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Integration Tests #6299

Integration Tests

Integration Tests #6299

Triggered via schedule March 9, 2024 01:41
Status Failure
Total duration 41m 48s
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ci-test.yml

on: schedule
Matrix: gradle-build
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28 errors and 24 warnings
docs-build
Version 2.7 not found
ProjectIT.testCreateProject(): src/test/java/ca/corefacility/bioinformatics/irida/web/controller/test/integration/project/ProjectIT.java#L82
org.opentest4j.AssertionFailedError: Result of POST must equal result of GET ==> expected: <true> but was: <false>
ProjectIT.testCreateProject(): src/test/java/ca/corefacility/bioinformatics/irida/web/controller/test/integration/project/ProjectIT.java#L82
org.opentest4j.AssertionFailedError: Result of POST must equal result of GET ==> expected: <true> but was: <false>
SequencingRunServiceImplIT.testDeleteFilesOnFilesystem(): src/test/java/ca/corefacility/bioinformatics/irida/service/impl/integration/SequencingRunServiceImplIT.java#L293
org.opentest4j.AssertionFailedError: Sequence file should exist on the file system ==> expected: <true> but was: <false>
SequencingRunServiceImplIT.testAddSequenceFileToMiseqRunAsSequencer(): src/test/java/ca/corefacility/bioinformatics/irida/service/impl/integration/SequencingRunServiceImplIT.java#L65
org.opentest4j.AssertionFailedError: Saved miseq run should have seqence file ==> expected: <true> but was: <false>
gradle-build (galaxy_testing)
Singleton bean creation not allowed while singletons of this factory are in destruction (Do not request a bean from a BeanFactory in a destroy method implementation!)
gradle-build (galaxy_testing)
Singleton bean creation not allowed while singletons of this factory are in destruction (Do not request a bean from a BeanFactory in a destroy method implementation!)
gradle-build (galaxy_testing)
Singleton bean creation not allowed while singletons of this factory are in destruction (Do not request a bean from a BeanFactory in a destroy method implementation!)
AnalysisExecutionServiceGalaxyIT.testTransferAnalysisResultsSuccessTestAnalysis(): src/test/java/ca/corefacility/bioinformatics/irida/service/analysis/execution/galaxy/impl/integration/AnalysisExecutionServiceGalaxyIT.java#L1267
java.util.concurrent.ExecutionException: java.lang.IllegalStateException: path 12/1/testReference10902609254754962106.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 19/1/testReference10840406175505120250.fasta does not exist
AnalysisExecutionServiceGalaxyIT.testTransferAnalysisResultsSuccessPhylogenomics(): src/test/java/ca/corefacility/bioinformatics/irida/service/analysis/execution/galaxy/impl/integration/AnalysisExecutionServiceGalaxyIT.java#L505
java.util.concurrent.ExecutionException: java.lang.IllegalStateException: path 23/1/testReference929108369389819586.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 24/1/testReference6130356558744286892.fasta does not exist
AnalysisExecutionServiceGalaxyIT.testTransferAnalysisResultsSuccessAssemblyAnnotation(): src/test/java/ca/corefacility/bioinformatics/irida/service/analysis/execution/galaxy/impl/integration/AnalysisExecutionServiceGalaxyIT.java#L1213
java.util.concurrent.ExecutionException: ca.corefacility.bioinformatics.irida.exceptions.ExecutionManagerDownloadException: Could not download dataset identified by historyId=c385e49b9fe1853c, datasetId=fee08c51df578e3d to destination=/tmp/analysis-output8868078583372237133/prokka.log
AnalysisExecutionScheduledTaskImplIT.testFullAnalysisRunCleanupFailInvalidRemoteAnalysisId(): src/test/java/ca/corefacility/bioinformatics/irida/service/impl/integration/AnalysisExecutionScheduledTaskImplIT.java#L348
java.util.concurrent.ExecutionException: java.lang.IllegalStateException: path 29/1/testReference8494722127976350751.fasta does not exist
AnalysisExecutionScheduledTaskImplIT.testFullAnalysisRunFailInvalidWorkflowStatus(): src/test/java/ca/corefacility/bioinformatics/irida/service/impl/integration/AnalysisExecutionScheduledTaskImplIT.java#L306
java.util.concurrent.ExecutionException: java.lang.IllegalStateException: path 38/1/testReference10174208183134523744.fasta does not exist
AnalysisExecutionScheduledTaskImplIT.testFullAnalysisRunSuccess(): src/test/java/ca/corefacility/bioinformatics/irida/service/impl/integration/AnalysisExecutionScheduledTaskImplIT.java#L157
