Docker has volume permission but docker-compose doesn't

General
1

I have installed Docker on an Amazon Linux server and given it permissions with sudo usermod -aG docker $USER . When I start my Jenkins docker containers (which have the home directories on an EBS mounted volume, mounted at /var/lib/docker/volumes ) from the command line;

docker run -d \
--restart=always \
--name=jenkins-core \
--hostname=jenkins-core \
-p 8080:8080 \
-p 50000:50000 \
--env JENKINS_OPTS="--prefix=/core" \
-v jenkins-core:/var/jenkins_home \
jenkins/jenkins:lts

Everything works fine. However when I try to start it from docker-compose up -d or sudo docker-compose up -d I get;

touch: cannot touch /var/jenkins_home/copy_reference_file.log: Permission denied
Can not write to /var/jenkins_home/copy_reference_file.log. Wrong volume permissions?

and the docker containers go into a boot loop trying to restart. I cannot figure out why the permissions are wrong on docker-compose but fine on docker .

I have tried sudo chown $(whoami):$(whoami) /usr/local/bin/docker-compose but it didn’t work. I installed docker-compose from here; Install | Docker Docs

here is the docker-compose.yml there is also a .env file for the variables (not attached)

version: "3.6"
services:
  jenkins-core:
    image:           jenkins/jenkins:lts
    container_name:  jenkins-core
    restart:         always
    ports:
      - ${JENKINS_CORE_HOST_PORT_8080}:${JENKINS_PORT_8080}
      - ${JENKINS_CORE_HOST_PORT_50000}:${JENKINS_PORT_50000}
    environment:
      - JENKINS_OPTS=--prefix=${JENKINS_CORE_PREFIX}
      - JAVA_OPTS=-Duser.timezone=${TZ}
    volumes:
      - ${JENKINS_CORE_HOME_DIR}:/var/jenkins_home
  jenkins-integrations:
    image:           jenkins/jenkins:lts
    container_name:  jenkins-integrations
    restart:         always
    ports:
      - ${JENKINS_INTEGRATIONS_HOST_PORT_8080}:${JENKINS_PORT_8080}
      - ${JENKINS_INTEGRATIONS_HOST_PORT_50000}:${JENKINS_PORT_50000}
    environment:
      - JENKINS_OPTS=--prefix=${JENKINS_INTEGRATIONS_PREFIX}
      - JAVA_OPTS=-Duser.timezone=${TZ}
    volumes:
      - ${JENKINS_INTEGRATIONS_HOME_DIR}:/var/jenkins_home
  portainer:
    image:           portainer/portainer
    container_name:  portainer
    restart:         always
    environment:
      - TZ=${TZ}
    ports:
      - ${PORTAINER_PORT_9000}:9000
    volumes:
      - /etc/localtime:/etc/localtime:ro
      - /var/run/docker.sock:/var/run/docker.sock
      - ${DOCKERCONFDIR}/portainer:/data
    command:         -H unix:///var/run/docker.sock
  watchtower:
    image:           v2tec/watchtower
    container_name:  watchtower
    restart:         always
    environment:
      - TZ=${TZ}
    volumes:
      - /var/run/docker.sock:/var/run/docker.sock
    command:         --schedule 0 0 4 * * * --cleanup