Docker elasticsearch container : FileSystemException : Not a directory

JackieLaFrite · April 18, 2023, 8:38am

I tried to modify the port the docker container of elasticsearch from 9200:9200 to 9201:9200 and since I did that I got this error in the docker container :

 "message": "uncaught exception in thread [main]",
"stacktrace": ["org.elasticsearch.bootstrap.StartupException: ElasticsearchException[failed to bind service]; nested: FileSystemException[/usr/share/elasticsearch/data/nodes/0: Not a directory];",
"at org.elasticsearch.bootstrap.Elasticsearch.init(Elasticsearch.java:171) ~[elasticsearch-7.15.2.jar:7.15.2]",
"at org.elasticsearch.bootstrap.Elasticsearch.execute(Elasticsearch.java:158) ~[elasticsearch-7.15.2.jar:7.15.2]",
"at org.elasticsearch.cli.EnvironmentAwareCommand.execute(EnvironmentAwareCommand.java:75) ~[elasticsearch-7.15.2.jar:7.15.2]",
"at org.elasticsearch.cli.Command.mainWithoutErrorHandling(Command.java:114) ~[elasticsearch-cli-7.15.2.jar:7.15.2]",
"at org.elasticsearch.cli.Command.main(Command.java:79) ~[elasticsearch-cli-7.15.2.jar:7.15.2]",
"at org.elasticsearch.bootstrap.Elasticsearch.main(Elasticsearch.java:123) ~[elasticsearch-7.15.2.jar:7.15.2]",
"at org.elasticsearch.bootstrap.Elasticsearch.main(Elasticsearch.java:81) ~[elasticsearch-7.15.2.jar:7.15.2]",
"Caused by: org.elasticsearch.ElasticsearchException: failed to bind service",
"at org.elasticsearch.node.Node.<init>(Node.java:825) ~[elasticsearch-7.15.2.jar:7.15.2]",
"at org.elasticsearch.node.Node.<init>(Node.java:288) ~[elasticsearch-7.15.2.jar:7.15.2]",
"at org.elasticsearch.bootstrap.Bootstrap$5.<init>(Bootstrap.java:219) ~[elasticsearch-7.15.2.jar:7.15.2]",
"at org.elasticsearch.bootstrap.Bootstrap.setup(Bootstrap.java:219) ~[elasticsearch-7.15.2.jar:7.15.2]",
"at org.elasticsearch.bootstrap.Bootstrap.init(Bootstrap.java:399) ~[elasticsearch-7.15.2.jar:7.15.2]",
"at org.elasticsearch.bootstrap.Elasticsearch.init(Elasticsearch.java:167) ~[elasticsearch-7.15.2.jar:7.15.2]",
"... 6 more",
"Caused by: java.nio.file.FileSystemException: /usr/share/elasticsearch/data/nodes/0: Not a directory",
"at sun.nio.fs.UnixException.translateToIOException(UnixException.java:100) ~[?:?]",
"at sun.nio.fs.UnixException.rethrowAsIOException(UnixException.java:106) ~[?:?]",
"at sun.nio.fs.UnixException.rethrowAsIOException(UnixException.java:111) ~[?:?]",
"at sun.nio.fs.UnixFileSystemProvider.createDirectory(UnixFileSystemProvider.java:398) ~[?:?]",
"at java.nio.file.Files.createDirectory(Files.java:700) ~[?:?]",
"at java.nio.file.Files.createAndCheckIsDirectory(Files.java:807) ~[?:?]",
"at java.nio.file.Files.createDirectories(Files.java:793) ~[?:?]",
"at org.elasticsearch.env.NodeEnvironment.lambda$new$0(NodeEnvironment.java:265) ~[elasticsearch-7.15.2.jar:7.15.2]",
"at org.elasticsearch.env.NodeEnvironment$NodeLock.<init>(NodeEnvironment.java:202) ~[elasticsearch-7.15.2.jar:7.15.2]",
"at org.elasticsearch.env.NodeEnvironment.<init>(NodeEnvironment.java:262) ~[elasticsearch-7.15.2.jar:7.15.2]",
"at org.elasticsearch.node.Node.<init>(Node.java:383) ~[elasticsearch-7.15.2.jar:7.15.2]",
"at org.elasticsearch.node.Node.<init>(Node.java:288) ~[elasticsearch-7.15.2.jar:7.15.2]",
"at org.elasticsearch.bootstrap.Bootstrap$5.<init>(Bootstrap.java:219) ~[elasticsearch-7.15.2.jar:7.15.2]",
"at org.elasticsearch.bootstrap.Bootstrap.setup(Bootstrap.java:219) ~[elasticsearch-7.15.2.jar:7.15.2]",
"at org.elasticsearch.bootstrap.Bootstrap.init(Bootstrap.java:399) ~[elasticsearch-7.15.2.jar:7.15.2]",
uncaught exception in thread [main]
"at org.elasticsearch.bootstrap.Elasticsearch.init(Elasticsearch.java:167) ~[elasticsearch-7.15.2.jar:7.15.2]",
"... 6 more"] }
ElasticsearchException[failed to bind service]; nested: FileSystemException[/usr/share/elasticsearch/data/nodes/0: Not a directory];
Likely root cause: java.nio.file.FileSystemException: /usr/share/elasticsearch/data/nodes/0: Not a directory
        at java.base/sun.nio.fs.UnixException.translateToIOException(UnixException.java:100)
        at java.base/sun.nio.fs.UnixException.rethrowAsIOException(UnixException.java:106)
        at java.base/sun.nio.fs.UnixException.rethrowAsIOException(UnixException.java:111)
        at java.base/sun.nio.fs.UnixFileSystemProvider.createDirectory(UnixFileSystemProvider.java:398)
        at java.base/java.nio.file.Files.createDirectory(Files.java:700)
        at java.base/java.nio.file.Files.createAndCheckIsDirectory(Files.java:807)
        at java.base/java.nio.file.Files.createDirectories(Files.java:793)
        at org.elasticsearch.env.NodeEnvironment.lambda$new$0(NodeEnvironment.java:265)
        at org.elasticsearch.env.NodeEnvironment$NodeLock.<init>(NodeEnvironment.java:202)
        at org.elasticsearch.env.NodeEnvironment.<init>(NodeEnvironment.java:262)
        at org.elasticsearch.node.Node.<init>(Node.java:383)
        at org.elasticsearch.node.Node.<init>(Node.java:288)
        at org.elasticsearch.bootstrap.Bootstrap$5.<init>(Bootstrap.java:219)
        at org.elasticsearch.bootstrap.Bootstrap.setup(Bootstrap.java:219)
        at org.elasticsearch.bootstrap.Bootstrap.init(Bootstrap.java:399)
        at org.elasticsearch.bootstrap.Elasticsearch.init(Elasticsearch.java:167)
        at org.elasticsearch.bootstrap.Elasticsearch.execute(Elasticsearch.java:158)
        at org.elasticsearch.cli.EnvironmentAwareCommand.execute(EnvironmentAwareCommand.java:75)
        at org.elasticsearch.cli.Command.mainWithoutErrorHandling(Command.java:114)
        at org.elasticsearch.cli.Command.main(Command.java:79)
        at org.elasticsearch.bootstrap.Elasticsearch.main(Elasticsearch.java:123)
        at org.elasticsearch.bootstrap.Elasticsearch.main(Elasticsearch.java:81)
For complete error details, refer to the log at /usr/share/elasticsearch/logs/docker-cluster.log

