how to pass output of a command to another in shell script - docker

I am trying to ssh into server, and into a docker container to run the service. however I am not able to store containerId into a variable to pass it to enter the container.
#!/bin/bash
ssh test_server << EOF
ls
sudo docker ps | grep 'tests_service_image' | colrm 13 # This command works
containerId=$(sudo docker ps | grep 'tests_service_image' | colrm 13) # This doesn't
sudo docker exec -i "$containerId" bash # Throws error since containerId is empty
./run.sh
EOF
exit

The problem is that you are doing variable/function expansions on your own side. You need to escape those so that those expansions happen on the server side.
#!/bin/sh
ssh test_server << EOF
containerId=\$(sudo docker ps | grep 'tests_service_image' | colrm 13)
sudo docker exec -i "\$containerId" bash
./run.sh
EOF
exit

Edit:
Pass it directly to docker exec command like so
sudo docker exec -i $(sudo docker ps | grep 'tests_service_image' | colrm 13) bash
Original Answer:
This is written assuming that the script execution is done post sshing into the server. but modified the answer to above based on the specific query
container ID is stored in variable containerId, you are getting the error Error: No such container: because you are passing a different variable $container instead of $containerId to docker exec command.

Related

how to identify if any applications inside docker container as running as root

We use a lot of 3rd party images [Eg: gitlab , jenkins, centos7 ..] which we run inside our docker containers. I would like to know how to check if any of the applications running in the container is run as root user. Is it the same as checking on a normal server ps -elf|grep root but inside the container.
Running Containers
To get all processes and their UIDs inside your running containers on a host, you can do the following:
for c in $(docker ps -q); do docker inspect $c -f "{{ .Name }}:"; docker top $c | awk '{print $1, $2, $8}'; echo "--------------"; done
This will print something like
/webserver-dockerized_nginx_1:
UID PID CMD
root 13437 nginx:
systemd+ 13522 nginx:
systemd+ 13526 nginx:
systemd+ 13527 nginx:
systemd+ 13528 nginx:
--------------
for all containers you have running.
Images
To get the configured users for all images on a host you can do
docker image inspect $(docker image ls -q) -f "{{ .RepoTags }}: {{ .ContainerConfig.User }} {{ .Config.User }}"
This will output something like
[nginx:mainline-alpine]:
[memcached:alpine]: memcache memcache
[redis:5-alpine]:
As Marvin mentioned: If there is no user in the output, no USER was defined in the Dockerfile, thus the container will run as root (Reference: Docker Documentation)
You can attach the terminal to your running container and once you're inside you can run the ps command:
Attaching to the container
$ docker exec -it <container_id> /bin/bash
You can read more about docker exec in the official docs site: https://docs.docker.com/engine/reference/commandline/exec/
Hope it helps!
You could use docker top command in association with the process id...
Combining "docker ps" and "docker top" could make the thing..
You could do stg like that :
docker ps | perl -ne '#cols = split /\s{2,}/, $_; printf "%15s\n", $cols[0]' > tmp.txt && tail -n $(($(wc -l < tmp.txt)-1)) tmp.txt | xargs -L1 docker top | perl -ne '#cols = split /\s{2,}/, $_; printf "%15s %65s\n", $cols[0], $cols[7]' && rm tmp.txt
That's not a perfect answer ((ould be prettyfied), and also note that it only works for running container. It'd be safer to check this from a image point of view, before you run the container.
Then, every time you get an image, just check this way :
d image inspect <image id> | grep -i user
I might be wrong, but I think no user means root. Otherwise, you will have to analyse the output there.

How can I grep a process in BusyBox using ps

I am getting below error in jenkins pipeline when I try to run ps -ef|grep process command:
ps: unrecognized option: p
BusyBox v1.27.2 (2017-12-12 10:41:50 GMT) multi-call binary.
Usage: ps [-o COL1,COL2=HEADER]
Show list of processes
-o COL1,COL2=HEADER Select columns for displayI have Jenkins version 2.135 and
I have BusyBox v1.27.2
Can some one tell me how can I avoid this error for ps -ef|grep process without installing the alpine image
You can use
docker exec -it container_name ps -ef | grep process
or you can do ps -ef | grep process into your container by running docker exec -it container_name /bin/bash

Piped command is failing inside docker container

I'm executing this command from docker host which is finally not giving me any error on stdout. And completes successfully on prompt but doesn't executes what it is supposed to do inside container.
Can someone please help me identify what am i doing wrong?
docker exec -dt SPSSC /bin/bash -c "grep -ril 'LOCALIZATION_ENABLED="false"' /opt/tpa/confd/config/* | grep -v 'diameter' | xargs sed -i 's/LOCALIZATION_ENABLED="false"/LOCALIZATION_ENABLED="true"/g'"

