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Debugging Guide

How can I confirm if all Docker containers are running as expected after a quickstart?

If you set up the datahub CLI tool (see here), you can use the built-in check utility:

datahub docker check

You can list all Docker containers in your local by running docker container ls. You should expect to see a log similar to the below:

CONTAINER ID        IMAGE                                                 COMMAND                  CREATED             STATUS              PORTS                                                      NAMES
979830a342ce linkedin/datahub-mce-consumer:latest "bash -c 'while ping…" 10 hours ago Up 10 hours datahub-mce-consumer
3abfc72e205d linkedin/datahub-frontend-react:latest "datahub-frontend…" 10 hours ago Up 10 hours 0.0.0.0:9002->9002/tcp datahub-frontend
50b2308a8efd linkedin/datahub-mae-consumer:latest "bash -c 'while ping…" 10 hours ago Up 10 hours datahub-mae-consumer
4d6b03d77113 linkedin/datahub-gms:latest "bash -c 'dockerize …" 10 hours ago Up 10 hours 0.0.0.0:8080->8080/tcp datahub-gms
c267c287a235 landoop/schema-registry-ui:latest "/run.sh" 10 hours ago Up 10 hours 0.0.0.0:8000->8000/tcp schema-registry-ui
4b38899cc29a confluentinc/cp-schema-registry:5.2.1 "/etc/confluent/dock…" 10 hours ago Up 10 hours 0.0.0.0:8081->8081/tcp schema-registry
37c29781a263 confluentinc/cp-kafka:5.2.1 "/etc/confluent/dock…" 10 hours ago Up 10 hours 0.0.0.0:9092->9092/tcp, 0.0.0.0:29092->29092/tcp broker
15440d99a510 docker.elastic.co/kibana/kibana:5.6.8 "/bin/bash /usr/loca…" 10 hours ago Up 10 hours 0.0.0.0:5601->5601/tcp kibana
943e60f9b4d0 neo4j:4.0.6 "/sbin/tini -g -- /d…" 10 hours ago Up 10 hours 0.0.0.0:7474->7474/tcp, 7473/tcp, 0.0.0.0:7687->7687/tcp neo4j
6d79b6f02735 confluentinc/cp-zookeeper:5.2.1 "/etc/confluent/dock…" 10 hours ago Up 10 hours 2888/tcp, 0.0.0.0:2181->2181/tcp, 3888/tcp zookeeper
491d9f2b2e9e docker.elastic.co/elasticsearch/elasticsearch:5.6.8 "/bin/bash bin/es-do…" 10 hours ago Up 10 hours 0.0.0.0:9200->9200/tcp, 9300/tcp elasticsearch
ce14b9758eb3 mysql:5.7

Also you can check individual Docker container logs by running docker logs <<container_name>>. For datahub-gms, you should see a log similar to this at the end of the initialization:

2020-02-06 09:20:54.870:INFO:oejs.Server:main: Started @18807ms

For datahub-frontend-react, you should see a log similar to this at the end of the initialization:

09:20:22 [main] INFO  play.core.server.AkkaHttpServer - Listening for HTTP on /0.0.0.0:9002

My elasticsearch or broker container exited with error or was stuck forever

If you're seeing errors like below, chances are you didn't give enough resource to docker. Please make sure to allocate at least 8GB of RAM + 2GB swap space.

datahub-gms             | 2020/04/03 14:34:26 Problem with request: Get http://elasticsearch:9200: dial tcp 172.19.0.5:9200: connect: connection refused. Sleeping 1s
broker | [2020-04-03 14:34:42,398] INFO Client session timed out, have not heard from server in 6874ms for sessionid 0x10000023fa60002, closing socket connection and attempting reconnect (org.apache.zookeeper.ClientCnxn)
schema-registry | [2020-04-03 14:34:48,518] WARN Client session timed out, have not heard from server in 20459ms for sessionid 0x10000023fa60007 (org.apache.zookeeper.ClientCnxn)

How can I check if MXE Kafka topics are created?

You can use a utility like kafkacat to list all topics. You can run below command to see the Kafka topics created in your Kafka broker.

kafkacat -L -b localhost:9092

Confirm that MetadataChangeEvent, MetadataAuditEvent, MetadataChangeProposal_v1 and MetadataChangeLog_v1 topics exist besides the default ones.

