2026-03-10 15:31:05 -05:00
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import { existsSync, readFileSync } from "node:fs";
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import path from "node:path";
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[codex] Add LLM Wiki plugin host support (#5597)
## Thinking Path
> - Paperclip orchestrates AI agents for zero-human companies.
> - The plugin system needs host contracts and runtime support before
large plugins can integrate cleanly.
> - The source branch mixed the LLM Wiki package with supporting
host/runtime work, managed plugin skills, root-level storage spaces, and
a bookmarks reference plugin.
> - [PAP-9173](/PAP/issues/PAP-9173) asked for the current branch to be
split by file boundary: plugin package separately from everything else.
> - [PAP-9188](/PAP/issues/PAP-9188) clarified that LLM Wiki may have
plugin-local spaces, but Paperclip core should not reorganize top-level
local storage into spaces.
> - Follow-up review clarified that the bookmarks example should not
ship in this PR either.
> - This pull request contains the
non-`packages/plugins/plugin-llm-wiki/` host/runtime work, keeps runtime
state under the selected Paperclip instance root, and no longer includes
the bookmarks example.
## What Changed
- Added/updated plugin host contracts, SDK types, worker RPC plumbing,
managed plugin skill support, and related server tests.
- Removed the bookmarks example plugin package and its
bundled-example/workspace references.
- Removed the root-level local spaces CLI/migration surface and restored
instance-root runtime defaults for config, db, logs, storage, secrets,
workspaces, projects, and adapter homes.
- Replaced shared root `space-paths` helpers with `home-paths` helpers
for core runtime storage.
- Tightened stranded recovery unique-conflict detection so concurrent
recovery scans reuse the raced recovery issue when Postgres errors are
wrapped.
- Kept `packages/plugins/plugin-llm-wiki/` out of this PR diff;
plugin-local spaces remain in the stacked plugin-only PR.
## Verification
- `pnpm exec vitest run cli/src/__tests__/data-dir.test.ts
cli/src/__tests__/home-paths.test.ts cli/src/__tests__/onboard.test.ts
packages/shared/src/home-paths.test.ts
packages/db/src/runtime-config.test.ts
server/src/__tests__/agent-instructions-service.test.ts
server/src/__tests__/claude-local-execute.test.ts
server/src/__tests__/codex-local-execute.test.ts`
- `pnpm exec vitest run packages/db/src/runtime-config.test.ts`
- `pnpm exec vitest run
server/src/__tests__/plugin-routes-authz.test.ts`
- `pnpm --filter @paperclipai/server typecheck`
- `pnpm exec vitest run
server/src/__tests__/heartbeat-process-recovery.test.ts -t "reuses the
raced stranded recovery issue"` skipped locally because embedded
Postgres did not initialize on this macOS temp host; the code path was
typechecked and is covered by Linux CI.
- Boundary check: no core references remain for `PAPERCLIP_SPACE_ID`,
`spaces migrate-default`, `@paperclipai/shared/space-paths`,
`registerSpacesCommands`, or the removed bookmarks example.
- Previous PR head `4f23e034` had green GitHub checks: `verify`, all
four serialized server shards, `e2e`, `Canary Dry Run`, `policy`, Snyk,
and `Greptile Review`. Current head `582f466d` is re-running checks
after the bookmarks deletion.
## Risks
- Plugin host changes touch shared runtime paths, so regressions would
most likely appear in adapter startup, plugin loading, or local dev path
defaults.
- Removing the bookmarks example also removes one demonstration of
plugin database namespaces plus local-folder persistence; remaining
plugin examples still cover bundled example discovery and plugin host
flows.
- The plugin package itself is intentionally deferred to the stacked
plugin-only PR, where LLM Wiki plugin-local spaces live.
- Existing installs that tested the transient root-level spaces CLI
should stop using it; this PR intentionally removes that unsupported
migration surface before merge.
> For core feature work, check [`ROADMAP.md`](ROADMAP.md) first and
discuss it in `#dev` before opening the PR. Feature PRs that overlap
with planned core work may need to be redirected — check the roadmap
first. See `CONTRIBUTING.md`.
## Model Used
- OpenAI GPT-5 Codex via Codex CLI, tool use and local code execution
enabled; context window not exposed.
## 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 run tests locally and they pass, except where noted above
for host-specific embedded Postgres initialization
- [x] I have added or updated tests where applicable
- [x] If this change affects the UI, I have included before/after
screenshots
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] I will address all Greptile and reviewer comments before
requesting merge
Stacked follow-up: PR #5592 contains only
`packages/plugins/plugin-llm-wiki/` and targets this branch.
