Troubleshooting connectivity problem between integration of Jira DVCS with Github

Summary

This article describes a problem where connectivity between Jira and github.com is not established. Jira DVCS plugin is used for integration between Jira and github.com.   

Environment

Jira 9.x

Solution

Cause 1

• In application logs following errors are observed

  1 2 3 $ grep "Connection timed out" atlassian-jira.log 2023-07-13 12:29:27,257+0200 Caesium-1-4 INFO ServiceRunner [c.a.j.p.dvcs.service.RepositoryServiceImpl] Failed to uninstall postcommit hook for repository id 4751 (https://github.com/some-group/some-repo-1) - java.net.ConnectException: Connection timed out (Connection timed out) 2023-07-13 12:31:38,329+0200 Caesium-1-4 INFO ServiceRunner [c.a.j.p.dvcs.service.RepositoryServiceImpl] Failed to uninstall postcommit hook for repository id 6555 (https://github.com/some-group/some-repo-2) - java.net.ConnectException: Connection timed out (Connection timed out)

• When we check connectivity with curl to connect to github.com from Jira node, Connection was not established and got timed out. 

• But when proxy was used in curl command, connection was established successfully.

  1 2 3 4 5 $ curl https://github.com curl: (7) Failed to connect to github.com port 443: Connection timed out $ curl -x proxy:port -Lv https://github.com success

