How can I repair mongodb after changing dbPath? - mongodb

Question

I have a following problem.
I have changed the path where I want to store my NOSQL db using sudo joe /etc/mongod.conf
mongod.conf is now:
# mongod.conf
# for documentation of all options, see:
# http://docs.mongodb.org/manual/reference/configuration-options/
# Where and how to store data.
storage:
dbPath: /home/vojtam/disk/mongodb
journal:
enabled: true
# engine:
# mmapv1:
# wiredTiger:
# where to write logging data.
systemLog:
destination: file
logAppend: true
path: /var/log/mongodb/mongod.log
# network interfaces
net:
port: 27017
bindIp: 127.0.0.1
# how the process runs
processManagement:
timeZoneInfo: /usr/share/zoneinfo
#security:
#operationProfiling:
#replication:
#sharding:
## Enterprise-Only Options:
#auditLog:
#snmp:
I want to run sudo systemctl start mongod.service and sudo systemctl status mongod I got
● mongod.service - MongoDB Database Server
Loaded: loaded (/lib/systemd/system/mongod.service; enabled; vendor preset: enabled)
Active: failed (Result: exit-code) since Mon 2022-03-07 14:02:23 CET; 10s ago
Docs: https://docs.mongodb.org/manual
Process: 3013 ExecStart=/usr/bin/mongod --config /etc/mongod.conf (code=exited, status=100)
Main PID: 3013 (code=exited, status=100)
bře 07 14:02:23 prace systemd[1]: Started MongoDB Database Server.
bře 07 14:02:23 prace systemd[1]: mongod.service: Main process exited, code=exited, status=100/n/a
bře 07 14:02:23 prace systemd[1]: mongod.service: Failed with result 'exit-code'.
I followed the advice here: Mongod Service start exits with code 100 and I tried:
rm /var/lib/mongodb/mongod.lock but there is not such file.
Can you help me please?
EDIT:
Here is my mongod.log:
{"t":{"$date":"2022-03-07T14:55:15.563+01:00"},"s":"I", "c":"CONTROL", "id":20698, "ctx":"main","msg":"***** SERVER RESTARTED *****"}
{"t":{"$date":"2022-03-07T14:55:15.566+01:00"},"s":"I", "c":"CONTROL", "id":23285, "ctx":"main","msg":"Automatically disabling TLS 1.0, to force-enable TLS 1.0 specify --sslDisabledProtocols 'none'"}
{"t":{"$date":"2022-03-07T14:55:15.576+01:00"},"s":"W", "c":"ASIO", "id":22601, "ctx":"main","msg":"No TransportLayer configured during NetworkInterface startup"}
{"t":{"$date":"2022-03-07T14:55:15.576+01:00"},"s":"I", "c":"NETWORK", "id":4648601, "ctx":"main","msg":"Implicit TCP FastOpen unavailable. If TCP FastOpen is required, set tcpFastOpenServer, tcpFastOpenClient, and tcpFastOpenQueueSize."}
{"t":{"$date":"2022-03-07T14:55:15.576+01:00"},"s":"I", "c":"STORAGE", "id":4615611, "ctx":"initandlisten","msg":"MongoDB starting","attr":{"pid":5332,"port":27017,"dbPath":"/home/vojtam/disk/mongodb","architecture":"64-bit","host":"prace"}}
{"t":{"$date":"2022-03-07T14:55:15.576+01:00"},"s":"I", "c":"CONTROL", "id":23403, "ctx":"initandlisten","msg":"Build Info","attr":{"buildInfo":{"version":"4.4.12","gitVersion":"51475a8c4d9856eb1461137e7539a0a763cc85dc","openSSLVersion":"OpenSSL 1.1.1f 31 Mar 2020","modules":[],"allocator":"tcmalloc","environment":{"distmod":"ubuntu1804","distarch":"x86_64","target_arch":"x86_64"}}}}
{"t":{"$date":"2022-03-07T14:55:15.576+01:00"},"s":"I", "c":"CONTROL", "id":51765, "ctx":"initandlisten","msg":"Operating System","attr":{"os":{"name":"Ubuntu","version":"20.04"}}}