---------
Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-05-10 07:34:12 -05:00
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import {
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expandHomePrefix,
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resolveDefaultEmbeddedPostgresDir,
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resolvePaperclipConfigPathForInstance,
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resolvePaperclipEnvPathForConfig,
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} from "@paperclipai/shared/home-paths";
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2026-03-10 15:31:05 -05:00
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const CONFIG_BASENAME = "config.json";
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type PartialConfig = {
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database?: {
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mode?: "embedded-postgres" | "postgres";
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connectionString?: string;
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embeddedPostgresDataDir?: string;
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embeddedPostgresPort?: number;
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pgliteDataDir?: string;
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pglitePort?: number;
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};
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};
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export type ResolvedDatabaseTarget =
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mode: "postgres";
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connectionString: string;
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source: "DATABASE_URL" | "paperclip-env" | "config.database.connectionString";
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configPath: string;
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envPath: string;
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}
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mode: "embedded-postgres";
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dataDir: string;
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port: number;
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source: `embedded-postgres@${number}`;
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configPath: string;
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envPath: string;
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};
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function resolveHomeAwarePath(value: string): string {
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return path.resolve(expandHomePrefix(value));
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}
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function findConfigFileFromAncestors(startDir: string): string | null {
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let currentDir = path.resolve(startDir);
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while (true) {
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const candidate = path.resolve(currentDir, ".paperclip", CONFIG_BASENAME);
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if (existsSync(candidate)) return candidate;
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const nextDir = path.resolve(currentDir, "..");
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if (nextDir === currentDir) return null;
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currentDir = nextDir;
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}
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}
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function resolvePaperclipConfigPath(): string {
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if (process.env.PAPERCLIP_CONFIG?.trim()) {
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return path.resolve(process.env.PAPERCLIP_CONFIG.trim());
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}
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[codex] Add LLM Wiki plugin host support (#5597)
## Thinking Path
> - Paperclip orchestrates AI agents for zero-human companies.
> - The plugin system needs host contracts and runtime support before
large plugins can integrate cleanly.
> - The source branch mixed the LLM Wiki package with supporting
host/runtime work, managed plugin skills, root-level storage spaces, and
a bookmarks reference plugin.
> - [PAP-9173](/PAP/issues/PAP-9173) asked for the current branch to be
split by file boundary: plugin package separately from everything else.
> - [PAP-9188](/PAP/issues/PAP-9188) clarified that LLM Wiki may have
plugin-local spaces, but Paperclip core should not reorganize top-level
local storage into spaces.
> - Follow-up review clarified that the bookmarks example should not
ship in this PR either.
> - This pull request contains the
non-`packages/plugins/plugin-llm-wiki/` host/runtime work, keeps runtime
state under the selected Paperclip instance root, and no longer includes
the bookmarks example.
## What Changed
- Added/updated plugin host contracts, SDK types, worker RPC plumbing,
managed plugin skill support, and related server tests.
- Removed the bookmarks example plugin package and its
bundled-example/workspace references.
- Removed the root-level local spaces CLI/migration surface and restored
instance-root runtime defaults for config, db, logs, storage, secrets,
workspaces, projects, and adapter homes.
- Replaced shared root `space-paths` helpers with `home-paths` helpers
for core runtime storage.
- Tightened stranded recovery unique-conflict detection so concurrent
recovery scans reuse the raced recovery issue when Postgres errors are
wrapped.
- Kept `packages/plugins/plugin-llm-wiki/` out of this PR diff;
plugin-local spaces remain in the stacked plugin-only PR.
## Verification
- `pnpm exec vitest run cli/src/__tests__/data-dir.test.ts
cli/src/__tests__/home-paths.test.ts cli/src/__tests__/onboard.test.ts
packages/shared/src/home-paths.test.ts
packages/db/src/runtime-config.test.ts
server/src/__tests__/agent-instructions-service.test.ts
server/src/__tests__/claude-local-execute.test.ts
server/src/__tests__/codex-local-execute.test.ts`
- `pnpm exec vitest run packages/db/src/runtime-config.test.ts`
- `pnpm exec vitest run
server/src/__tests__/plugin-routes-authz.test.ts`
- `pnpm --filter @paperclipai/server typecheck`
- `pnpm exec vitest run
server/src/__tests__/heartbeat-process-recovery.test.ts -t "reuses the
raced stranded recovery issue"` skipped locally because embedded
Postgres did not initialize on this macOS temp host; the code path was
typechecked and is covered by Linux CI.
- Boundary check: no core references remain for `PAPERCLIP_SPACE_ID`,
`spaces migrate-default`, `@paperclipai/shared/space-paths`,
`registerSpacesCommands`, or the removed bookmarks example.
