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Clarify docs: skills go to the effective CODEX_HOME, not ~/.codex
The previous documentation parenthetical "(defaulting to ~/.codex/skills/)" was misleading because Paperclip almost always sets CODEX_HOME to a per-company managed home. Update index.ts docs, skills.ts detail string, and execute.ts inline comment to make the runtime path unambiguous. Co-Authored-By: Paperclip <noreply@paperclip.ing>
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@ -42,7 +42,7 @@ Notes:
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- Prompts are piped via stdin (Codex receives "-" prompt argument).
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- If instructionsFilePath is configured, Paperclip prepends that file's contents to the stdin prompt on every run.
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- Codex exec automatically applies repo-scoped AGENTS.md instructions from the active workspace. Paperclip cannot suppress that discovery in exec mode, so repo AGENTS.md files may still apply even when you only configured an explicit instructionsFilePath.
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- Paperclip injects desired local skills into $CODEX_HOME/skills/ (defaulting to ~/.codex/skills/) at execution time so Codex can discover "$paperclip" and related skills without polluting the project working directory.
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- Paperclip injects desired local skills into the effective CODEX_HOME/skills/ directory at execution time so Codex can discover "$paperclip" and related skills without polluting the project working directory. In managed-home mode (the default) this is ~/.paperclip/instances/<id>/companies/<companyId>/codex-home/skills/; when CODEX_HOME is explicitly overridden in adapter config, that override is used instead.
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- Unless explicitly overridden in adapter config, Paperclip runs Codex with a per-company managed CODEX_HOME under the active Paperclip instance and seeds auth/config from the shared Codex home (the CODEX_HOME env var, when set, or ~/.codex).
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- Some model/tool combinations reject certain effort levels (for example minimal with web search enabled).
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- When Paperclip realizes a workspace/runtime for a run, it injects PAPERCLIP_WORKSPACE_* and PAPERCLIP_RUNTIME_* env vars for agent-side tooling.
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