Running `bash` using docker exec with xargs command

I've been trying to execute bash on running docker container which has specific name as follows. --(1)
docker ps | grep somename | awk '{print $1 " bash"}' | xargs -I'{}' docker exec -it '{}'
but it didn't work and it shows a message like
"docker exec" requires at least 2 argument(s)
when I tried using command as follows --(2)
docker ps | grep somename | awk '{print $1 " bash"}' | xargs docker exec -it
it shows another error messages like
the input device is not a TTY
But when I tried using $() (sub shell) then it can be accomplished but I cannot understand why it does not work with the two codes (1)(2) above (using xargs)
Could any body explain why those happen?
I really appreciate any help you can provide in advance =)
EDIT 1:
I know how to accomplish my goal in other way like
docker exec -it $(docker ps | grep perf | awk '{print $1 " bash"}' )
But I'm just curious about why those codes are not working =)
First question
"docker exec" requires at least 2 argument(s)
In last pipe command, standard input of xargs is, for example, 42a9903486f2 bash. And you used xargs with -I (replace string) option.
So, docker recognizes that 42a9903486f2 bash is a first argument, without 2nd argument.
Below example perhaps is the what you expected.
docker ps | grep somename | awk '{print $1 " bash"}' | xargs bash -c 'docker exec -it $0 $1'
Second question
the input device is not a TTY
xargs excutes command on new child process. So you need to reopen stdin to child process for interactive communication. (MacOS: -o option)
docker ps | grep somename | awk '{print $1 " bash"}' | xargs -o docker exec -it
This worked for me:
sudo docker ps -q | xargs -I'{}' docker exec -t {} du -hs /tmp/
The exec command you run is something like this:
docker exec -it 'a1b2c3d4 bash'
And that is only one argument, not two. You need to remove the quotes around the argument to docker exec.
... | xargs -I'{}' docker exec -it {}
Then you will exec properly with two arguments.
docker exec -it a1b2c3d4 bash
------ ---
first arg ^ ^ second arg