- Previous PR head `4f23e034` had green GitHub checks: `verify`, all
four serialized server shards, `e2e`, `Canary Dry Run`, `policy`, Snyk,
and `Greptile Review`. Current head `582f466d` is re-running checks
after the bookmarks deletion.
## Risks
- Plugin host changes touch shared runtime paths, so regressions would
most likely appear in adapter startup, plugin loading, or local dev path
defaults.
- Removing the bookmarks example also removes one demonstration of
plugin database namespaces plus local-folder persistence; remaining
plugin examples still cover bundled example discovery and plugin host
flows.
- The plugin package itself is intentionally deferred to the stacked
plugin-only PR, where LLM Wiki plugin-local spaces live.
- Existing installs that tested the transient root-level spaces CLI
should stop using it; this PR intentionally removes that unsupported
migration surface before merge.
> For core feature work, check [`ROADMAP.md`](ROADMAP.md) first and
discuss it in `#dev` before opening the PR. Feature PRs that overlap
with planned core work may need to be redirected — check the roadmap
first. See `CONTRIBUTING.md`.
## Model Used
- OpenAI GPT-5 Codex via Codex CLI, tool use and local code execution
enabled; context window not exposed.
## 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 run tests locally and they pass, except where noted above
for host-specific embedded Postgres initialization
- [x] I have added or updated tests where applicable
- [x] If this change affects the UI, I have included before/after
screenshots
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] I will address all Greptile and reviewer comments before
requesting merge
Stacked follow-up: PR #5592 contains only
`packages/plugins/plugin-llm-wiki/` and targets this branch.
---------
Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-05-10 07:34:12 -05:00
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return findConfigFileFromAncestors(process.cwd()) ?? resolvePaperclipConfigPathForInstance();
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2026-03-10 15:31:05 -05:00
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}
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function resolvePaperclipEnvPath(configPath: string): string {
|
[codex] Add LLM Wiki plugin host support (#5597)
## Thinking Path
> - Paperclip orchestrates AI agents for zero-human companies.
> - The plugin system needs host contracts and runtime support before
large plugins can integrate cleanly.
> - The source branch mixed the LLM Wiki package with supporting
host/runtime work, managed plugin skills, root-level storage spaces, and
a bookmarks reference plugin.
> - [PAP-9173](/PAP/issues/PAP-9173) asked for the current branch to be
split by file boundary: plugin package separately from everything else.
> - [PAP-9188](/PAP/issues/PAP-9188) clarified that LLM Wiki may have
plugin-local spaces, but Paperclip core should not reorganize top-level
local storage into spaces.
> - Follow-up review clarified that the bookmarks example should not
ship in this PR either.
> - This pull request contains the
non-`packages/plugins/plugin-llm-wiki/` host/runtime work, keeps runtime
state under the selected Paperclip instance root, and no longer includes
the bookmarks example.
## What Changed
- Added/updated plugin host contracts, SDK types, worker RPC plumbing,
managed plugin skill support, and related server tests.
- Removed the bookmarks example plugin package and its
bundled-example/workspace references.
- Removed the root-level local spaces CLI/migration surface and restored
instance-root runtime defaults for config, db, logs, storage, secrets,
workspaces, projects, and adapter homes.
- Replaced shared root `space-paths` helpers with `home-paths` helpers
for core runtime storage.
- Tightened stranded recovery unique-conflict detection so concurrent
recovery scans reuse the raced recovery issue when Postgres errors are
wrapped.
- Kept `packages/plugins/plugin-llm-wiki/` out of this PR diff;
plugin-local spaces remain in the stacked plugin-only PR.
## Verification
- `pnpm exec vitest run cli/src/__tests__/data-dir.test.ts
cli/src/__tests__/home-paths.test.ts cli/src/__tests__/onboard.test.ts
packages/shared/src/home-paths.test.ts
packages/db/src/runtime-config.test.ts
server/src/__tests__/agent-instructions-service.test.ts
server/src/__tests__/claude-local-execute.test.ts
server/src/__tests__/codex-local-execute.test.ts`
- `pnpm exec vitest run packages/db/src/runtime-config.test.ts`
- `pnpm exec vitest run
server/src/__tests__/plugin-routes-authz.test.ts`
- `pnpm --filter @paperclipai/server typecheck`
- `pnpm exec vitest run
server/src/__tests__/heartbeat-process-recovery.test.ts -t "reuses the
raced stranded recovery issue"` skipped locally because embedded
Postgres did not initialize on this macOS temp host; the code path was
typechecked and is covered by Linux CI.
