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WARNING

If you started running CiiYUN using a version of ciiyun from before to 2017.6.8, actions that recreate the kobocat container (including docker-compose up ... under some circumstances) will result in losing access to user media files (e.g. responses to photo questions). Safely stored media files can be found in ciiyun/.vols/kobocat_media_uploads/.

Files that were not safely stored can be found inside Docker volumes as well as in your current and any previous kobocat containers. One quick way of finding these is directly searching the Docker root directory. The root directory can be found by running docker info and looking for the "Docker Root Dir" entry (not to be confused with the storage driver's plain "Root Dir").

Once this is noted, you can docker-compose stop and search for potentially-missed media attachment directories with something like sudo find ${YOUR_DOCKER_ROOT_DIR}/ -name attachments. These attachment directories will be of the format .../${SOME_KOBO_USER}/attachments and you will want to back up each entire KoBo user's directory (the parent of the attachments directory) for safe keeping, then move/merge them under .vols/kobocat_media_uploads/, creating that directory if it doesn't exist and taking care not to overwrite any newer files present there if it does exist. Once this is done, clear out the old container and any attached volumes with docker-compose rm -v kobocat, then git pull the latest ciiyun code, docker-compose pull the latest images for kobocat and the rest, and your media files will be safely stored from there on.

CiiYUN

ciiyun is used to run a copy of the CiiYUN survey data collection platform on a machine of your choosing. It relies Docker to separate the different parts of KoBo into different containers (which can be thought of as lighter-weight virtual machines) and Docker Compose to configure, run, and connect those containers. Below is a diagram (made with Lucidchart) of the containers that make up a running ciiyun system and their connections: Container diagram

Setup procedure:

  1. The first decision to make is whether your ciiyun instance will use secure (HTTPS) or insecure (plain HTTP) communications when interacting with clients. While secure communications are obviously desirable, the requirements imposed by the public key cryptographic system underpinning HTTPS add a considerable degree of complexity to the initial setup (we are in the process of eventually simplifying this with letsencrypt). In contrast, setups using plain HTTP can be suitable in some cases where security threats are unlikely, such as for use strictly within a secure private network. To emphasize the difference between the two types of setup, they are referred to herein as server (HTTPS) and local (HTTP).

  2. Clone this repository, retaining the directory name ciiyun.

  3. Install Docker Compose for Linux on x86-64. Power users on Mac OS X and Windows can try the new Docker beta for those platforms, but there are known issues with filesystem syncing on those platforms.

  4. Decide whether you want to create an HTTP-only local instance of KoBo Toolbox, or a HTTPS publicly-accessible server instance. Local instances will use docker-compose.local.yml and envfile.local.txt, whereas server instances will use docker-compose.server.yml and envfile.server.txt instead.
    NOTE: For server instances, you are expected to meet the usual basic requirements of serving over HTTPS. That is, public (not local-only) DNS records for the domain and subdomains as specified in envfile.server.txt, as well as a CA-signed (not self-signed) wildcard (or SAN) SSL certificate+key pair valid for those subdomains, and some basic knowledge of Nginx server administration and the use of SSL.

  5. Based on your desired instance type, create a symlink named docker-compose.yml to either docker-compose.local.yml or docker-compose.server.yml (e.g. ln -s docker-compose.local.yml docker-compose.yml). Alternatively, you can skip this step and explicitly prefix all Docker Compose commands as follows: docker-compose -f docker-compose.local.yml ....

  6. Pull the latest images from Docker Hub: docker-compose pull. Note: Pulling updated images doesn't remove the old ones, so if your drive is filling up, try removing outdated images with e.g. docker rmi.

  7. Edit the appropriate environment file for your instance type, envfile.local.txt or envfile.server.txt, filling in all mandatory variables, and optional variables as needed.

  8. Optionally enable additional settings for your Google Analytics token, S3 bucket, e-mail settings, etc. by editing the files in envfiles/.

  9. Server-only steps:

    1. Make a secrets directory in the project root and copy the SSL certificate and key files to secrets/ssl.crt and secrets/ssl.key respectively. The certificate and key are expected to use exactly these filenames and must comprise either a wildcard or SAN certificate+key pair which are valid for the domain and subdomains specified in envfile.server.txt.

    2. If testing on a server that is not publicly accessible at the subdomains you've specified in envfile.server.txt, put an entry in your host machine's /etc/hosts file for each of the three subdomains you entered to reroute such requests to your machine's address (e.g. 192.168.1.123 kf-local.kobotoolbox.org). Also, uncomment and customize the extra_hosts directives in docker-compose.server.yml. This can also be necessary in situations where

  1. Build any images you've chosen to manually override: docker-compose build.

  2. Start the server: docker-compose up -d (or without the -d option to run in the foreground).

  3. Container output can be followed with docker-compose logs -f. For an individual container, logs can be followed by using the container name from your docker-compose.yml with e.g. docker-compose logs -f enketo_express.

"Local" setup users can now reach CiiYUN at http://${HOST_ADDRESS}:${KPI_PUBLIC_PORT} (substituting in the values entered in envfile.local.txt), while "server" setups can be reached at https://${KOBOFORM_PUBLIC_SUBDOMAIN}.${PUBLIC_DOMAIN_NAME} (similarly substituting from envfile.server.txt). Be sure to periodically update your containers, especially nginx, for security updates by pulling new changes from this ciiyun repo then running e.g. docker-compose pull && docker-compose up -d.

Backups

Automatic, periodic backups of KoBoCAT media, MongoDB, and Postgres can be individually enabled by uncommenting (and optionally customizing) the *_BACKUP_SCHEDULE variables in your envfile. When enabled, timestamped backups will be placed in backups/kobocat, backups/mongo, and backups/postgres, respectively. Redis backups are currently not generated, but the redis_main DB file is updated every 5 minutes and can always be found in .vols/redis_main_data/.

Backups can also be manually triggered when ciiyun is running by executing the the following commands:

docker exec -it ciiyun_kobocat_1 /srv/src/kobocat/docker/backup_media.bash
docker exec -it ciiyun_mongo_1 /srv/backup_mongo.bash
docker exec -it ciiyun_postgres_1 /srv/backup_postgres.bash

Troubleshooting

Basic troubleshooting

You can confirm that your containers are running with docker ps. To inspect the log output from the containers, execute docker-compose logs -f or for a specific container use e.g. docker-compose logs -f redis_main.

The documentation for Docker can be found at https://docs.docker.com.

Django debugging

Developers can use PyDev's remote, graphical Python debugger to debug Python/Django code. To enable for the kpi container:

  1. Specify the mapping(s) between target Python source/library paths on the debugging machine to the locations of those files/directories inside the container by customizing and uncommenting the KPI_PATH_FROM_ECLIPSE_TO_PYTHON_PAIRS variable in envfiles/kpi.txt.
  2. Share the source directory of the PyDev remote debugger plugin into the container by customizing (taking care to note the actual location of the version-numbered directory) and uncommenting the relevant volumes entry in your docker-compose.yml.
  3. To ensure PyDev shows you the same version of the code as is being run in the container, share your live version of any target Python source/library files/directories into the container by customizing and uncommenting the relevant volumes entry in your docker-compose.yml.
  4. Start the PyDev remote debugger server and ensure that no firewall or other settings will prevent the containers from connecting to your debugging machine at the reported port.
  5. Breakpoints can be inserted with e.g. import pydevd; pydevd.settrace('${DEBUGGING_MACHINE_IP}').

Remote debugging in the kobocat container can be accomplished in a similar manner.