques;Reverse Transcriptase Polymerase Chain Reaction;Signal Transduction;Blotting, Western;Proteomics;Nutritional Requirements;Replicon;Analysis of Variance;Sorghum;Trifolium;Solubility;Industrial Waste;Latex;Dimerization;Young Adult');
+
+            cy.contains('Add', { matchCase: false })
+                .click()
+
+        // Lets tick an outcome term in the checkbox
+
+            cy.get('a')
+                .contains('Named Groups', { matchCase: false })
+                .click()
+
+            cy.contains('Save and move on to select Genes and Filters', { matchCase: false })
+                .click()
+
+        // We should be on the Select genes and filter page
+
+            cy.get('title')
+                .invoke('text')
+                .should('equal', 'TeMMPo: Select genes and filter')
+
+        // click the button to continue and get some results
+
+            cy.get('button.btn.btn-primary')
+                .contains('Search', { matchCase: false })
+                .click()
+
+        // We should be on the my list of Results page
+
+            cy.get('title')
+                .invoke('text')
+                .should('equal', 'TeMMPo: My list')
+
+        // get the table and check it has the uploaded text file listed
+
+            cy.get('table')
+                .eq(0)
+                .find('tr')
+                .eq(1)
+                .should('not.be.empty')
+
+        // now we are gonna wait a minute...
+
+            cy.wait(60000)
+
+        // reload the page
+
+            cy.reload()
+
+        // this is where we will do the visualiations...
+
+
+        // select sankey chart
+
+            cy.get('tbody')
+                .contains('View Sankey diagram')
+                .click()
+
+
+        // check sankey chart contains human....etc
+
+            cy.get('#sankey_multiple')
+                .should('include.text', 'Humans')
+
+
+        // go back to results tab
+
+            cy.get('#side-menu')
+                .contains('Results')
+                .click()
+
+            cy.get('.page-header')
+                .should('have.text', 'Results')
+
+        // select bubble chart
+
+            cy.get('tbody')
+                .contains('View bubble chart')
+                .click()
+
+        // should contain Genetic Markers on the page
+
+            cy.get('#bubble_chart')
+                .should('include.text', 'Base Sequence')
+
+
+        // thats the end of visualiations test, now lets delete the file we uploaded...
+
+        // goto results tab...
+
+            cy.get('#side-menu')
+                .contains('Results')
+                .click()
+
+            cy.get('.page-header')
+                .should('have.text', 'Results')
+
+        // find and click the delete button
+
+            cy.get('.controls')
+                .find('a.btn.btn-danger.btn-sm')
+                .contains('Delete', { matchCase: false })
+                .click({force:true})
+
+        // now check we go the the delete search page
+
+            cy.get('title')
+                .invoke('text')
+                .should('equal', 'TeMMPo: Delete search')
+
+        // find the delete search button and click it
+
+            cy.get('input.btn.btn-danger')
+                .contains('Delete search', { matchCase: false })
+                .click({force:true})
+
+        // now were redirected to the results page with an alert saying Search results deleted
+
+            cy.get('title')
+                .invoke('text')
+                .should('equal', 'TeMMPo: My list')
+
+            cy.get('.info')
+                .contains('Search results deleted', { matchCase: false })
+
+
+    })
+
+});

cypress/integration/user-journey.js

@@ -141,9 +141,9 @@ describe('User journey of login, upload abstracts, perform search, view, visuali
                 .eq(1)
                 .should('not.be.empty')
 
-        // now we are gonna wait a minute...
+        // now we are gonna wait 30 seconds...
 
-            cy.wait(60000)
+            cy.wait(30000)
 
         // reload the page