- Boundary check: no core references remain for `PAPERCLIP_SPACE_ID`,
`spaces migrate-default`, `@paperclipai/shared/space-paths`,
`registerSpacesCommands`, or the removed bookmarks example.
- Previous PR head `4f23e034` had green GitHub checks: `verify`, all
four serialized server shards, `e2e`, `Canary Dry Run`, `policy`, Snyk,
and `Greptile Review`. Current head `582f466d` is re-running checks
after the bookmarks deletion.
## Risks
- Plugin host changes touch shared runtime paths, so regressions would
most likely appear in adapter startup, plugin loading, or local dev path
defaults.
- Removing the bookmarks example also removes one demonstration of
plugin database namespaces plus local-folder persistence; remaining
plugin examples still cover bundled example discovery and plugin host
flows.
- The plugin package itself is intentionally deferred to the stacked
plugin-only PR, where LLM Wiki plugin-local spaces live.
- Existing installs that tested the transient root-level spaces CLI
should stop using it; this PR intentionally removes that unsupported
migration surface before merge.
> For core feature work, check [`ROADMAP.md`](ROADMAP.md) first and
discuss it in `#dev` before opening the PR. Feature PRs that overlap
with planned core work may need to be redirected — check the roadmap
first. See `CONTRIBUTING.md`.
## Model Used
- OpenAI GPT-5 Codex via Codex CLI, tool use and local code execution
enabled; context window not exposed.
## 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 run tests locally and they pass, except where noted above
for host-specific embedded Postgres initialization
- [x] I have added or updated tests where applicable
- [x] If this change affects the UI, I have included before/after
screenshots
- [x] I have updated relevant documentation to reflect my changes
- [x] I have considered and documented any risks above
- [x] I will address all Greptile and reviewer comments before
requesting merge
Stacked follow-up: PR #5592 contains only
`packages/plugins/plugin-llm-wiki/` and targets this branch.
---------
Co-authored-by: Paperclip <noreply@paperclip.ing>
2026-05-10 07:34:12 -05:00
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return resolvePaperclipEnvPathForConfig(configPath);
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2026-03-10 15:31:05 -05:00
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}
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function parseEnvFile(contents: string): Record<string, string> {
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const entries: Record<string, string> = {};
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for (const rawLine of contents.split(/\r?\n/)) {
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const line = rawLine.trim();
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if (!line || line.startsWith("#")) continue;
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const match = rawLine.match(/^\s*(?:export\s+)?([A-Za-z_][A-Za-z0-9_]*)\s*=\s*(.*)\s*$/);
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if (!match) continue;
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const [, key, rawValue] = match;
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const value = rawValue.trim();
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if (!value) {
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entries[key] = "";
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continue;
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}
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if (
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(value.startsWith("\"") && value.endsWith("\"")) ||
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(value.startsWith("'") && value.endsWith("'"))
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) {
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entries[key] = value.slice(1, -1);
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continue;
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}
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entries[key] = value.replace(/\s+#.*$/, "").trim();
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}
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return entries;
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}
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function readEnvEntries(envPath: string): Record<string, string> {
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if (!existsSync(envPath)) return {};
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return parseEnvFile(readFileSync(envPath, "utf8"));
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}
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function migrateLegacyConfig(raw: unknown): PartialConfig | null {
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if (typeof raw !== "object" || raw === null || Array.isArray(raw)) return null;
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const config = { ...(raw as Record<string, unknown>) };
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const databaseRaw = config.database;
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if (typeof databaseRaw !== "object" || databaseRaw === null || Array.isArray(databaseRaw)) {
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return config;
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}
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const database = { ...(databaseRaw as Record<string, unknown>) };
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if (database.mode === "pglite") {
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database.mode = "embedded-postgres";
