refactor: flatten repo dir and mount docker config

[gabor-boros]

Description

This PR includes various refactoring, including flattening the repository directory (which resolves #288) and mounts the docker configuration for local development, so there is no need to rebuild the service on config change.

Dependencies

N/A

Screenshots

N/A

Testing instructions

• Run unit & integration tests
• Change the config, then restart (not rebuild) the docker container of elemo-server (or elemo-worker) to see the changes.

Checklist

• I have read and understood the Developer's Certificate of Origin and
  added Signed-off-by: <YOUR NAME> to the commit trail where <YOUR NAME> is
  my name.

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2 Skipped Deployments

Project	Deployment	Preview	Comments	Updated (UTC)
elemo-api-docs	Ignored			Nov 19, 2025 10:50am
elemo-marketing	Ignored			Nov 19, 2025 10:50am

[codecov]

Codecov Report

❌ Patch coverage is 83.54167% with 316 lines in your changes missing coverage. Please review.

Files with missing lines	Patch %	Lines
internal/repository/issue.go	84.15%	45 Missing and 45 partials ⚠️
internal/repository/namespace.go	69.78%	55 Missing and 16 partials ⚠️
internal/repository/document.go	86.99%	16 Missing and 16 partials ⚠️
internal/repository/label.go	84.46%	16 Missing and 16 partials ⚠️
internal/repository/comment.go	85.34%	14 Missing and 14 partials ⚠️
internal/repository/assignment.go	87.36%	12 Missing and 12 partials ⚠️
internal/repository/attachment.go	87.09%	12 Missing and 12 partials ⚠️
internal/repository/auth.go	80.85%	6 Missing and 3 partials ⚠️
internal/repository/license.go	88.23%	3 Missing and 3 partials ⚠️

Files with missing lines	Coverage Δ
internal/repository/notification.go	60.66% <ø> (ø)
internal/repository/organization.go	72.60% <ø> (ø)
internal/repository/permission.go	77.54% <ø> (ø)
internal/repository/project.go	86.48% <ø> (ø)
internal/repository/repository.go	78.94% <ø> (ø)
internal/repository/role.go	85.60% <ø> (ø)
internal/repository/staticfile.go	56.75% <ø> (ø)
internal/repository/todo.go	87.36% <ø> (ø)
internal/repository/user.go	85.53% <ø> (ø)
internal/service/permission.go	100.00% <ø> (ø)
... and 9 more

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