How can I check if search indices are created in Elasticsearch?

You can run below command to see the search indices created in your Elasticsearch.

curl http://localhost:9200/_cat/indices

Confirm that datasetindex_v2 & corpuserindex_v2 indices exist besides the default ones. Example response as below:

yellow open dataset_datasetprofileaspect_v1         HnfYZgyvS9uPebEQDjA1jg 1 1   0  0   208b   208b
yellow open datajobindex_v2 A561PfNsSFmSg1SiR0Y0qQ 1 1 2 9 34.1kb 34.1kb
yellow open mlmodelindex_v2 WRJpdj2zT4ePLSAuEvFlyQ 1 1 1 12 24.2kb 24.2kb
yellow open dataflowindex_v2 FusYIc1VQE-5NaF12uS8dA 1 1 1 3 23.3kb 23.3kb
yellow open mlmodelgroupindex_v2 QOzAaVx7RJ2ovt-eC0hg1w 1 1 0 0 208b 208b
yellow open datahubpolicyindex_v2 luXfXRlSRoS2-S_tvfLjHA 1 1 0 0 208b 208b
yellow open corpuserindex_v2 gbNXtnIJTzqh3vHSZS0Fwg 1 1 2 2 18.4kb 18.4kb
yellow open dataprocessindex_v2 9fL_4iCNTLyFv8MkDc6nIg 1 1 0 0 208b 208b
yellow open chartindex_v2 wYKlG5ylQe2dVKHOaswTww 1 1 2 7 29.4kb 29.4kb
yellow open tagindex_v2 GBQSZEvuRy62kpnh2cu1-w 1 1 2 2 19.7kb 19.7kb
yellow open mlmodeldeploymentindex_v2 UWA2ltxrSDyev7Tmu5OLmQ 1 1 0 0 208b 208b
yellow open dashboardindex_v2 lUjGAVkRRbuwz2NOvMWfMg 1 1 1 0 9.4kb 9.4kb
yellow open .ds-datahub_usage_event-000001 Q6NZEv1UQ4asNHYRywxy3A 1 1 36 0 54.8kb 54.8kb
yellow open datasetindex_v2 bWE3mN7IRy2Uj0QzeCt1KQ 1 1 7 47 93.7kb 93.7kb
yellow open mlfeatureindex_v2 fvjML5xoQpy8oxPIwltm8A 1 1 20 39 59.3kb 59.3kb
yellow open dataplatformindex_v2 GihumZfvRo27vt9yRpoE_w 1 1 0 0 208b 208b
yellow open glossarynodeindex_v2 ABKeekWTQ2urPWfGDsS4NQ 1 1 1 1 18.1kb 18.1kb
yellow open graph_service_v1 k6q7xV8OTIaRIkCjrzdufA 1 1 116 25 77.1kb 77.1kb
yellow open system_metadata_service_v1 9-FKAqp7TY2hs3RQuAtVMw 1 1 303 0 55.9kb 55.9kb
yellow open schemafieldindex_v2 Mi_lqA-yQnKWSleKEXSWeg 1 1 0 0 208b 208b
yellow open mlfeaturetableindex_v2 pk98zrSOQhGr5gPYUQwvvQ 1 1 5 14 36.4kb 36.4kb
yellow open glossarytermindex_v2 NIyi3WWiT0SZr8PtECo0xQ 1 1 3 8 23.1kb 23.1kb
yellow open mlprimarykeyindex_v2 R1WFxD9sQiapIZcXnDtqMA 1 1 7 6 35.5kb 35.5kb
yellow open corpgroupindex_v2 AYxVtFAEQ02BsJdahYYvlA 1 1 2 1 13.3kb 13.3kb
yellow open dataset_datasetusagestatisticsaspect_v1 WqPpDCKZRLaMIcYAAkS_1Q 1 1 0 0 208b 208b

How can I check if data has been loaded into MySQL properly?

Once the mysql container is up and running, you should be able to connect to it directly on localhost:3306 using tools such as MySQL Workbench. You can also run the following command to invoke MySQL Command-Line Client inside the mysql container.

docker exec -it mysql /usr/bin/mysql datahub --user=datahub --password=datahub

Inspect the content of metadata_aspect_v2 table, which contains the ingested aspects for all entities.