execute a command within docker swarm service

Initialize swarm mode:
root#ip-172-31-44-207:/home/ubuntu# docker swarm init --advertise-addr 172.31.44.207
Swarm initialized: current node (4mj61oxcc8ulbwd7zedxnz6ce) is now a manager.
To add a worker to this swarm, run the following command:
Join the second node:
docker swarm join \
--token SWMTKN-1-4xvddif3wf8tpzcg23tem3zlncth8460srbm7qtyx5qk3ton55-6g05kuek1jhs170d8fub83vs5 \
172.31.44.207:2377
To add a manager to this swarm, run 'docker swarm join-token manager' and follow the instructions.
# start 2 services
docker service create continuumio/miniconda3
docker service create --name redis redis:3.0.6
root#ip-172-31-44-207:/home/ubuntu# docker service ls
ID NAME REPLICAS IMAGE COMMAND
2yc1xjmita67 miniconda3 0/1 continuumio/miniconda3
c3ptcf2q9zv2 redis 1/1 redis:3.0.6
As shown above, redis has it's replica while miniconda does not seem to be replicated.
I do usually log-in to miniconda container to type these commands:
/opt/conda/bin/conda install jupyter -y --quiet && mkdir /opt/notebooks && /opt/conda/bin/jupyter notebook --notebook-dir=/opt/notebooks --ip='*' --port=8888 --no-browser
The problem is that docker exec -it XXX bash command does not work with swarm mode.
You can execute commands by filtering container name without needing to pass the entire swarm container hash, just by the service name. Like this:
docker exec $(docker ps -q -f name=servicename) ls
There is one liner for accessing corresponding instance of the service for localhost:
docker exec -ti stack_myservice.1.$(docker service ps -f 'name=stack_myservice.1' stack_myservice -q --no-trunc | head -n1) /bin/bash
It is tested on PowerShell, but bash should be the same. The oneliner accesses the first instance, but replace '1' with the number of the instance you want to access in two places to get other one.
More complex example is for distributed case:
#! /bin/bash
set -e
exec_task=$1
exec_instance=$2
strindex() {
x="${1%%$2*}"
[[ "$x" = "$1" ]] && echo -1 || echo "${#x}"
}
parse_node() {
read title
id_start=0
name_start=`strindex "$title" NAME`
image_start=`strindex "$title" IMAGE`
node_start=`strindex "$title" NODE`
dstate_start=`strindex "$title" DESIRED`
id_length=name_start
name_length=`expr $image_start - $name_start`
node_length=`expr $dstate_start - $node_start`
read line
id=${line:$id_start:$id_length}
name=${line:$name_start:$name_length}
name=$(echo $name)
node=${line:$node_start:$node_length}
echo $name.$id
echo $node
}
if true; then
read fn
docker_fullname=$fn
read nn
docker_node=$nn
fi < <( docker service ps -f name=$exec_task.$exec_instance --no-trunc -f desired-state=running $exec_task | parse_node )
echo "Executing in $docker_node $docker_fullname"
eval `docker-machine env $docker_node`
docker exec -ti $docker_fullname /bin/bash
This script could be used later as:
swarm_bash stack_task 1
It just execute bash on required node.
EDIT 2017-10-06:
Nowadays you can create the overlay network with --attachable flag to enable any container to join the network. This is great feature as it allows a lot of flexibility.
E.g.
$ docker network create --attachable --driver overlay my-network
$ docker service create --network my-network --name web --publish 80:80 nginx
$ docker run --network=my-network -ti alpine sh
(in alpine container) $ wget -qO- web
<!DOCTYPE html>
<html>
<head>
....
You are right, you cannot run docker exec on docker swarm mode service. But you can still find out, which node is running the container and then run exec directly on the container. E.g.
docker service ps miniconda3 # find out, which node is running the container
eval `docker-machine env <node name here>`
docker ps # find out the container id of miniconda
docker exec -it <container id here> sh
In your case you first have to find out, why service cannot get the miniconda container up. Maybe running docker service ps miniconda3 shows some helpful error messages..?
Using the Docker API
Right now, Docker does not provide an API like docker service exec or docker stack exec for this. But regarding this, there already exists two issues dealing with this functionality:
github.com - moby/moby - Docker service exec
github.com - docker/swarmkit - Support for executing into a task
(Regarding the first issue, for me, it was not directly clear that this issue deals with exactly this kind of functionality. But Exec for Swarm was closed and marked as duplicate of the Docker service exec issue.)
Using Docker daemon over HTTP
As mentioned by BMitch on run docker exec from swarm manager, you could also configure the Docker daemon to use HTTP and than connect to every node without the need of ssh. But you should protect this using TLS authentication which is already integrated into Docker. Afterwards you would be able to execute the docker exec like this:
docker --tlsverify --tlscacert=ca.pem --tlscert=cert.pem --tlskey=key.pem \
-H=$HOST:2376 exec $containerId $cmd
Using skopos-plugin-swarm-exec
There exists a github project which claims to solve the problem and provide the desired functionality binding the docker daemon:
docker run -v /var/run/docker.sock:/var/run/docker.sock \
datagridsys/skopos-plugin-swarm-exec \
task-exec <taskID> <command> [<arguments>...]
As far as I can see, this works by creating another container at same node where the container reside where the docker exec should by executed on. On this node this container mounts the docker daemon socket to be able to execute docker exec there locally.
For more information have a look at: skopos-plugin-swarm-exec
Using docker swarm helpers
There is also another project called docker swarm helpers which seems to be more or less a wrapper around ssh and docker exec.
Reference:
https://github.com/docker/swarmkit/issues/1895#issuecomment-302147604
https://github.com/docker/swarmkit/issues/1895#issuecomment-358925313
