java.sql.SQLIntegrityConstraintViolationException: Cannot delete or update a parent row: a foreign key constraint fails (`irida_integration_test`.`qc_entry`, CONSTRAINT `FK_SEQOBJECT_QC_ENTRY` FOREIGN KEY (`sequencingObject_id`) REFERENCES `sequencing_object` (`id`))

AnalysisExecutionServiceGalaxyIT.testPrepareSubmissionSuccess(): src/test/java/ca/corefacility/bioinformatics/irida/service/analysis/execution/galaxy/impl/integration/AnalysisExecutionServiceGalaxyIT.java#L1

java.sql.SQLIntegrityConstraintViolationException: Cannot delete or update a parent row: a foreign key constraint fails (`irida_integration_test`.`analysis_submission`, CONSTRAINT `FK_ANALYIS_SUBMISSION_SUBMITTER_ID` FOREIGN KEY (`submitter`) REFERENCES `user` (`id`))

AnalysisExecutionServiceGalaxyIT.testTransferAnalysisResultsSuccessPhylogenomicsPairedNoParameters(): src/test/java/ca/corefacility/bioinformatics/irida/service/analysis/execution/galaxy/impl/integration/AnalysisExecutionServiceGalaxyIT.java#L862

java.util.concurrent.ExecutionException: java.lang.IllegalStateException: path 10/1/testReference5734808193697363810.fasta does not exist

AnalysisExecutionServiceGalaxyIT.testTransferAnalysisResultsSuccessPhylogenomicsPairedParametersIgnoreDefaultValues(): src/test/java/ca/corefacility/bioinformatics/irida/service/analysis/execution/galaxy/impl/integration/AnalysisExecutionServiceGalaxyIT.java#L999

java.util.concurrent.ExecutionException: java.lang.IllegalStateException: path 12/1/testReference14400443928751534649.fasta does not exist

AnalysisExecutionServiceGalaxyIT.testTransferAnalysisResultsSuccessPhylogenomicsPairedParameters(): src/test/java/ca/corefacility/bioinformatics/irida/service/analysis/execution/galaxy/impl/integration/AnalysisExecutionServiceGalaxyIT.java#L728

java.util.concurrent.ExecutionException: java.lang.IllegalStateException: path 17/1/testReference15607665751343353469.fasta does not exist

AnalysisExecutionServiceGalaxyIT.testTransferAnalysisResultsFailInvalidRemoteAnalysisId(): src/test/java/ca/corefacility/bioinformatics/irida/service/analysis/execution/galaxy/impl/integration/AnalysisExecutionServiceGalaxyIT.java#L1414

java.util.concurrent.ExecutionException: java.lang.IllegalStateException: path 18/1/testReference6324076670059585278.fasta does not exist

AnalysisExecutionServiceGalaxyIT.testTransferAnalysisResultsFailInvalidId(): src/test/java/ca/corefacility/bioinformatics/irida/service/analysis/execution/galaxy/impl/integration/AnalysisExecutionServiceGalaxyIT.java#L1374

java.util.concurrent.ExecutionException: java.lang.IllegalStateException: path 23/1/testReference3240163698803631838.fasta does not exist

AnalysisExecutionScheduledTaskImplIT.testFullAnalysisRunSuccessTwoSubmissions(): src/test/java/ca/corefacility/bioinformatics/irida/service/impl/integration/AnalysisExecutionScheduledTaskImplIT.java#L215

java.util.concurrent.ExecutionException: java.lang.IllegalStateException: path 33/1/testReference16786268195159070990.fasta does not exist

CartPageIT.testCartPageAsAdmin(): src/test/java/ca/corefacility/bioinformatics/irida/ria/integration/CartPageIT.java#L419

java.lang.IndexOutOfBoundsException: Index 0 out of bounds for length 0

LoginPageLdapNoServerIT.testLoginNoLdapServer(): src/test/java/ca/corefacility/bioinformatics/irida/ria/integration/LoginPageLdapNoServerIT.java#L41

org.opentest4j.AssertionFailedError: expected: <http://127.0.0.1:33131/irida/login?ldap-error=6> but was: <http://127.0.0.1:33131/irida/login?error=true>