Getting error while starting Docker containers

There can be different reasons why a container fails during initialization. Below are the most common reasons:

bind: address already in use

This error means that the network port (which is supposed to be used by the failed container) is already in use on your system. You need to find and kill the process which is using this specific port before starting the corresponding Docker container. If you don't want to kill the process which is using that port, another option is to change the port number for the Docker container. You need to find and change the ports parameter for the specific Docker container in the docker-compose.yml configuration file.

Example : On macOS

ERROR: for mysql Cannot start service mysql: driver failed programming external connectivity on endpoint mysql (5abc99513affe527299514cea433503c6ead9e2423eeb09f127f87e2045db2ca): Error starting userland proxy: listen tcp 0.0.0.0:3306: bind: address already in use

1) sudo lsof -i :3306
2) kill -15 <PID found in step1>

OCI runtime create failed

If you see an error message like below, please make sure to git update your local repo to HEAD.

ERROR: for datahub-mae-consumer  Cannot start service datahub-mae-consumer: OCI runtime create failed: container_linux.go:349: starting container process caused "exec: \"bash\": executable file not found in $PATH": unknown

failed to register layer: devmapper: Unknown device

This most means that you're out of disk space (see #1879).

ERROR: for kafka-rest-proxy Get https://registry-1.docker.io/v2/confluentinc/cp-kafka-rest/manifests/5.4.0: EOF

This is most likely a transient issue with Docker Registry. Retry again later.

toomanyrequests: too many failed login attempts for username or IP address

Try the following

rm ~/.docker/config.json
docker login

More discussions on the same issue https://github.com/docker/hub-feedback/issues/1250

Seeing Table 'datahub.metadata_aspect' doesn't exist error when logging in

This means the database wasn't properly initialized as part of the quickstart processs (see #1816). Please run the following command to manually initialize it.

docker exec -i mysql sh -c 'exec mysql datahub -udatahub -pdatahub' < docker/mysql/init.sql

I've messed up my docker setup. How do I start from scratch?

Run the following script to remove all the containers and volumes created during the quickstart tutorial. Note that you'll also lose all the data as a result.

./docker/nuke.sh

I'm seeing exceptions in DataHub GMS container like "Caused by: java.lang.IllegalStateException: Duplicate key com.linkedin.metadata.entity.ebean.EbeanAspectV2@dd26e011". What do I do?

This is related to a SQL column collation issue. The default collation we previously used (prior to Oct 26, 2021) for URN fields was case-insensitive (utf8mb4_unicode_ci). We've recently moved to deploying with a case-sensitive collation (utf8mb4_bin) by default. In order to update a deployment that was started before Oct 26, 2021 (v0.8.16 and below) to have the new collation, you must run this command against your SQL DB directly:

ALTER TABLE metadata_aspect_v2 CONVERT TO CHARACTER SET utf8mb4 COLLATE utf8mb4_bin;

I've modified the default user.props file to include a custom username and password, but I don't see the new user(s) inside the Users & Groups tab. Why not?

Currently, user.props is a file used by the JAAS PropertyFileLoginModule solely for the purpose of Authentication. The file is not used as an source from which to ingest additional metadata about the user. For that, you'll need to ingest some custom information about your new user using the Rest.li APIs or the File-based ingestion source.

For an example of a file that ingests user information, check out single_mce.json, which ingests a single user object into DataHub. Notice that the "urn" field provided will need to align with the custom username you've provided in user.props file. For example, if your user.props file contains:

my-custom-user:my-custom-password

You'll need to ingest some metadata of the following form to see it inside the DataHub UI:

{
"auditHeader": null,
"proposedSnapshot": {
"com.linkedin.pegasus2avro.metadata.snapshot.CorpUserSnapshot": {
"urn": "urn:li:corpuser:my-custom-user",
"aspects": [
{
"com.linkedin.pegasus2avro.identity.CorpUserInfo": {
"active": true,
"displayName": {
"string": "The name of the custom user"
},
"email": "my-custom-user-email@example.io",
"title": {
"string": "Engineer"
},
"managerUrn": null,
"departmentId": null,
"departmentName": null,
"firstName": null,
"lastName": null,
"fullName": {
"string": "My Custom User"
},
"countryCode": null
}
}
]
}
},
"proposedDelta": null
}