You can jump in a Swarm node and list the docker containers running using:
docker container ls
That will give you the container name in a format similar to: containername.1.q5k89uctyx27zmntkcfooh68f
You can then use the regular exec option to run commands on it:
docker container exec -it containername.1.q5k89uctyx27zmntkcfooh68f bash
created a small script for our docker swarm cluster.
this script takes 3 params. first is the service you want to connect to second the task you want to run this can be /bin/bash or any other process you want to run. Third is optional and will fill -c option for bash or sh
-n is optional to force it to connect to a node
it retrieves the node that runs the service and runs the command.
#! /bin/bash
set -e
task=${1}
service=$2
bash=$3
serviceID=$(sudo docker service ps -f name=$service -f desired-state=running $service -q --no-trunc |head -n1)
node=$(sudo docker service ps -f name=$service -f desired-state=running $service --format="{{.Node}}"| head -n1 )
sudo docker -H $node exec -it $service".1."$serviceID $bash -c "$task"
note: this requires the docker nodes to accept tcp connections by exposing docker on port 2375 on the worker nodes
For those who have multiple replicas and just want to run a command within any of them, here is another shortcut:
docker exec -it $(docker ps -q -f name=SERVICE_NAME | head -1) bash
I wrote script to exec command in docker swarm by service name. For example it can be used in cron. Also you can use bash pipelines and passes all params to docker exec command. But works only on same node where service started. I wish it could help someone
#!/bin/bash
# swarm-exec.sh
set -e
for ((i=1;i<=$#;i++)); do
val=${!i}
if [ ${val:0:1} != "-" ]; then
service_id=$(docker ps -q -f "name=$val");
if [[ $service_id == "" ]]; then
echo "Container $val not found!";
exit 1;
fi
docker exec ${#:1:$i-1} $service_id ${#:$i+1:$#};
exit 0;
fi
done
echo "Usage: $0 [OPTIONS] SERVICE_NAME COMMAND [ARG...]";
exit 1;
Example of using:
./swarm-exec.sh app_postgres pg_dump -Z 9 -F p -U postgres app > /backups/app.sql.gz
echo ls | ./swarm-exec.sh -i app /bin/bash
./swarm-exec.sh -it some_app /bin/bash
The simpliest command I found to docker exec into a swarm node (with a swarm manager at $SWARM_MANAGER_HOST) running the service $SERVICE_NAME (for example mystack_myservice) is the following:
SERVICE_JSON=$(ssh $SWARM_MANAGER_HOST "docker service ps $SERVICE_NAME --no-trunc --format '{{ json . }}' -f desired-state=running")
ssh -t $(echo $SERVICE_JSON | jq -r '.Node') "docker exec -it $(echo $SERVICE_JSON | jq -r '.Name').$(echo $SERVICE_JSON | jq -r '.ID') bash"
This asserts that you have ssh access to $SWARM_MANAGER_HOST as well as the swarm node currently running the service task.
This also asserts that you have jq installed (apt install jq), but if you can't or don't want to install it and you have python installed you can create the following alias (based on this answer):
alias jq="python3 -c 'import sys, json; print(json.load(sys.stdin)[sys.argv[2].partition(\".\")[-1]])'"
See addendum 2...
Example of a oneliner for entering the database my_db on node master:
DB_NODE_ID=master && docker exec -it $(docker ps -q -f name=$DB_NODE_ID) mysql my_db
In case you want to configure, say max_connections:
DB_NODE_ID=master && $(docker exec -it $(docker ps -q -f name=$DB_NODE_ID) mysql -e "SET GLOBAL max_connections = 1000") && docker exec -it $(docker ps -q -f name=$DB_NODE_ID) mysql my_db
This approach allows to enter all database nodes (e.g. slaves) just by setting the DB_NODE_ID variable accordingly.
Example for slave s2:
DB_NODE_ID=s2 && docker exec -it $(docker ps -q -f name=$DB_NODE_ID) mysql my_db
or
DB_NODE_ID=s2 && $(docker exec -it $(docker ps -q -f name=$DB_NODE_ID) mysql -e "SET GLOBAL max_connections = 1000") && docker exec -it $(docker ps -q -f name=$DB_NODE_ID) mysql my_db
Put this into your KiTTY or PuTTY configuration for master / s2 under Data/Command and you are set.
As an addendum:
The old, non swarm mode version reads simply
docker exec -it master mysql my_db
resp.
DB_ID=master && $(docker exec -it $DB_ID mysql -e "SET GLOBAL max_connections = 1000") && docker exec -it $DB_ID mysql tmp
Addendum 2:
As it turned out by example, the term docker ps -q -f name=$DB_NODE_ID may return wrong values under certain conditions.
The following approach works correctily:
docker ps -a | grep "_$DB_NODE_ID." | awk '{print $1}'
You may substitute the examples above accordingly.
Addendum 3:
Well, these terms look awful and they certainly are painful to type, so you may want to ease your work. On Linux, everybody knows how to do this. On Windws, you may want to use AHK.
This is the AHK term I use:
:*:ii::DB_NODE_ID=$(docker ps -a | grep "_." | awk '{{}print $1{}}') && docker exec -it $id ash{Left 49}
So when I type ii -- which is as simple as it can get -- I get the desired term with the cursor in place and just have to fill in the container name.
I edited the script Brian van Rooijen added above. Because my reputation is to low, I cannot add it
#! /bin/bash
set -e
service=${1}
shift
task="$*"
echo $task
serviceID=$(docker service ps -f name=$service -f desired-state=running $service -q --no-trunc |head -n1)
node=$(docker service ps -f name=$service -f desired-state=running $service --format="{{.Node}}"| head -n1 )
serviceName=$(docker service ps -f name=$service -f desired-state=running $service --format="{{.Name}}"| head -n1 )
docker -H $node exec -it $serviceName"."$serviceID $task
I had the issue that the container didn't exists with the hard coded .1. in the execution.
Take a look at my solution: https://github.com/binbrayer/swarmServiceExec.
This approach is based on Docker Machines. I also created the prototype of the script to call containers asynchronously and as a result simultaneously.

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