DockerizeNetlogo

Scripts to create a Docker container that would run a netlogo experiment starting from an xml file. This is coming from a simulation of organized crime. Thus, the OC name that will appear in several places - substitute your own lab(el) for labss(OC). Use with caution (it will access your .ssh keys quite liberally).

setup

requirements

1. Install and start (sudo service docker start) on centos) Docker
2. put ssh keys on the machine so that it can fetch the release from the git.
3. create the working directory: ~/commondisk
4. create (or use) a working release with its tag (ex. v0.3)
5. start from the git base directory
6. prepare an experiment in the form of an xml file
7. the git base should be linked as ~/OC

create the netlogo base:

from the netlogo-docker directory

cd netlogo-docker/
docker build --tag=labss/netlogo-base .

create the OC docker from a release

from the base directory

cd ..
 docker build --tag=labss/oc --build-arg SSH_KEY="$(cat ~/.ssh/id_rsa)" --build-arg OC_VERSION='v0.3' .

interactive run - testing the docker

docker run --entrypoint "/bin/bash" -v ~/commondisk:/extdisk -it oc

run!

Copy the content of the skeleton on the common disk, then substitute the file exp.xml with your own. Then call the docker run command.

cp ~/OC/docker/extdisk-skeleton/* ~/commondisk
docker run -v ~/commondisk:/extdisk  -d labss/oc

It will run in the container, dumping the results in the commondisk.

useful docker instructions

run a terminal in the latest container

docker exec -it `docker ps -l -q`  /bin/bash

run a terminal in a running container

docker ps to retrieve the _ID_, then docker exec -it _ID_ /bin/bash

clean up

docker ps --filter "status=exited" | grep 'weeks ago' | awk '{print $1}' | xargs --no-run-if-empty docker rm

push the container on the online repository

docker push labss/protonoc

share results (in the directory to share; turn off other servers on 80, like R)

sudo rstudio-server stop
python -m SimpleHTTPServer