wodin-epimodels

This is the repo for sketching out the initial deployment of the msc course to epimodels.dide.ic.ac.uk; once this is working we'll rewrite it to generally support a set of sites, each with their own configuration.

We need to support multiple configurations easily, we currently do this with a script in the wodin image that can update the configurations on a volume. The current sites are:

• demo: a configuration we'll maintain to show off various wodin features
• preview: a configuration we'll maintain to show off various wodin features in development
• msc-idm-2022: the 2022 MSc course
• msc-idm-2023: the 2023 MSc course
• msc-idm-2024: the 2024 MSc course
• malawi-idm-2022: a short course run in Malawi
• gambia-idm-2023: a short course run in The Gambia (2023)
• gambia-idm-2024: a short course run in The Gambia (2024)
• acomvec-2023: a short course run in Cameroon
• infectiousdiseasemodels-2023: The DIDE short course (2023)
• infectiousdiseasemodels-2024: The DIDE short course (2024)

Deploying for the first time

git clone git@github.com:mrc-ide/wodin-epimodels.git

Configure the proxy by running ./configure-proxy:

• ./configure-proxy epimodels for use on epimodels.dide
• ./configure-proxy wodin-dev on wodin-dev.dide
• ./configure-proxy localhost locally for testing (no ssl)

This will copy any required ssl keys to ssl/ and write out the required hostname into the file hostname.

Then deploy (or redeploy) with ./deploy

Adding a new site

Edit sites to:

• list the new site within the array variable SITES (first line in the file basically)
• add an entry in SITES_URL just below that; the key (in square brackets) must match the new entry in SITES exactly
• if you need a specific reference add that as SITES_REF[newsite]=mrc-1234, otherwise this defaults to main

For example adding

SITES=(... newsite)
SITES_URL[newsite]=https://github.com/mrc-ide/wodin-newsite
SITES_REF[newsite]=prototype

would make a new site available at http://localhost/newsite using configuration from https://github.com/mrc-ide/wodin-newsite using branch prototype. Delete this last line to start using the main branch.

Update the index page, root/index.html to list the new site, and probably the top of this README too, as these both have manually updated lists.

Then deploy with ./deploy

Updating the deployment

To update everything (containers and every site)

ssh epimodels # or wodin-dev
cd wodin-epimodels
./deploy

This updates the sites as well the containers

To update the source of one site

ssh epimodels # or wodin-dev
cd wodin-epimodels
./update_source infectiousdiseasemodels-2023

No changes to the config will be updated.

To try a different branch of wodin or odin.api

Edit (on the server) ./wodin-epimodels/deploy and redeploy by running

To try a different branch of the config

Edit (on the server) ./wodin-epimodels/sites and add

SITES_REF[infectiousdiseasemodels-2023]="mrc-1234"

(just put it after all the SITE_URL bits that are already there)

Then deploy with ./deploy

Clean up with

git checkout -- .