Boterview

Added
- Add functionality to disable the timeout (i.e., and automatic page reload from
the stop page to the welcome page). If the user specifies a timeout of `0`, or
a negative value, the timeout will be disabled. This can be useful for studies
that require participants to perform additional tasks after the interview.
Closes [30](https://github.com/mihaiconstantin/boterview/issues/30).
- Add default index route `/` for when the server is started in headless model.
This route outputs a `JSON` response indicating that the server is running in
headless mode.

Changed
- Update `useVerifyParticipantCode` hook to explicit mark any previous consent
as invalid upon participant code verification. This change ensures that the
participant is required to re-consent if they provide a new code.
- Remove superfluous period in default footer text.
- Update `boterview preview` command in `README.md` reflect that the default to
scaffolded condition is now named `"Condition 1"`.

Added
- Add functionality to reconstruct the message history and repopulate the chat
interface based on the conversations stored in the database. This feature
makes the interview more robust to interruptions (e.g., page reloads). Fixes
24.

Changed
- Update default paths in template to `/interface` for UI content files, and
`/interview` for interview files.
- Update `pyproject.toml` to exclude `CNAME` from source distribution build.
- Disable automatic scrolling to message in the chat window. This behavior was
added after a recent update to `chainlit` (i.e., see [this
issue](https://github.com/Chainlit/chainlit/issues/1992)).
- Various improvements to the frontend application.

Fixed
- Fix participants getting reassigned to a new condition each time the chat page
was reloaded. Closes 24.
- Fix issue with cookie names not being parsed correctly in Safari due to extra
whitespace. Closes 18.
- Fix issue with hardcoded `localhost` URL. Now, the application can be served
from any domain. The recommended way is to serve the static files from the
same domain as the backend. However, one can also serve the static files from
a different domain, in which case a reverse proxy should be used to prevent
any `CORS` issues. In development, the `vite` server for the frontend is
configured to proxy requests to the backend (i.e., the backend URL is provided
to the frontend server via the `.env.development` file located at
`/frontend/app/.env.development`). Closes 17.

Added
- Add `markdown` support in `PageContent` component. When the UI content is not
provided as `HTML`, the component will render the content as `markdown`
paragraphs, with support for various formatting options. The processing is
done using the `react-markdown` library.

Changed
- Update default UI content to feature `markdown` formatting for the
introduction and consent pages.
- Update default system prompt to ensure the LLM does not copy the interview
document to the chat.

Changed
- Update badges in `README.md`.
- Update heading capitalization in `CHANGELOG.md`.

Changed
- Update build artifacts to exclude unnecessary `assets/` directory.
- Update logo path in `README.md` to use use the `GitHub` raw link.
- Remove the `CC` license images from the `README.md` file do to rendering
issues on `PyPI`.

Added
- Add service classes (i.e., `Boterview`, `Study`, `Counter`, `Prompt`,
`Condition`, `Interview`, `Guide`, `Introduction`, `Protocol`, and `Question`)
to manage study logic, participant assignment, and configuration.
- Add `React` frontend, including various components, pages, and hooks.
- Integrate `chainlit` lifecycle chat events (i.e., start, stop, message, and
authentication) using an `OpenAI` async client.
- Add package CLI commands to:
- generate a new study, application secret, and participation codes
- parse study data to `markdown`
- preview study conditions
- run the study server
- Implement backend in `FastAPI`, including several API routes for participant
authentication, consent, chat handling, and UI content retrieval.
- Add several database models for `Participant`, `Conversation`, and
`Configuration`.
- Add several payload models for API request and response handling.
- Add helper functions for general utilities.
- Add helper functions for creating and decoding `JWT` tokens, as well as for
parsing cookies to support secure authentication flows.
- Add helper functions to manage `chainlit` events, such as retrieving message
history, sending stop messages, and determining when a conversation should
end.
- Add helper functions for common database operations.
- Add context managers to ensure several objects are properly initialized when
shared across the application.
- Add several services to manage core application logic, configuration, and
study data.
- Add `hatch` build hook to prepare frontend assets for packaging.
- Add `pyproject.toml` build configuration to manage frontend assets and ensure
proper packaging.
- Add `chainlit` configuration file with sensible defaults.
- Add `chainlit` styling overrides, theme, favicon, and translation files.
- Add option to intercept `chainlit` custom action events.

Changed
- Refactored core services (`Study`, `Boterview`, `Configuration`, etc.) into
dedicated modules under `services/` (previously under `backend/`).
- Improved error handling, updated documentation, and optimized configuration
handling.

Fixed
- Ensure the template `TOML` generation uses `POSIX` path separators.

Security
- Implement `JWT` authentication and token handling.
- Add `HTML` sanitization for UI content provided by users via the study files.
- Implement route protections to prevent study participants from skipping
verification and consent steps.