AnalysisDetailsPageIT.testUnknownPipelineOutput(): src/test/java/ca/corefacility/bioinformatics/irida/ria/integration/analysis/AnalysisDetailsPageIT.java#L450

org.opentest4j.AssertionFailedError: There should be one output file ==> expected: <1> but was: <0>

AnalysisDetailsPageIT.testOutputFiles(): src/test/java/ca/corefacility/bioinformatics/irida/ria/integration/analysis/AnalysisDetailsPageIT.java#L139

org.openqa.selenium.TimeoutException: Expected condition failed: waiting for visibility of element located by By.cssSelector: span[title='Output File Preview'] (tried for 10 second(s) with 500 milliseconds interval) Build info: version: '4.1.4', revision: '535d840ee2' System info: host: 'fv-az1541-346', ip: '10.1.0.33', os.name: 'Linux', os.arch: 'amd64', os.version: '5.15.0-1053-azure', java.version: '11.0.21' Driver info: org.openqa.selenium.chrome.ChromeDriver Capabilities {acceptInsecureCerts: false, browserName: chrome-headless-shell, browserVersion: 120.0.6099.109, chrome: {chromedriverVersion: 120.0.6099.71 (9729082fe617..., userDataDir: /tmp/.org.chromium.Chromium...}, fedcm:accounts: true, goog:chromeOptions: {debuggerAddress: localhost:33857}, javascriptEnabled: true, networkConnectionEnabled: false, pageLoadStrategy: normal, platform: LINUX, platformName: LINUX, proxy: Proxy(), se:cdp: ws://localhost:33857/devtoo..., se:cdpVersion: 120.0.6099.109, setWindowRect: true, strictFileInteractability: false, timeouts: {implicit: 0, pageLoad: 300000, script: 30000}, unhandledPromptBehavior: dismiss and notify, webauthn:extension:credBlob: true, webauthn:extension:largeBlob: true, webauthn:extension:minPinLength: true, webauthn:extension:prf: true, webauthn:virtualAuthenticators: true} Session ID: 15b0c98f2b02fa4b5f0bc48f7de70bab

AnalysisDetailsPageIT.testSistrOutput(): src/test/java/ca/corefacility/bioinformatics/irida/ria/integration/analysis/AnalysisDetailsPageIT.java#L285

org.openqa.selenium.TimeoutException: Expected condition failed: waiting for number of elements found by By.className: ant-page-header-heading-title to be "2". Current number: "1" (tried for 2 second(s) with 500 milliseconds interval) Build info: version: '4.1.4', revision: '535d840ee2' System info: host: 'fv-az1541-346', ip: '10.1.0.33', os.name: 'Linux', os.arch: 'amd64', os.version: '5.15.0-1053-azure', java.version: '11.0.21' Driver info: org.openqa.selenium.chrome.ChromeDriver Capabilities {acceptInsecureCerts: false, browserName: chrome-headless-shell, browserVersion: 120.0.6099.109, chrome: {chromedriverVersion: 120.0.6099.71 (9729082fe617..., userDataDir: /tmp/.org.chromium.Chromium...}, fedcm:accounts: true, goog:chromeOptions: {debuggerAddress: localhost:33857}, javascriptEnabled: true, networkConnectionEnabled: false, pageLoadStrategy: normal, platform: LINUX, platformName: LINUX, proxy: Proxy(), se:cdp: ws://localhost:33857/devtoo..., se:cdpVersion: 120.0.6099.109, setWindowRect: true, strictFileInteractability: false, timeouts: {implicit: 0, pageLoad: 300000, script: 30000}, unhandledPromptBehavior: dismiss and notify, webauthn:extension:credBlob: true, webauthn:extension:largeBlob: true, webauthn:extension:minPinLength: true, webauthn:extension:prf: true, webauthn:virtualAuthenticators: true} Session ID: 15b0c98f2b02fa4b5f0bc48f7de70bab

