[ENH] Add variables for API root paths + query site header script, add default values

[alyssadai]

• Closes Add environment variable for query tool header scripts #105
• Closes Add and document env vars for API root paths #102
• Closes Clarify experimental variables should not be changed for prod #108
• Fixes Unset minimum cell size in .env file leads to undeployable stack #111

Changes proposed in this pull request:

• Add new variables NB_NAPI_BASE_PATH, NB_FAPI_BASE_PATH, NB_QUERY_HEADER_SCRIPT
• Added default values for all optional variables in docker-compose.yml

Housekeeping:

• Fix missing NB_MIN_CELL_SIZE in docker-compose.yml, related to [ENH] Add NB_MIN_CELL_SIZE env var & reorder env var table for better flow #98

Checklist

This section is for the PR reviewer

• PR has an interpretable title with a prefix ([ENH], [FIX], [REF], [TST], [CI], [MNT], [INF], [MODEL], [DOC]) (see our Contributing Guidelines for more info)
• PR has a label for the release changelog or skip-release (to be applied by maintainers only)
• PR links to GitHub issue with mention Closes #XXXX
• Tests pass
• Checks pass

For new features:

• Tests have been added

For bug fixes:

• There is at least one test that would fail under the original bug conditions.

[alyssadai]

@surchs, this PR is also ready for review!

[surchs]

Thanks, looks good. I left a couple of suggestions. I think the main thing is whether we rename the env variables on the tools to match the names we use in the recipe. I think that'd help quite a bit to avoid confusion.

🧑‍🍳

[neurobagel-bot]

🚀 PR was released in v0.5.0 🚀