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docker install error: ghcr.io pull error #51
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The new ghcr based images were still set to private by accident, I just made them public. |
Dear milot-mirdita, Thank you for quick reply! (base) user@user:~/software/mmseqs2/2/mmseqs2-app/docker-compose$ docker-compose up
Starting docker-compose_mmseqs-web-redis_1 ... done
Starting docker-compose_mmseqs-web-api_1 ... done
Starting docker-compose_mmseqs-web-worker_1 ... done
Starting docker-compose_mmseqs-web-webserver_1 ... done
Attaching to docker-compose_mmseqs-web-redis_1, docker-compose_mmseqs-web-api_1, docker-compose_mmseqs-web-webserver_1, docker-compose_mmseqs-web-worker_1
mmseqs-web-webserver_1 | /docker-entrypoint.sh: /docker-entrypoint.d/ is not empty, will attempt to perform configuration
mmseqs-web-webserver_1 | /docker-entrypoint.sh: Looking for shell scripts in /docker-entrypoint.d/
mmseqs-web-webserver_1 | /docker-entrypoint.sh: Launching /docker-entrypoint.d/10-listen-on-ipv6-by-default.sh
mmseqs-web-webserver_1 | 10-listen-on-ipv6-by-default.sh: info: can not modify /etc/nginx/conf.d/default.conf (read-only file system?)
mmseqs-web-redis_1 | 1:C 07 Jul 2022 00:32:21.043 # oO0OoO0OoO0Oo Redis is starting oO0OoO0OoO0Oo
mmseqs-web-redis_1 | 1:C 07 Jul 2022 00:32:21.043 # Redis version=7.0.2, bits=64, commit=00000000, modified=0, pid=1, just started
mmseqs-web-redis_1 | 1:C 07 Jul 2022 00:32:21.043 # Warning: no config file specified, using the default config. In order to specify a config file use redis-server /path/to/redis.conf
mmseqs-web-webserver_1 | /docker-entrypoint.sh: Launching /docker-entrypoint.d/20-envsubst-on-templates.sh
mmseqs-web-webserver_1 | /docker-entrypoint.sh: Launching /docker-entrypoint.d/30-tune-worker-processes.sh
mmseqs-web-webserver_1 | /docker-entrypoint.sh: Configuration complete; ready for start up
mmseqs-web-redis_1 | 1:M 07 Jul 2022 00:32:21.044 * monotonic clock: POSIX clock_gettime
mmseqs-web-redis_1 | 1:M 07 Jul 2022 00:32:21.044 * Running mode=standalone, port=6379.
mmseqs-web-redis_1 | 1:M 07 Jul 2022 00:32:21.044 # Server initialized
mmseqs-web-worker_1 | 2022/07/07 00:32:21 MMseqs2 worker
mmseqs-web-redis_1 | 1:M 07 Jul 2022 00:32:21.045 * Loading RDB produced by version 7.0.2
mmseqs-web-redis_1 | 1:M 07 Jul 2022 00:32:21.045 * RDB age 5 seconds
mmseqs-web-redis_1 | 1:M 07 Jul 2022 00:32:21.045 * RDB memory usage when created 0.92 Mb
mmseqs-web-api_1 | 2022/07/07 00:32:21 MMseqs2 Webserver
mmseqs-web-redis_1 | 1:M 07 Jul 2022 00:32:21.045 * Done loading RDB, keys loaded: 1, keys expired: 0.
mmseqs-web-redis_1 | 1:M 07 Jul 2022 00:32:21.045 * DB loaded from disk: 0.000 seconds
mmseqs-web-redis_1 | 1:M 07 Jul 2022 00:32:21.045 * Ready to accept connections
mmseqs-web-api_1 | panic: Key: 'ParamsDisplayV1.Status' Error:Field validation for 'Status' failed on the 'required' tag
mmseqs-web-api_1 | Key: 'ParamsDisplayV1.Display.Name' Error:Field validation for 'Name' failed on the 'required' tag
mmseqs-web-api_1 | Key: 'ParamsDisplayV1.Display.Path' Error:Field validation for 'Path' failed on the 'required' tag
mmseqs-web-api_1 |
mmseqs-web-api_1 | goroutine 7 [running]:
mmseqs-web-api_1 | main.server.func1()
mmseqs-web-api_1 | /opt/build/server.go:33 +0x245
mmseqs-web-api_1 | created by main.server
mmseqs-web-api_1 | /opt/build/server.go:30 +0x110
docker-compose_mmseqs-web-api_1 exited with code 2
mmseqs-web-webserver_1 | 2022/07/07 00:32:21 [emerg] 1#1: host not found in upstream "mmseqs-web-api" in /etc/nginx/conf.d/default.conf:13
mmseqs-web-webserver_1 | nginx: [emerg] host not found in upstream "mmseqs-web-api" in /etc/nginx/conf.d/default.conf:13
docker-compose_mmseqs-web-webserver_1 exited with code 1 My computer environment
Thanks, |
Can you please execute and share the output here:
|
Dear Milot-mirdita, thank you very much for reply. it is here. (base) user@user:~/software/mmseqs2/2/mmseqs2-app/docker-compose$ ls databases/
pdb70_latest_msa pdb70_latest_msa.dbtype pdb70_latest_msa.index pdb70_latest.params
(base) user@user:~/software/mmseqs2/2/mmseqs2-app/docker-compose$ head databases/*.params
{
"name": "PDB70",
"version": "latest",
"default": true,
"order": 0,
"index": "-s 6",
"search": "-s 6"
}
I prepared for PDB70 database with "MMseqs2-App/docker-compose/examples/pdb70/setup.sh". Please feel free to contact me if you need further information. Thanks, |
Try replacing the content of the
Seems like i need to update the scripts in |
Dear milot-mirdita, Thank you for your great support! |
For the future, I added a new feature to make DB installation easier. You can run:
to list available databases and then
to download and setup the database. This should support all databases that are available in |
Dear developer and community,
First of all, thank you for your great scientific work.
When I wanted to install the docker version of the current version (the latest version on 2022/Jul/7), the following error message confused me after typing "docker-compose up" command.
so if you have a solution to solve this issue, please help your power.
Thanks,
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