java.util.concurrent.ExecutionException: java.lang.IllegalStateException: path 39/1/testReference263800400711071590.fasta does not exist
LoginPageLdapNoServerIT.testLoginNoLdapServer(): src/test/java/ca/corefacility/bioinformatics/irida/ria/integration/LoginPageLdapNoServerIT.java#L41
org.opentest4j.AssertionFailedError: expected: <http://127.0.0.1:36031/irida/login?ldap-error=6> but was: <http://127.0.0.1:36031/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-az1458-414', ip: '10.1.0.6', os.name: 'Linux', os.arch: 'amd64', os.version: '5.15.0-1057-azure', java.version: '11.0.22' Driver info: org.openqa.selenium.chrome.ChromeDriver Capabilities {acceptInsecureCerts: false, browserName: chrome-headless-shell, browserVersion: 122.0.6261.94, chrome: {chromedriverVersion: 122.0.6261.94 (880dbf29479c..., userDataDir: /tmp/.org.chromium.Chromium...}, fedcm:accounts: true, goog:chromeOptions: {debuggerAddress: localhost:36341}, javascriptEnabled: true, networkConnectionEnabled: false, pageLoadStrategy: normal, platform: LINUX, platformName: LINUX, proxy: Proxy(), se:cdp: ws://localhost:36341/devtoo..., se:cdpVersion: 122.0.6261.94, 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: 0814177a8986bd35e7bb60af8a903fe5
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-az1458-414', ip: '10.1.0.6', os.name: 'Linux', os.arch: 'amd64', os.version: '5.15.0-1057-azure', java.version: '11.0.22' Driver info: org.openqa.selenium.chrome.ChromeDriver Capabilities {acceptInsecureCerts: false, browserName: chrome-headless-shell, browserVersion: 122.0.6261.94, chrome: {chromedriverVersion: 122.0.6261.94 (880dbf29479c..., userDataDir: /tmp/.org.chromium.Chromium...}, fedcm:accounts: true, goog:chromeOptions: {debuggerAddress: localhost:36341}, javascriptEnabled: true, networkConnectionEnabled: false, pageLoadStrategy: normal, platform: LINUX, platformName: LINUX, proxy: Proxy(), se:cdp: ws://localhost:36341/devtoo..., se:cdpVersion: 122.0.6261.94, 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: 0814177a8986bd35e7bb60af8a903fe5
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-az1458-414', ip: '10.1.0.6', os.name: 'Linux', os.arch: 'amd64', os.version: '5.15.0-1057-azure', java.version: '11.0.22' Driver info: org.openqa.selenium.chrome.ChromeDriver Capabilities {acceptInsecureCerts: false, browserName: chrome-headless-shell, browserVersion: 122.0.6261.94, chrome: {chromedriverVersion: 122.0.6261.94 (880dbf29479c..., userDataDir: /tmp/.org.chromium.Chromium...}, fedcm:accounts: true, goog:chromeOptions: {debuggerAddress: localhost:36341}, javascriptEnabled: true, networkConnectionEnabled: false, pageLoadStrategy: normal, platform: LINUX, platformName: LINUX, proxy: Proxy(), se:cdp: ws://localhost:36341/devtoo..., se:cdpVersion: 122.0.6261.94, 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: 0814177a8986bd35e7bb60af8a903fe5
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=122.0.6261.94) 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-az1458-414', ip: '10.1.0.6', os.name: 'Linux', os.arch: 'amd64', os.version: '5.15.0-1057-azure', java.version: '11.0.22' Driver info: org.openqa.selenium.chrome.ChromeDriver Command: [0814177a8986bd35e7bb60af8a903fe5, findChildElement {id=f.20AF2C5CF3F883C71E7E9E38E92CEC69.d.53579FDA0AAE2C1FC5E954B74E542356.e.2528, using=css selector, value=span[title='Samples']}] Capabilities {acceptInsecureCerts: false, browserName: chrome-headless-shell, browserVersion: 122.0.6261.94, chrome: {chromedriverVersion: 122.0.6261.94 (880dbf29479c..., userDataDir: /tmp/.org.chromium.Chromium...}, fedcm:accounts: true, goog:chromeOptions: {debuggerAddress: localhost:36341}, javascriptEnabled: true, networkConnectionEnabled: false, pageLoadStrategy: normal, platform: LINUX, platformName: LINUX, proxy: Proxy(), se:cdp: ws://localhost:36341/devtoo..., se:cdpVersion: 122.0.6261.94, 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: 0814177a8986bd35e7bb60af8a903fe5
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-az1458-414', ip: '10.1.0.6', os.name: 'Linux', os.arch: 'amd64', os.version: '5.15.0-1057-azure', java.version: '11.0.22' Driver info: org.openqa.selenium.chrome.ChromeDriver Capabilities {acceptInsecureCerts: false, browserName: chrome-headless-shell, browserVersion: 122.0.6261.94, chrome: {chromedriverVersion: 122.0.6261.94 (880dbf29479c..., userDataDir: /tmp/.org.chromium.Chromium...}, fedcm:accounts: true, goog:chromeOptions: {debuggerAddress: localhost:36341}, javascriptEnabled: true, networkConnectionEnabled: false, pageLoadStrategy: normal, platform: LINUX, platformName: LINUX, proxy: Proxy(), se:cdp: ws://localhost:36341/devtoo..., se:cdpVersion: 122.0.6261.94, 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: 0814177a8986bd35e7bb60af8a903fe5
