95 lines
5.1 KiB
Bash
95 lines
5.1 KiB
Bash
# THIS IS A TEMPLATE .env FILE.
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# MAKE A COPY OF THIS FILE NAMED .env, AND THEN MODIFY THE VALUES AS NEEDED.
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#
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# Tip: To verify your changes to the .env have taken effect, run the command: docker compose config
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# For more information on each environment variable, see the Neurobagel documentation.
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# ---- PROJECT NAME ----
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# Controls the base name of the docker compose services when launched.
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# Replace neurobagel_node with an informative name based on your data and/or deployment profile
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# This is optional but will be used to group together your Neurobagel Docker containers in the list of running containers (i.e., `docker ps`),
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# making them easier to identify if you need to run multiple Neurobagel service stacks on different ports.
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#
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# e.g., If you wish to deploy the local_node profile to set up a local Neurobagel node for the ABIDE database,
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# and the local_federation profile to also set up local federation,
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# you could set COMPOSE_PROJECT_NAME=abide and COMPOSE_PROJECT_NAME=federation, respectively, in the .env file for each recipe.
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#
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# Note: Must not include any spaces or uppercase letters.
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COMPOSE_PROJECT_NAME=trr379_neurobagel
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# ---- CONFIGURATION FOR graph ----
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# Replace DBUSER with the username you want to set for your graph database user
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NB_GRAPH_USERNAME=DBUSER
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# Replace my_db with the name you want to give your graph database
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NB_GRAPH_DB=repositories/my_db
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# Replace ./data with the path to your JSONLD files
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LOCAL_GRAPH_DATA=/home/neurobagel/run/data
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# Additional configurable parameters - uncomment to change the defaults
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# Change NB_GRAPH_PORT_HOST if port 7200 is already in use on the machine
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NB_GRAPH_PORT_HOST=13701
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# Replace ./secrets with the directory path containing the text files with your desired
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# secure passwords for GraphDB (NB_GRAPH_ADMIN_PASSWORD.txt and NB_GRAPH_PASSWORD.txt)
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NB_GRAPH_SECRETS_PATH=/home/neurobagel/run/secrets
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# ---------------------------------
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# ---- CONFIGURATION FOR node-API ----
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# Origins to allow requests from. To limit to specific origins, replace * with URLs separated by a space.
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NB_API_ALLOWED_ORIGINS="*"
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# Whether to return only aggregate, dataset-level query results (excluding subject/session-level attributes).
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NB_RETURN_AGG=true
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# Additional configurable parameters - uncomment to change the defaults
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# Change NB_NAPI_PORT_HOST if port 8000 is already in use on the machine
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NB_NAPI_PORT_HOST=13702
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# Minimum number of matching subjects required for a dataset to be returned as a query match. Datasets with matching subjects <= this number will be excluded from query results.
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# NB_MIN_CELL_SIZE=0
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# NB_NAPI_TAG=latest
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# pin version for cogatlas terms
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NB_NAPI_TAG="v0.4.3"
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# ---------------------------------
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# ---- CONFIGURATION FOR federation-API ----
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# Additional configurable parameters - uncomment to change the defaults
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# Change NB_FAPI_PORT_HOST if port 8080 is already in use on the machine
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NB_FAPI_PORT_HOST=13703
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# NB_FAPI_TAG=latest
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# pin version for cogatlas terms
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NB_FAPI_TAG="v0.4.3"
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# NB_FEDERATE_REMOTE_PUBLIC_NODES=True
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# ---------------------------------
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# ---- CONFIGURATION FOR QUERY TOOL ----
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# You MUST replace http://XX.XX.XX.XX with the URL (and port, if needed) of the Neurobagel f-API the query tool should send requests to.
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# The query tool sends requests from a user's machine, so ensure you provide the URL of the f-API *as a user would access it from their own (external) machine*,
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# even if the query tool and the Neurobagel f-API are hosted on the same physical machine.
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# e.g., https://neurobagel.myInstitute.edu/federation
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#
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# Exception: If you are testing your setup locally and will only access the query tool from the SAME machine
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# that your f-API is hosted on, you can use localhost as the URL.
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# e.g., http://localhost:8080 (if NB_FAPI_PORT_HOST=8080):
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NB_API_QUERY_URL=https://nb-federation.trr379.de
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# Additional configurable parameters - uncomment to change the defaults
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# Change NB_QUERY_APP_BASE_PATH if you're using a proxy server (NGINX, Caddy, etc.) and have configured it so that the query tool is accessible at a path other than the root (`/`).
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# e.g., if your proxy server is set up so that mynode.org/querytool points to the query tool, you would set NB_QUERY_APP_BASE_PATH=/querytool
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# NB_QUERY_APP_BASE_PATH=/
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# Change NB_QUERY_PORT_HOST if port 3000 is already in use on the machine
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NB_QUERY_PORT_HOST=13700
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# NB_QUERY_TAG=latest
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# --------------------------------------
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# ---- SECURITY CONFIGURATION ----
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# NOTE: EXPERIMENTAL, THESE SETTINGS ARE UNDER ACTIVE DEVELOPMENT AND CURRENTLY SHOULD BE MODIFIED FOR DEV DEPLOYMENTS ONLY.
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# The below settings will be used for both the query tool and the f-API.
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# NB_ENABLE_AUTH=false
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# If NB_ENABLE_AUTH is set to true, you MUST provide a valid OAuth client ID for your query tool instance.
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# To obtain an OAuth client ID to enable login with Google, see https://developers.google.com/identity/openid-connect/openid-connect#appsetup.
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# NB_QUERY_CLIENT_ID=XXXX
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# --------------------------------
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# ---- CONFIGURATION FOR docker compose ----
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# Default service profile (deployment "flavour") for `docker compose` command
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COMPOSE_PROFILES=full_stack
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# ------------------------------------------
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