AnalysisDetailsPageIT.testProvenance(): src/test/java/ca/corefacility/bioinformatics/irida/ria/integration/analysis/AnalysisDetailsPageIT.java#L206

org.openqa.selenium.TimeoutException: Expected condition failed: waiting for visibility of element located by By.cssSelector: span[title='Provenance'] (tried for 10 second(s) with 500 milliseconds interval) Build info: version: '4.1.4', revision: '535d840ee2' System info: host: 'fv-az1541-346', ip: '10.1.0.33', os.name: 'Linux', os.arch: 'amd64', os.version: '5.15.0-1053-azure', java.version: '11.0.21' Driver info: org.openqa.selenium.chrome.ChromeDriver Capabilities {acceptInsecureCerts: false, browserName: chrome-headless-shell, browserVersion: 120.0.6099.109, chrome: {chromedriverVersion: 120.0.6099.71 (9729082fe617..., userDataDir: /tmp/.org.chromium.Chromium...}, fedcm:accounts: true, goog:chromeOptions: {debuggerAddress: localhost:33857}, javascriptEnabled: true, networkConnectionEnabled: false, pageLoadStrategy: normal, platform: LINUX, platformName: LINUX, proxy: Proxy(), se:cdp: ws://localhost:33857/devtoo..., se:cdpVersion: 120.0.6099.109, setWindowRect: true, strictFileInteractability: false, timeouts: {implicit: 0, pageLoad: 300000, script: 30000}, unhandledPromptBehavior: dismiss and notify, webauthn:extension:credBlob: true, webauthn:extension:largeBlob: true, webauthn:extension:minPinLength: true, webauthn:extension:prf: true, webauthn:virtualAuthenticators: true} Session ID: 15b0c98f2b02fa4b5f0bc48f7de70bab

AnalysisDetailsPageIT.testSamplesPage(): src/test/java/ca/corefacility/bioinformatics/irida/ria/integration/analysis/AnalysisDetailsPageIT.java#L236

org.openqa.selenium.NoSuchElementException: no such element: Unable to locate element: {"method":"css selector","selector":"span[title='Samples']"} (Session info: chrome-headless-shell=120.0.6099.109) For documentation on this error, please visit: https://selenium.dev/exceptions/#no_such_element Build info: version: '4.1.4', revision: '535d840ee2' System info: host: 'fv-az1541-346', ip: '10.1.0.33', os.name: 'Linux', os.arch: 'amd64', os.version: '5.15.0-1053-azure', java.version: '11.0.21' Driver info: org.openqa.selenium.chrome.ChromeDriver Command: [15b0c98f2b02fa4b5f0bc48f7de70bab, findChildElement {id=73D0757CB54CE71A3ABE435D84FA1432_element_2455, using=css selector, value=span[title='Samples']}] Capabilities {acceptInsecureCerts: false, browserName: chrome-headless-shell, browserVersion: 120.0.6099.109, chrome: {chromedriverVersion: 120.0.6099.71 (9729082fe617..., userDataDir: /tmp/.org.chromium.Chromium...}, fedcm:accounts: true, goog:chromeOptions: {debuggerAddress: localhost:33857}, javascriptEnabled: true, networkConnectionEnabled: false, pageLoadStrategy: normal, platform: LINUX, platformName: LINUX, proxy: Proxy(), se:cdp: ws://localhost:33857/devtoo..., se:cdpVersion: 120.0.6099.109, setWindowRect: true, strictFileInteractability: false, timeouts: {implicit: 0, pageLoad: 300000, script: 30000}, unhandledPromptBehavior: dismiss and notify, webauthn:extension:credBlob: true, webauthn:extension:largeBlob: true, webauthn:extension:minPinLength: true, webauthn:extension:prf: true, webauthn:virtualAuthenticators: true} Session ID: 15b0c98f2b02fa4b5f0bc48f7de70bab

AnalysisDetailsPageIT.testPipelineResultsWithoutSpecialTab(): src/test/java/ca/corefacility/bioinformatics/irida/ria/integration/analysis/AnalysisDetailsPageIT.java#L193

org.opentest4j.AssertionFailedError: There should be one output file ==> expected: <1> but was: <0>