Cause 2

• In application logs following errors are observed

  1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 27 28 29 30 31 32 33 34 35 36 37 38 39 40 41 42 43 44 45 46 47 48 49 50 51 52 53 54 55 56 57 58 59 60 61 62 63 2023-07-24 13:28:16,521+0200 Caesium-1-1 WARN ServiceRunner [c.a.j.p.d.spi.github.GithubClientWithTimeout] Failed to execute request [GET /organizations/83957415/repos?per_page=100&page=26] errors: Parse exception converting JSON to object java.io.IOException: Parse exception converting JSON to object at org.eclipse.egit.github.core.client.GitHubClient.parseJson(GitHubClient.java:424) at org.eclipse.egit.github.core.client.GitHubClient.getBody(GitHubClient.java:529) ------ 2023-07-24 13:28:16,522+0200 Caesium-1-1 INFO ServiceRunner [c.a.j.p.dvcs.service.RepositorySyncServiceImpl] Fetching all remote rep ositories for organization [Some-Group] took 117s 2023-07-24 13:28:16,528+0200 Caesium-1-1 WARN ServiceRunner [c.a.j.p.dvcs.scheduler.DvcsSchedulerJobRunner] Failed to sync organizat ion [com.atlassian.jira.plugins.dvcs.model.Organization@472417a5[id=31,hostUrl=https://github.com,name=Some-Group,dvcsType=githube ,autolinkNewRepos=false,smartcommitsOnNewRepos=true,organizationUrl=https://github.com/Some-Group,repositories=<null>,credential=c om.atlassian.jira.plugins.dvcs.model.credential.ThreeLeggedOAuthCredential@9cc848d0,groups=<null>,defaultGroups=[],approvalState=APPROVE D,status=<null>]] com.atlassian.jira.plugins.dvcs.exception.SourceControlException: Error retrieving list of repositories at com.atlassian.jira.plugins.dvcs.spi.github.GithubCommunicator.getRepositories(GithubCommunicator.java:188) at com.atlassian.jira.plugins.dvcs.service.remote.CachingCommunicator.getRepositories(CachingCommunicator.java:140) at com.atlassian.jira.plugins.dvcs.service.RepositorySyncServiceImpl.getAllRemoteRepositories(RepositorySyncServiceImpl.java:285 ) at com.atlassian.jira.plugins.dvcs.service.RepositorySyncServiceImpl.reconcileRepoList(RepositorySyncServiceImpl.java:126) at com.atlassian.jira.plugins.dvcs.service.RepositorySyncServiceImpl.syncReposWithUpdates(RepositorySyncServiceImpl.java:174) at com.atlassian.jira.plugins.dvcs.scheduler.DvcsSchedulerJobRunner.lambda$syncOrganizations$1(DvcsSchedulerJobRunner.java:85) at java.base/java.util.ArrayList.forEach(Unknown Source) at com.atlassian.jira.plugins.dvcs.scheduler.DvcsSchedulerJobRunner.syncOrganizations(DvcsSchedulerJobRunner.java:82) at com.atlassian.jira.plugins.dvcs.scheduler.DvcsSchedulerJobRunner.runJob(DvcsSchedulerJobRunner.java:63) at com.atlassian.scheduler.core.JobLauncher.runJob(JobLauncher.java:134) at com.atlassian.scheduler.core.JobLauncher.launchAndBuildResponse(JobLauncher.java:106) at com.atlassian.scheduler.core.JobLauncher.launch(JobLauncher.java:90) at com.atlassian.scheduler.caesium.impl.CaesiumSchedulerService.launchJob(CaesiumSchedulerService.java:435) at com.atlassian.scheduler.caesium.impl.CaesiumSchedulerService.executeClusteredJob(CaesiumSchedulerService.java:430) at com.atlassian.scheduler.caesium.impl.CaesiumSchedulerService.executeClusteredJobWithRecoveryGuard(CaesiumSchedulerService.jav a:454) at com.atlassian.scheduler.caesium.impl.CaesiumSchedulerService.executeQueuedJob(CaesiumSchedulerService.java:382) at com.atlassian.scheduler.caesium.impl.SchedulerQueueWorker.executeJob(SchedulerQueueWorker.java:66) at com.atlassian.scheduler.caesium.impl.SchedulerQueueWorker.executeNextJob(SchedulerQueueWorker.java:60) at com.atlassian.scheduler.caesium.impl.SchedulerQueueWorker.run(SchedulerQueueWorker.java:35) at java.base/java.lang.Thread.run(Unknown Source) Caused by: java.io.IOException: Parse exception converting JSON to object at org.eclipse.egit.github.core.client.GitHubClient.parseJson(GitHubClient.java:424) at org.eclipse.egit.github.core.client.GitHubClient.getBody(GitHubClient.java:529) at org.eclipse.egit.github.core.client.GitHubClient.get(GitHubClient.java:736) at com.atlassian.jira.plugins.dvcs.spi.github.GithubClientWithTimeout.lambda$get$0(GithubClientWithTimeout.java:67) at com.atlassian.jira.plugins.dvcs.spi.github.GithubClientWithTimeout.executeRequest(GithubClientWithTimeout.java:103) at org.eclipse.egit.github.core.client.PageIterator.next(PageIterator.java:173) at org.eclipse.egit.github.core.service.GitHubService.getAll(GitHubService.java:151) at org.eclipse.egit.github.core.service.RepositoryService.getOrgRepositories(RepositoryService.java:348) at org.eclipse.egit.github.core.service.RepositoryService.getOrgRepositories(RepositoryService.java:300) at com.atlassian.jira.plugins.dvcs.spi.github.GithubCommunicator.getRepositories(GithubCommunicator.java:178) ... 19 more Caused by: com.google.gson.JsonSyntaxException: java.net.SocketTimeoutException: Read timed out at com.google.gson.Gson.fromJson(Gson.java:804) at com.google.gson.Gson.fromJson(Gson.java:756) at org.eclipse.egit.github.core.client.GitHubClient.parseJson(GitHubClient.java:422) ... 29 more Caused by: java.net.SocketTimeoutException: Read timed out at java.base/java.net.SocketInputStream.socketRead(Unknown Source) at java.base/java.net.SocketInputStream.read(Unknown Source) at java.base/java.net.SocketInputStream.read(Unknown Source) at java.base/sun.security.ssl.SSLSocketInputRecord.read(Unknown Source) at java.base/sun.security.ssl.SSLSocketInputRecord.readFully(Unknown Source) at java.base/sun.security.ssl.SSLSocketInputRecord.decodeInputRecord(Unknown Source) at java.base/sun.security.ssl.SSLSocketInputRecord.decode(Unknown Source) at java.base/sun.security.ssl.SSLTransport.decode(Unknown Source)

Solution for Cause 1

• User should try setting following JVM properties as per Setting properties and options on startup

Solution for Cause 2

• User should try setting following JVM property as per Setting properties and options on startup . It would set socket timeout to 5 minute, default is 1 minute for Github integration.