{"t":{"$date":"2022-03-07T14:55:15.576+01:00"},"s":"I", "c":"CONTROL", "id":21951, "ctx":"initandlisten","msg":"Options set by command line","attr":{"options":{"config":"/etc/mongod.conf","net":{"bindIp":"127.0.0.1","port":27017},"processManagement":{"timeZoneInfo":"/usr/share/zoneinfo"},"storage":{"dbPath":"/home/vojtam/disk/mongodb","journal":{"enabled":true}},"systemLog":{"destination":"file","logAppend":true,"path":"/var/log/mongodb/mongod.log"}}}}
{"t":{"$date":"2022-03-07T14:55:15.578+01:00"},"s":"E", "c":"STORAGE", "id":20557, "ctx":"initandlisten","msg":"DBException in initAndListen, terminating","attr":{"error":"IllegalOperation: Attempted to create a lock file on a read-only directory: /home/vojtam/disk/mongodb"}}
{"t":{"$date":"2022-03-07T14:55:15.578+01:00"},"s":"I", "c":"REPL", "id":4784900, "ctx":"initandlisten","msg":"Stepping down the ReplicationCoordinator for shutdown","attr":{"waitTimeMillis":10000}}
{"t":{"$date":"2022-03-07T14:55:15.578+01:00"},"s":"I", "c":"COMMAND", "id":4784901, "ctx":"initandlisten","msg":"Shutting down the MirrorMaestro"}
{"t":{"$date":"2022-03-07T14:55:15.578+01:00"},"s":"I", "c":"SHARDING", "id":4784902, "ctx":"initandlisten","msg":"Shutting down the WaitForMajorityService"}
{"t":{"$date":"2022-03-07T14:55:15.578+01:00"},"s":"I", "c":"NETWORK", "id":20562, "ctx":"initandlisten","msg":"Shutdown: going to close listening sockets"}
{"t":{"$date":"2022-03-07T14:55:15.578+01:00"},"s":"I", "c":"NETWORK", "id":4784905, "ctx":"initandlisten","msg":"Shutting down the global connection pool"}
{"t":{"$date":"2022-03-07T14:55:15.578+01:00"},"s":"I", "c":"STORAGE", "id":4784906, "ctx":"initandlisten","msg":"Shutting down the FlowControlTicketholder"}
{"t":{"$date":"2022-03-07T14:55:15.578+01:00"},"s":"I", "c":"-", "id":20520, "ctx":"initandlisten","msg":"Stopping further Flow Control ticket acquisitions."}
{"t":{"$date":"2022-03-07T14:55:15.578+01:00"},"s":"I", "c":"NETWORK", "id":4784918, "ctx":"initandlisten","msg":"Shutting down the ReplicaSetMonitor"}
{"t":{"$date":"2022-03-07T14:55:15.578+01:00"},"s":"I", "c":"SHARDING", "id":4784921, "ctx":"initandlisten","msg":"Shutting down the MigrationUtilExecutor"}
{"t":{"$date":"2022-03-07T14:55:15.578+01:00"},"s":"I", "c":"CONTROL", "id":4784925, "ctx":"initandlisten","msg":"Shutting down free monitoring"}
{"t":{"$date":"2022-03-07T14:55:15.578+01:00"},"s":"I", "c":"STORAGE", "id":4784927, "ctx":"initandlisten","msg":"Shutting down the HealthLog"}
{"t":{"$date":"2022-03-07T14:55:15.578+01:00"},"s":"I", "c":"STORAGE", "id":4784929, "ctx":"initandlisten","msg":"Acquiring the global lock for shutdown"}
{"t":{"$date":"2022-03-07T14:55:15.578+01:00"},"s":"I", "c":"-", "id":4784931, "ctx":"initandlisten","msg":"Dropping the scope cache for shutdown"}
{"t":{"$date":"2022-03-07T14:55:15.578+01:00"},"s":"I", "c":"FTDC", "id":4784926, "ctx":"initandlisten","msg":"Shutting down full-time data capture"}
{"t":{"$date":"2022-03-07T14:55:15.578+01:00"},"s":"I", "c":"CONTROL", "id":20565, "ctx":"initandlisten","msg":"Now exiting"}
{"t":{"$date":"2022-03-07T14:55:15.578+01:00"},"s":"I", "c":"CONTROL", "id":23138, "ctx":"initandlisten","msg":"Shutting down","attr":{"exitCode":100}}

Answer 1

You must grant write privileges to actual dbPath (in your case /home/vojtam/disk/mongodb) but also to all parent folders.
Home directories like /home/vojtam are usually accessible only for the owner, that's why they are called "home directory". The permissions of any sub-folder does not matter.
By default MongoDB process runs by user mongod, and typically a service is provided to any user of a system. Thus you should prefer a common folder for example /var/lib/mongo as used in defaults.