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## Thinking Path > - Paperclip is the open source app people use to manage AI agents for work. > - Task preparation can create an isolated Git worktree and run its setup script. > - The Paperclip repository setup script also prepares a seeded development instance. > - A server configured through environment variables can have no local seed config. > - This stops ordinary task preparation before the agent starts. > - This pull request prepares checkout dependencies when no seed source exists, while preserving errors for invalid sources and existing development instances. > - Tasks can start without creating or claiming a seeded development runtime. ## Linked Issues or Issue Description **What happened?** A task with the Paperclip repository fails during setup when the host has no repository-local or default instance config. The automatic worktree provisioner requires a seed source even when the task only needs the checkout. **Expected behavior** A plain checkout should prepare its dependencies without a local development database. A missing custom source, invalid source path, or existing development instance with a missing source should still fail. Starting a seeded runtime must still require a valid source. **Steps to reproduce** 1. Run an environment-configured Paperclip server without a local instance config. 2. Add the Paperclip repository to a project. 3. Start a task that uses an isolated Git worktree without a custom provision command. 4. Observe the setup error before agent execution. **Paperclip version or commit** Reproduced against `0d3e7bf6ac` with a real script subprocess and workspace realization regression. **Deployment mode** Environment-configured server with external PostgreSQL. **Additional context** Searched open and closed GitHub PRs and issues. Related work: Refs #14795 (seed-source diagnostics) and Refs #11733 (source validation). This change keeps source validation and seed-readiness checks in place. ## What Changed - Permit dependency setup when the default seed config is absent (including the Docker image config path) and the worktree has no development-instance state. - Keep missing custom configs, invalid paths, and lost sources for existing instances as errors. - Create no config, environment file, or seed manifest for a plain checkout. - Keep dependency install failures visible and allow normal instance setup once a source becomes available. - Cover the setup script, seed-runtime refusal, and automatic server worktree realization. - Document the difference between checkout preparation and seeded-runtime readiness. ## Verification - Regression tests failed before the fix for absent-source checkout preparation and dependency setup. - `bash -n scripts/provision-worktree.sh` - `node --test scripts/__tests__/provision-worktree-self-heal.test.mjs` — 34 passed; 1 existing flock-dependent test skipped on macOS. - Server regression — 2 passed, covering an unset config and the Docker image default path. - `pnpm build` — passed. - `pnpm -r typecheck` — passed. - All CI checks passed, including the full test shards, build, typecheck, browser tests, and canary dry run. - The first local `pnpm test:run` encountered two chat-test failures because skill discovery selected an unrelated parent directory. Both tests pass at the PR commit in a clean temporary checkout. The full local run was not completed; the redundant clean run was stopped after the complete CI suite passed. - `git diff --check` and added-line secrets/PII scan passed. - Greptile: 5/5, no comments. The branch has no merge conflicts. - No live tenant deployment or task retry was performed. ## Risks - A new checkout with no implicit seed config now completes dependency setup. It has no seeded development instance. A runtime request still fails until a valid source exists. - Existing instances and custom source paths retain their failure behavior. The script does not synthesize a source from environment credentials or copy a live database. - No schema, API, or task-setting changes. Revert the commit to restore the previous setup behavior. ## Model Used OpenAI Codex (GPT-6), with tool-assisted analysis, code edits, and local tests. The runtime did not expose a verified model variant or context-window size. ## Checklist - [x] I have included a thinking path that traces from project context to this change - [x] I have specified the model used (with version and capability details) - [x] I have checked ROADMAP.md and confirmed this PR does not duplicate planned core work - [x] I have searched GitHub for duplicate or related PRs and linked them above - [x] I have either (a) linked existing issues with `Fixes: #` / `Closes #` / `Refs #` OR (b) described the issue in-PR following the relevant issue template - [x] I have not referenced internal/instance-local Paperclip issues or links (only public GitHub `#NNN` / `github.com/paperclipai/paperclip` URLs) - [x] My branch name describes the change (e.g. `docs/...`, `fix/...`) and contains no internal Paperclip ticket id or instance-derived details - [x] I have run tests locally and they pass - [x] I have added or updated tests where applicable - [x] I have updated relevant documentation to reflect my changes - [x] I have considered and documented any risks above - [x] All Paperclip CI gates are green - [x] Greptile is 5/5 with no open P2s, recommendations, or follow-ups - [x] I will address all Greptile and reviewer comments before requesting merge Co-authored-by: Paperclip <noreply@paperclip.ing>