IndexOutOfBoundsException during lab sync

Software Bahmni
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1

I’m seeing the below error in bahmni-lab.log and lab sync is not working.

I already stopped both openmrs and openelis, truncated markers, failed_events and failed_event_retry_log on both sides and restarted them both but the errors keep popping up as soon as I make a lab request for any patient.

Can anyone help me figure out what’s going on here?

Thanks a bunch!

2018-04-04 20:00:30,058 ERROR [ELIS][AtomFeedClient] Failed to process failed event. FailedEvent{failedAt=1522868220114, event=Event{id='tag:atomfeed.ict4h.org:59edd246-2fcd-47fd-a6ae-23a510abdb60', content='/openmrs/ws/rest/v1/bahmnicore/bahmniencounter/08a80620-1524-41e3-9eef-5db38dc26042?includeAll=true'}, errorMessage='Failed processing event in feed [http://localhost:8050/openmrs/ws/atomfeed/encounter/1]
java.lang.IndexOutOfBoundsException: Index: 0, Size: 0java.lang.RuntimeException: java.lang.IndexOutOfBoundsException: Index: 0, Size: 0
    at org.bahmni.feed.openelis.feed.transaction.support.AtomFeedHibernateTransactionManager.executeWithTransaction(AtomFeedHibernateTransactionManager.java:51)
    at org.ict4h.atomfeed.client.service.AtomFeedClient.processEvents(AtomFeedClient.java:68)
    at org.bahmni.feed.openelis.feed.job.OpenELISFeedReaderJob.processEvents(OpenELISFeedReaderJob.java:73)
    at org.bahmni.feed.openelis.feed.job.OpenELISFeedReaderJob.execute(OpenELISFeedReaderJob.java:57)
    at org.quartz.core.JobRunShell.run(JobRunShell.java:207)
    at org.quartz.simpl.SimpleThreadPool$WorkerThread.run(SimpleThreadPool.java:560)
Caused by: java.lang.IndexOutOfBoundsException: Index: 0, Size: 0
    at java.util.ArrayList.rangeCheck(Unknown Source)
    at java.util.ArrayList.get(Unknown Source)
    at org.bahmni.feed.openelis.feed.event.EncounterFeedWorker$SampleItemTestCache.add(EncounterFeedWorker.java:543)
    at org.bahmni.feed.openelis.feed.event.EncounterFeedWorker.getSampleTestCollections(EncounterFeedWorker.java:393)
    at org.bahmni.feed.openelis.feed.event.EncounterFeedWorker.createSample(EncounterFeedWorker.java:238)
    at org.bahmni.feed.openelis.feed.event.EncounterFeedWorker.process(EncounterFeedWorker.java:181)
    at org.bahmni.feed.openelis.feed.event.EncounterFeedWorker.process(EncounterFeedWorker.java:163)
    at org.ict4h.atomfeed.client.service.AtomFeedClient$EventProcessor.doInTransaction(AtomFeedClient.java:168)
    at org.ict4h.atomfeed.transaction.AFTransactionWorkWithoutResult.execute(AFTransactionWorkWithoutResult.java:6)
    at org.bahmni.feed.openelis.feed.transaction.support.AtomFeedHibernateTransactionManager.executeWithTransaction(AtomFeedHibernateTransactionManager.java:42)
    ... 5 more

', feedUri=‘http://localhost:8050/openmrs/ws/atomfeed/encounter/recent’} java.lang.RuntimeException: java.lang.IndexOutOfBoundsException: Index: 0, Size: 0 at org.bahmni.feed.openelis.feed.transaction.support.AtomFeedHibernateTransactionManager.executeWithTransaction(AtomFeedHibernateTransactionManager.java:51) at org.ict4h.atomfeed.client.service.AtomFeedClient.processFailedEvents(AtomFeedClient.java:98) at org.bahmni.feed.openelis.feed.job.OpenELISFeedFailedEventsJob.processFailedEvents(OpenELISFeedFailedEventsJob.java:37) at org.bahmni.feed.openelis.feed.job.OpenELISFeedFailedEventsJob.execute(OpenELISFeedFailedEventsJob.java:30) at org.quartz.core.JobRunShell.run(JobRunShell.java:207) at org.quartz.simpl.SimpleThreadPool$WorkerThread.run(SimpleThreadPool.java:560) Caused by: java.lang.IndexOutOfBoundsException: Index: 0, Size: 0 at java.util.ArrayList.rangeCheck(Unknown Source) at java.util.ArrayList.get(Unknown Source) at org.bahmni.feed.openelis.feed.event.EncounterFeedWorker$SampleItemTestCache.add(EncounterFeedWorker.java:543) at org.bahmni.feed.openelis.feed.event.EncounterFeedWorker.getSampleTestCollections(EncounterFeedWorker.java:393) at org.bahmni.feed.openelis.feed.event.EncounterFeedWorker.createSample(EncounterFeedWorker.java:238) at org.bahmni.feed.openelis.feed.event.EncounterFeedWorker.process(EncounterFeedWorker.java:181) at org.bahmni.feed.openelis.feed.event.EncounterFeedWorker.process(EncounterFeedWorker.java:163) at org.ict4h.atomfeed.client.service.AtomFeedClient$FailedEventProcessor.doInTransaction(AtomFeedClient.java:251) at org.ict4h.atomfeed.transaction.AFTransactionWorkWithoutResult.execute(AFTransactionWorkWithoutResult.java:6) at org.bahmni.feed.openelis.feed.transaction.support.AtomFeedHibernateTransactionManager.executeWithTransaction(AtomFeedHibernateTransactionManager.java:42) … 5 more

2

@ramses are you certain ,the source you’re fetching from contains data?

3

I’m not accessing any data source myself, I just installed bahmni with openMrs and openElis…

I see that an empty arraylist is being accessed and that this is a bug, but I’m not doing any development here…

4

@ramses have you considered the version compatibility,before anything else?

5

The main reason is the “test” or “panel” mentioned in the order was not found. I would try to dig deeper

  1. Find out for the given lab orders in the specified encounter (‘/openmrs/ws/rest/v1/bahmnicore/bahmniencounter/08a80620-1524-41e3-9eef-5db38dc26042?includeAll=true’)
  2. Check in OpenELIS whether the relevant test/panel is present.
  • find out the order relevant test/panel uuid
  • with that check postgres “clinlims” database whether the test is there.

select * from external_reference where external_id = <uuid of identified test/panel>

  1. If you find the test/panel not there, then you need to ensure that the test/panels are resynced first.
  • Maybe the test/panel sync failed before and hence the test/panel was not created.
  • One easy way to fix that is to just to OpenMRS concept dictionary, and save the test/panel again, which will raise an event for the test to be resynced. Ensure that the test is resynced to ELIS.
  • the failed event for the encounter might have stopped retrying. To fix that, identify the event in the clinlims.failed_events table, and reset the “retries” column to zero.
6

btw, Bahmni Apps has an atomfeed console, you can get some information from there as well, instead of having to login to the machine.