By the way, the error is still there even after changing back the port and recreating the docker container/images

Here is my docker compose :

version: '2'

services:
  elasticsearch:
    build:
      context: elasticsearch/
      args:
        ELK_VERSION: $ELK_VERSION
    volumes:
      - type: bind
        source: ./elasticsearch/config/elasticsearch.yml
        target: /usr/share/elasticsearch/config/elasticsearch.yml
        read_only: true
      - type: volume
        source: elasticsearch
        target: /usr/share/elasticsearch/data

    restart: unless-stopped
    ports:
      - "9200:9200"
      - "9300:9300"
    environment:
      ES_JAVA_OPTS: -Xms3G -Xmx3G
      ELASTIC_PASSWORD: changeme
      KIBANA_SYSTEM_PASSWORD: changeme
      discovery.type: single-node
    networks:
      - elk
    mem_limit: 4g

  logstash:
    build:
      context: logstash/
      args:
        ELK_VERSION: $ELK_VERSION
    volumes:
      - type: bind
        source: ./logstash/config/logstash.yml
        target: /usr/share/logstash/config/logstash.yml
        read_only: true
      - type: bind
        source: ./logstash/pipeline
        target: /usr/share/logstash/pipeline
        read_only: true

command: logstash -f /usr/share/logstash/pipeline/logstash.conf
    restart: unless-stopped
    ports:
      - "5044:5044"
      - "5000:5000/tcp"
      - "5000:5000/udp"
      - "9600:9600"
    environment:
      LS_JAVA_OPTS: "-Xmx4096m -Xms4096m"
    networks:
      - elk
    mem_limit: 4g
    depends_on:
      - elasticsearch

  kibana:
    build:
      context: kibana/
      args:
        ELK_VERSION: $ELK_VERSION
    volumes:
      - type: bind
        source: ./kibana/config/kibana.yml
        target: /usr/share/kibana/config/kibana.yml
        read_only: true
    restart: unless-stopped
    ports:
      - "5602:5601"
    networks:
      - elk
    mem_limit: 4g
    depends_on:
      - elasticsearch

networks:
  elk:
    driver: bridge

volumes:
  elasticsearch:

warkolm · April 18, 2023, 8:38am

You probably want target: /usr/share/elasticsearch instead

JackieLaFrite · April 18, 2023, 8:41am

I don't think because it was working before with /data and when I change it to target: /usr/share/elasticsearch

I got this when displaying the logs of my container

/usr/local/bin/docker-entrypoint.sh: line 49: /usr/share/elasticsearch/bin/elasticsearch-env-from-file: No such file or directory

JackieLaFrite · April 18, 2023, 1:27pm

Well I don't understand, everyone install it like I did but i'm the only one with this error, I can't find any information about it.

system · May 16, 2023, 1:27pm

This topic was automatically closed 28 days after the last reply. New replies are no longer allowed.

DavidTurner · June 16, 2023, 8:33am

Is this message accurate? I.e. is /usr/share/elasticsearch/data/nodes/0 a file and not a directory? If it's a file, what are its contents?