AnalysisDetailsPageIT.testTabRoutingAnalysisCompleted(): src/test/java/ca/corefacility/bioinformatics/irida/ria/integration/analysis/AnalysisDetailsPageIT.java#L316

org.openqa.selenium.TimeoutException: Expected condition failed: waiting for number of elements found by By.className: ant-page-header-heading-title to be "2". Current number: "0" (tried for 2 second(s) with 500 milliseconds interval) Build info: version: '4.1.4', revision: '535d840ee2' System info: host: 'fv-az1541-346', ip: '10.1.0.33', os.name: 'Linux', os.arch: 'amd64', os.version: '5.15.0-1053-azure', java.version: '11.0.21' Driver info: org.openqa.selenium.chrome.ChromeDriver Capabilities {acceptInsecureCerts: false, browserName: chrome-headless-shell, browserVersion: 120.0.6099.109, chrome: {chromedriverVersion: 120.0.6099.71 (9729082fe617..., userDataDir: /tmp/.org.chromium.Chromium...}, fedcm:accounts: true, goog:chromeOptions: {debuggerAddress: localhost:33857}, javascriptEnabled: true, networkConnectionEnabled: false, pageLoadStrategy: normal, platform: LINUX, platformName: LINUX, proxy: Proxy(), se:cdp: ws://localhost:33857/devtoo..., se:cdpVersion: 120.0.6099.109, setWindowRect: true, strictFileInteractability: false, timeouts: {implicit: 0, pageLoad: 300000, script: 30000}, unhandledPromptBehavior: dismiss and notify, webauthn:extension:credBlob: true, webauthn:extension:largeBlob: true, webauthn:extension:minPinLength: true, webauthn:extension:prf: true, webauthn:virtualAuthenticators: true} Session ID: 15b0c98f2b02fa4b5f0bc48f7de70bab

AnalysisDetailsPageIT.testTreeOutput(): src/test/java/ca/corefacility/bioinformatics/irida/ria/integration/analysis/AnalysisDetailsPageIT.java#L379

org.openqa.selenium.TimeoutException: Expected condition failed: waiting for number of elements found by By.className: ant-page-header-heading-title to be "2". Current number: "0" (tried for 2 second(s) with 500 milliseconds interval) Build info: version: '4.1.4', revision: '535d840ee2' System info: host: 'fv-az1541-346', ip: '10.1.0.33', os.name: 'Linux', os.arch: 'amd64', os.version: '5.15.0-1053-azure', java.version: '11.0.21' Driver info: org.openqa.selenium.chrome.ChromeDriver Capabilities {acceptInsecureCerts: false, browserName: chrome-headless-shell, browserVersion: 120.0.6099.109, chrome: {chromedriverVersion: 120.0.6099.71 (9729082fe617..., userDataDir: /tmp/.org.chromium.Chromium...}, fedcm:accounts: true, goog:chromeOptions: {debuggerAddress: localhost:33857}, javascriptEnabled: true, networkConnectionEnabled: false, pageLoadStrategy: normal, platform: LINUX, platformName: LINUX, proxy: Proxy(), se:cdp: ws://localhost:33857/devtoo..., se:cdpVersion: 120.0.6099.109, setWindowRect: true, strictFileInteractability: false, timeouts: {implicit: 0, pageLoad: 300000, script: 30000}, unhandledPromptBehavior: dismiss and notify, webauthn:extension:credBlob: true, webauthn:extension:largeBlob: true, webauthn:extension:minPinLength: true, webauthn:extension:prf: true, webauthn:virtualAuthenticators: true} Session ID: 15b0c98f2b02fa4b5f0bc48f7de70bab

gradle-build (file_system_testing)

The following actions uses node12 which is deprecated and will be forced to run on node16: actions/setup-java@v1. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/

gradle-build (file_system_testing)

The `set-output` command is deprecated and will be disabled soon. Please upgrade to using Environment Files. For more information see: https://github.blog/changelog/2022-10-11-github-actions-deprecating-save-state-and-set-output-commands/

gradle-build (open_api_testing)