MongoDB docker - Error initializing docker if folder is not empty - mongodb

Question

I am using below docker compose file and using docker compose up command to run this container
I want the data of Mongo to persist
Note: I am using Docker Desktop on Windows 10, Version is same in both runs, Disk has permission (the first run is successful)
version: '3.7'
services:
mongodb_dev:
image: 'mongo:5.0.9'
container_name: 'mongo_example'
environment:
MONGO_INITDB_ROOT_USERNAME: ankit
MONGO_INITDB_ROOT_PASSWORD: password1234
MONGO_INITDB_DATABASE: testdb
ports:
- 27017:27017
volumes:
- ./init-mongo.js:/docker-entrypoint-initdb.d/init-mongo-js:ro
- c:\mongo_data:/data/db
Operation is successful if c:\mongo_data folder is empty but once mongo puts in files and I restart the container it gives me below error
{"t":{"$date":"2022-06-21T14:30:42.551+00:00"},"s":"I", "c":"CONTROL", "id":23285, "ctx":"-","msg":"Automatically disabling TLS 1.0, to force-enable TLS 1.0 specify --sslDisabledProtocols 'none'"}
{"t":{"$date":"2022-06-21T14:30:42.553+00:00"},"s":"I", "c":"NETWORK", "id":4915701, "ctx":"-","msg":"Initialized wire specification","attr":{"spec":{"incomingExternalClient":{"minWireVersion":0,"maxWireVersion":13},"incomingInternalClient":{"minWireVersion":0,"maxWireVersion":13},"outgoing":{"minWireVersion":0,"maxWireVersion":13},"isInternalClient":true}}}
{"t":{"$date":"2022-06-21T14:30:42.553+00:00"},"s":"W", "c":"ASIO", "id":22601, "ctx":"main","msg":"No TransportLayer configured during NetworkInterface startup"}
{"t":{"$date":"2022-06-21T14:30:42.553+00:00"},"s":"I", "c":"NETWORK", "id":4648601, "ctx":"main","msg":"Implicit TCP FastOpen unavailable. If TCP FastOpen is required, set tcpFastOpenServer, tcpFastOpenClient, and tcpFastOpenQueueSize."}
{"t":{"$date":"2022-06-21T14:30:42.555+00:00"},"s":"W", "c":"ASIO", "id":22601, "ctx":"main","msg":"No TransportLayer configured during NetworkInterface startup"}
{"t":{"$date":"2022-06-21T14:30:42.555+00:00"},"s":"I", "c":"REPL", "id":5123008, "ctx":"main","msg":"Successfully registered PrimaryOnlyService","attr":{"service":"TenantMigrationDonorService","ns":"config.tenantMigrationDonors"}}
{"t":{"$date":"2022-06-21T14:30:42.555+00:00"},"s":"I", "c":"REPL", "id":5123008, "ctx":"main","msg":"Successfully registered PrimaryOnlyService","attr":{"service":"TenantMigrationRecipientService","ns":"config.tenantMigrationRecipients"}}
{"t":{"$date":"2022-06-21T14:30:42.555+00:00"},"s":"I", "c":"CONTROL", "id":5945603, "ctx":"main","msg":"Multi threading initialized"}
{"t":{"$date":"2022-06-21T14:30:42.556+00:00"},"s":"I", "c":"CONTROL", "id":4615611, "ctx":"initandlisten","msg":"MongoDB starting","attr":{"pid":1,"port":27017,"dbPath":"/data/db","architecture":"64-bit","host":"9c35105d0bbc"}}
{"t":{"$date":"2022-06-21T14:30:42.556+00:00"},"s":"I", "c":"CONTROL", "id":23403, "ctx":"initandlisten","msg":"Build Info","attr":{"buildInfo":{"version":"5.0.9","gitVersion":"6f7dae919422dcd7f4892c10ff20cdc721ad00e6","openSSLVersion":"OpenSSL 1.1.1f 31 Mar 2020","modules":[],"allocator":"tcmalloc","environment":{"distmod":"ubuntu2004","distarch":"x86_64","target_arch":"x86_64"}}}}
{"t":{"$date":"2022-06-21T14:30:42.556+00:00"},"s":"I", "c":"CONTROL", "id":51765, "ctx":"initandlisten","msg":"Operating System","attr":{"os":{"name":"Ubuntu","version":"20.04"}}}
{"t":{"$date":"2022-06-21T14:30:42.556+00:00"},"s":"I", "c":"CONTROL", "id":21951, "ctx":"initandlisten","msg":"Options set by command line","attr":{"options":{"net":{"bindIp":"*"},"security":{"authorization":"enabled"}}}}