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-az1458-414', ip: '10.1.0.6', os.name: 'Linux', os.arch: 'amd64', os.version: '5.15.0-1057-azure', java.version: '11.0.22' Driver info: org.openqa.selenium.chrome.ChromeDriver Capabilities {acceptInsecureCerts: false, browserName: chrome-headless-shell, browserVersion: 122.0.6261.94, chrome: {chromedriverVersion: 122.0.6261.94 (880dbf29479c..., userDataDir: /tmp/.org.chromium.Chromium...}, fedcm:accounts: true, goog:chromeOptions: {debuggerAddress: localhost:36341}, javascriptEnabled: true, networkConnectionEnabled: false, pageLoadStrategy: normal, platform: LINUX, platformName: LINUX, proxy: Proxy(), se:cdp: ws://localhost:36341/devtoo..., se:cdpVersion: 122.0.6261.94, 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: 0814177a8986bd35e7bb60af8a903fe5
AnalysisDetailsPageIT.testAnalysisDetails(): src/test/java/ca/corefacility/bioinformatics/irida/ria/integration/analysis/AnalysisDetailsPageIT.java#L73
org.opentest4j.AssertionFailedError: The correct details are displayed for the analysis ==> expected: <true> but was: <false>
docs-build
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v3, actions/cache@v3, actions/setup-ruby@v1. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
docs-build
The following actions uses node12 which is deprecated and will be forced to run on node16: actions/setup-ruby@v1. For more info: https://github.blog/changelog/2023-06-13-github-actions-all-actions-will-run-on-node16-instead-of-node12-by-default/
docs-build
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)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v3, actions/cache@v3, actions/setup-java@v1, gradle/wrapper-validation-action@v1, gradle/gradle-build-action@v2. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
gradle-build (open_api_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 (open_api_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 (file_system_testing)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v3, actions/cache@v3, actions/setup-java@v1, gradle/wrapper-validation-action@v1, gradle/gradle-build-action@v2, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
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 (rest_testing)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v3, actions/cache@v3, actions/setup-java@v1, gradle/wrapper-validation-action@v1, gradle/gradle-build-action@v2, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
gradle-build (rest_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 (rest_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 (service_testing)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v3, actions/cache@v3, actions/setup-java@v1, gradle/wrapper-validation-action@v1, gradle/gradle-build-action@v2, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
gradle-build (service_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 (service_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 (galaxy_testing)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v3, actions/cache@v3, actions/setup-java@v1, gradle/wrapper-validation-action@v1, gradle/gradle-build-action@v2, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
gradle-build (galaxy_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 (galaxy_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 (galaxy_pipeline_testing)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v3, actions/cache@v3, actions/setup-java@v1, gradle/wrapper-validation-action@v1, gradle/gradle-build-action@v2, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
gradle-build (galaxy_pipeline_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 (galaxy_pipeline_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 (ui_testing)
Node.js 16 actions are deprecated. Please update the following actions to use Node.js 20: actions/checkout@v3, actions/cache@v3, actions/setup-java@v1, gradle/wrapper-validation-action@v1, gradle/gradle-build-action@v2, mikepenz/action-junit-report@v3. For more information see: https://github.blog/changelog/2023-09-22-github-actions-transitioning-from-node-16-to-node-20/.
gradle-build (ui_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 (ui_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/