Comments (6)
Thanks for reporting this issue. From the logs it is not clear what may have caused the container to be killed. Here are a few suggestions/questions to debug this:
-
It seems you have made some changes to the default config, for example you have provided both
fhirServerUrl
anddbConfig
in your config file. This should not cause any problems andfhirServerUrl
will be ignored as noted in the logs. But can you please make sure that you can reproduce this problem with default configs too? -
It seems there are zero
Encounter
resources in your FHIR server. This does not explain why the container is killed but I just realized that we get an exception in table creation step and filed #785 to handle it. But can you also removeEncountner
fromresourceList
config param and retry? -
Have you run all docker compose commands (both for
hapi-compose.yml
andcompose-controller-spark-sql-single.yaml
) from thedocker/
directory? -
Can you try
compose-controller-spark-sql-released.yaml
too and see if you can reproduce the problem? The difference is that in that file we use the released version of the pipeline-controller image (instead of creating one from the local source).
from fhir-data-pipes.
Thanks @bashir2 for the suggestions, here are my feedback
- i have tried to clear all changes i had locally and spin up the docker containers, i am still facing the same error
- I have removed
Encounter
inpipelines/controller/src/main/resources/application.yaml
resourceList but still the error appears
I am yet to try 3 & 4. I will do that on Monday or perhaps delete all docker containers and start again fresh
from fhir-data-pipes.
Related Issues (20)
- Setup Sonar for developers to identify bugs through static code analysis
- Sonar detected bugs on metrics package of pipeline-controller HOT 1
- Fix Code smells in pipeline-controller
- Investigate Cloud Build flakiness because of dockerised pipeline runs HOT 4
- compose-controller-spark-sql-single.yaml fails to launch HOT 2
- Remove `hiveJdbcDriver` configuration property and unify driver loading
- New recurring Thrift server errors HOT 3
- Upgrade HAPI FHIR version
- Fix issues with `compose-controller-spark-sql-single.yaml` HOT 6
- Do not display the `View Raw Logs` button in case of no logs
- In the HAPI JDBC mode, when resources are created with PUT, resource Id's mismatch between the original FHIR resource and the corresponding resource in the parquet file. HOT 4
- Missing extension in the parquet file compared to source FHIR resource. HOT 7
- How to handle DataFormatException while parsing JSON encoded FHIR content HOT 1
- Make recursive depth of Bunsen a configuration parameter. HOT 1
- The `answer` fields are dropped in QuestionnaireResponse due to recursive structure.
- Unable to create Individual columns of nested array of objects in a dataframe HOT 9
- Investigate high memory utilisation for the pipeline controller and provide configurations to control them HOT 6
- Cannot override fhirServerUserName or fhirServerPassword as it keeps defaulting HOT 6
- Gracefully handle resource types with no instances in the FHIR server. HOT 1
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