{"t":{"$date":"2022-06-21T14:30:42.571+00:00"},"s":"I", "c":"STORAGE", "id":22270, "ctx":"initandlisten","msg":"Storage engine to use detected by data files","attr":{"dbpath":"/data/db","storageEngine":"wiredTiger"}}
{"t":{"$date":"2022-06-21T14:30:42.581+00:00"},"s":"I", "c":"STORAGE", "id":22315, "ctx":"initandlisten","msg":"Opening WiredTiger","attr":{"config":"create,cache_size=480M,session_max=33000,eviction=(threads_min=4,threads_max=4),config_base=false,statistics=(fast),log=(enabled=true,archive=true,path=journal,compressor=snappy),builtin_extension_config=(zstd=(compression_level=6)),file_manager=(close_idle_time=600,close_scan_interval=10,close_handle_minimum=250),statistics_log=(wait=0),verbose=[recovery_progress,checkpoint_progress,compact_progress],"}}
{"t":{"$date":"2022-06-21T14:30:43.127+00:00"},"s":"E", "c":"STORAGE", "id":22435, "ctx":"initandlisten","msg":"WiredTiger error","attr":{"error":1,"message":"[1655821843:127036][1:0x7f01f90c4c80], file:WiredTiger.wt, connection: __posix_open_file, 808: /data/db/WiredTiger.wt: handle-open: open: Operation not permitted"}}
{"t":{"$date":"2022-06-21T14:30:43.208+00:00"},"s":"E", "c":"STORAGE", "id":22435, "ctx":"initandlisten","msg":"WiredTiger error","attr":{"error":1,"message":"[1655821843:208300][1:0x7f01f90c4c80], file:WiredTiger.wt, connection: __posix_open_file, 808: /data/db/WiredTiger.wt: handle-open: open: Operation not permitted"}}
{"t":{"$date":"2022-06-21T14:30:43.283+00:00"},"s":"E", "c":"STORAGE", "id":22435, "ctx":"initandlisten","msg":"WiredTiger error","attr":{"error":1,"message":"[1655821843:283775][1:0x7f01f90c4c80], file:WiredTiger.wt, connection: __posix_open_file, 808: /data/db/WiredTiger.wt: handle-open: open: Operation not permitted"}}
{"t":{"$date":"2022-06-21T14:30:43.287+00:00"},"s":"W", "c":"STORAGE", "id":22347, "ctx":"initandlisten","msg":"Failed to start up WiredTiger under any compatibility version. This may be due to an unsupported upgrade or downgrade."}
{"t":{"$date":"2022-06-21T14:30:43.287+00:00"},"s":"F", "c":"STORAGE", "id":28595, "ctx":"initandlisten","msg":"Terminating.","attr":{"reason":"1: Operation not permitted"}}
{"t":{"$date":"2022-06-21T14:30:43.287+00:00"},"s":"F", "c":"-", "id":23091, "ctx":"initandlisten","msg":"Fatal assertion","attr":{"msgid":28595,"file":"src/mongo/db/storage/wiredtiger/wiredtiger_kv_engine.cpp","line":687}}
{"t":{"$date":"2022-06-21T14:30:43.287+00:00"},"s":"F", "c":"-", "id":23092, "ctx":"initandlisten","msg":"\n\n***aborting after fassert() failure\n\n"}
Code of init-mongo.js
db.createUser(
{
user: "myuser",
pwd: "strongpassword",
roles: [ "readWrite", "dbAdmin" ]
}
)

Answer 1

This is Permission issue for the location C:\mongo_data.
If I remember right, go to C:\\ -> Right Click on mongo_data -> Properties -> Permissions give them read and write permissions.
This should solve your problem.

Answer 2

I have run your compose file content with a dummy init script file.
Docker had no problem starting the server. I have tested first with pre-created folder on D drive, and then with no matching folder on C drive. docker created data folder on C itself. I have also created that folder as admin, there still no problem occured.
I could not replicate your issue with the information you gave. So the problem is not with the compose content you gave above.
I suggest you first check your init script content to see if it can break anything, then other service definitions in your compose file. if possible give them both here so we can test more.
PS: It was even interesting to see that if I somehow try to start the server from two different consoles, the one I started later will just attach itself to the already started container.