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if (
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typeof database.embeddedPostgresDataDir !== "string" &&
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typeof database.pgliteDataDir === "string"
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) {
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database.embeddedPostgresDataDir = database.pgliteDataDir;
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}
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if (
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typeof database.embeddedPostgresPort !== "number" &&
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typeof database.pglitePort === "number" &&
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Number.isFinite(database.pglitePort)
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) {
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database.embeddedPostgresPort = database.pglitePort;
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}
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}
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config.database = database;
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return config as PartialConfig;
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}
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function asPositiveInt(value: unknown): number | null {
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if (typeof value !== "number" || !Number.isFinite(value)) return null;
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const rounded = Math.trunc(value);
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return rounded > 0 ? rounded : null;
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}
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function readConfig(configPath: string): PartialConfig | null {
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if (!existsSync(configPath)) return null;
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let parsed: unknown;
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try {
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parsed = JSON.parse(readFileSync(configPath, "utf8"));
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} catch (err) {
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throw new Error(
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`Failed to parse config at ${configPath}: ${err instanceof Error ? err.message : String(err)}`,
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);
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}
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const migrated = migrateLegacyConfig(parsed);
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if (migrated === null || typeof migrated !== "object" || Array.isArray(migrated)) {
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|
throw new Error(`Invalid config at ${configPath}: expected a JSON object`);
|
|
|
|
|
}
|
|
|
|
|
|
|
|
|
|
const database =
|
|
|
|
|
typeof migrated.database === "object" &&
|
|
|
|
|
migrated.database !== null &&
|
|
|
|
|
!Array.isArray(migrated.database)
|
|
|
|
|
? migrated.database
|
|
|
|
|
: undefined;
|
|
|
|
|
|
|
|
|
|
return {
|
|
|
|
|
database: database
|
|
|
|
|
? {
|
|
|
|
|
mode: database.mode === "postgres" ? "postgres" : "embedded-postgres",
|
|
|
|
|
connectionString:
|
|
|
|
|
typeof database.connectionString === "string" ? database.connectionString : undefined,
|
|
|
|
|
embeddedPostgresDataDir:
|
|
|
|
|
typeof database.embeddedPostgresDataDir === "string"
|
|
|
|
|
? database.embeddedPostgresDataDir
|
|
|
|
|
: undefined,
|
|
|
|
|
embeddedPostgresPort: asPositiveInt(database.embeddedPostgresPort) ?? undefined,
|
|
|
|
|
pgliteDataDir: typeof database.pgliteDataDir === "string" ? database.pgliteDataDir : undefined,
|
|
|
|
|
pglitePort: asPositiveInt(database.pglitePort) ?? undefined,
|
|
|
|
|
}
|
|
|
|
|
: undefined,
|
|
|
|
|
};
|
|
|
|
|
}
|
|
|
|
|
|
|
|
|
|
export function resolveDatabaseTarget(): ResolvedDatabaseTarget {
|
|
|
|
|
const configPath = resolvePaperclipConfigPath();
|
|
|
|
|
const envPath = resolvePaperclipEnvPath(configPath);
|
|
|
|
|
const envEntries = readEnvEntries(envPath);
|
|
|
|
|
|
|
|
|
|
const envUrl = process.env.DATABASE_URL?.trim();
|
|
|
|
|
if (envUrl) {
|
|
|
|
|
return {
|
|
|
|
|
mode: "postgres",
|
|
|
|
|
connectionString: envUrl,
|
|
|
|
|
source: "DATABASE_URL",
|
|
|
|
|
configPath,
|
|
|
|
|
envPath,
|
|
|
|
|
};
|
|
|
|
|
}
|
|
|
|
|
|
|
|
|
|
const fileEnvUrl = envEntries.DATABASE_URL?.trim();
|
|
|
|
|
if (fileEnvUrl) {
|
|
|
|
|
return {
|
|
|
|
|
mode: "postgres",
|
|
|
|
|
connectionString: fileEnvUrl,
|
|
|
|
|
source: "paperclip-env",
|
|
|
|
|
configPath,
|
|
|
|
|
envPath,
|
|
|
|
|
};
|
|
|
|
|
}
|
|
|
|
|
|
|
|
|
|
const config = readConfig(configPath);
|
|
|
|
|
const connectionString = config?.database?.connectionString?.trim();
|
|
|
|
|
if (config?.database?.mode === "postgres" && connectionString) {
|
|
|
|
|
return {
|
|
|
|
|
mode: "postgres",
|
|
|
|
|
connectionString,
|
|
|
|
|
source: "config.database.connectionString",
|
|
|
|
|
configPath,
|
|
|
|
|
envPath,
|
|
|
|
|
};
|
|
|
|
|
}
|
|
|
|
|
|
|
|
|
|
const port = config?.database?.embeddedPostgresPort ?? 54329;
|
|
|
|
|
const dataDir = resolveHomeAwarePath(
|
|
|
|
|
config?.database?.embeddedPostgresDataDir ?? resolveDefaultEmbeddedPostgresDir(),
|
|
|
|
|
);
|
|
|
|
|
|
|
|
|
|
return {
|
|
|
|
|
mode: "embedded-postgres",
|
|
|
|
|
dataDir,
|
|
|
|
|
port,
|
|
|
|
|
source: `embedded-postgres@${port}`,
|
|
|
|
|
configPath,
|
|
|
|
|
envPath,
|
|
|
|
|
};
|
|
|
|
|
}
|