Every settings field declares its tier; a value in the wrong file is an error naming
file, key and tier. A field naming a program or affecting a gate cannot be declared
instance. Secrets are references only: {"ref": "<name>"} via WIKITOOL_SECRET_<NAME> or
a user-only secrets file, {"ref": "op://..."} via op read (locked 1Password: exit 42).
The preflight records op as an optional tool. doctor gains one line per tier, docs
verify checks a committed wikitool.json for plaintext secrets, CI resolves a real
op:// value through 1password/load-secrets-action. No feature reads its settings
this way yet; without the two files every other command is unchanged.
Files changed:
- .gitea/workflows/ci.yml
- .gitignore
- AGENTS.md
- CHANGES.md
- INSTALL.md
- VERSION
- docs/explanation/README.md
- docs/explanation/configuration-tiers.md
- docs/how-to/README.md
- docs/how-to/use-1password-for-settings.md
- docs/reference/commands/README.md
- docs/reference/commands/configuration.md
- docs/reference/commands/instance-health.md
- docs/reference/commands/types-instructions-and-docs.md
- docs/reference/configuration.md
- docs/reference/exit-codes.md
- instructions/dev/doc-pull-through.md
- instructions/dev/testing-conventions.md
- instructions/preflight.md
- tools/CONTRACT.md
- tools/README.md
- tools/chemenu/cli.py
- tools/chemenu/cli_contract.py
- tools/chemenu/commands/_util.py
- tools/chemenu/commands/config_cmd.py
- tools/chemenu/commands/docs_verify.py
- tools/chemenu/commands/doctor.py
- tools/chemenu/config.py
- tools/chemenu/config_shapes.py
- tools/chemenu/prerequisites.py
- tools/chemenu/settings.py
- tools/chemenu/tests/conftest.py
- tools/chemenu/tests/test_dist_cmd.py
- tools/chemenu/tests/test_preflight.py
- tools/chemenu/tests/test_preflight_pwsh.py
- tools/chemenu/tests/test_settings.py
- tools/chemenu/toolpaths.py
- tools/preflight.ps1
- tools/preflight.sh
- tools/prerequisites.txt
Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01SnAJ7Z3CpVD3PRbN73QtU2
A mail's text is its plain text unless that is under 10% of the HTML text, then the HTML text
with a warning; one rule for .eml and .msg. The other version of the text in a
multipart/alternative is no longer an attachment.
Files changed:
- CHANGES.md
- VERSION
- docs/reference/commands/raw-material-and-uploads.md
- testfiles/mail/gog-roundcube.eml.expect
- tools/CONTRACT.md
- tools/chemenu/commands/raw_cmd.py
- tools/chemenu/filters/mail.py
- tools/chemenu/filters/msg.py
- tools/chemenu/tests/test_raw_derive.py
- tools/chemenu/tests/test_raw_derive_binary.py
Co-Authored-By: Claude Code <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01SnAJ7Z3CpVD3PRbN73QtU2
Each sheet becomes NN-<sheet>.tsv (RFC 4180, tab-delimited, A1-aligned) in a
<stem>.sheets/ folder beside the .md; sheets with formulas also get a
.formulas.tsv. derived.md is the overview. Adds testfiles/ with a CI test.
Files changed:
- .gitattributes
- CHANGES.md
- VERSION
- docs/dev/development.md
- docs/how-to/ingest-a-source.md
- docs/reference/commands/raw-material-and-uploads.md
- raw/CONTRACT.md
- testfiles/README.md
- tools/CONTRACT.md
- tools/chemenu/commands/raw_cmd.py
- tools/chemenu/filters/__init__.py
- tools/chemenu/filters/archive.py
- tools/chemenu/filters/ooxml.py
- tools/chemenu/tests/test_raw_derive.py
- tools/chemenu/tests/test_raw_derive_testfiles.py
Co-Authored-By: Claude Code <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01SnAJ7Z3CpVD3PRbN73QtU2
A derived PDF is a folder since raw derive; the raw/CONTRACT.md example was
adapted when the command shipped, the raw pending record and its generated
copies were not.
Files changed:
- CHANGES.md
- VERSION
- docs/reference/commands/raw-material-and-uploads.md
- tools/CONTRACT.md
- tools/chemenu/commands/raw_cmd.py
Co-Authored-By: Claude Code <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01SnAJ7Z3CpVD3PRbN73QtU2
PDF is read with pypdf (page markers, scan warning, encrypted files refused), Outlook .msg with olefile as a container like an .eml, and a .msg attached to a mail is quoted. Both packages are in tools/requirements.txt and imported only when such a file is derived, so a missing one stops that format alone. doctor reports one import-filter line per package-backed format.
Files changed:
- CHANGES.md
- VERSION
- docs/how-to/ingest-a-source.md
- docs/reference/commands/instance-health.md
- docs/reference/commands/raw-material-and-uploads.md
- tools/CONTRACT.md
- tools/README.md
- tools/chemenu/commands/doctor.py
- tools/chemenu/commands/raw_cmd.py
- tools/chemenu/filters/__init__.py
- tools/chemenu/filters/mail.py
- tools/chemenu/filters/msg.py
- tools/chemenu/filters/pdf.py
- tools/chemenu/tests/binary_formats.py
- tools/chemenu/tests/test_raw_derive_binary.py
- tools/requirements.txt
Co-Authored-By: Claude Code <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01SnAJ7Z3CpVD3PRbN73QtU2
A ZIP becomes incoming/<stem>/ with its files and a derived text beside each
document, the ZIP is removed and its sha256 named in the output. A mail with
attachments becomes a folder with original.eml, derived.md and the attachments;
a ZIP attached to a mail is unpacked once, an attached mail is quoted. Unsafe
entries, nested ZIPs and size limits are refused before anything is written.
Files changed:
- CHANGES.md
- VERSION
- docs/how-to/ingest-a-source.md
- docs/reference/commands/README.md
- docs/reference/commands/raw-material-and-uploads.md
- raw/CONTRACT.md
- tools/CONTRACT.md
- tools/README.md
- tools/chemenu/commands/raw_cmd.py
- tools/chemenu/filters/__init__.py
- tools/chemenu/filters/archive.py
- tools/chemenu/filters/mail.py
- tools/chemenu/tests/test_portability.py
- tools/chemenu/tests/test_raw_derive.py
Co-Authored-By: Claude Code <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01SnAJ7Z3CpVD3PRbN73QtU2
Adds the import-filter registry (tools/chemenu/filters), the raw derive command with folder form,
path-budget and name checks, DOCX/PPTX/XLSX and EML filters, the pending and accept hints, the
wiki-ingest skill step and the raw/CONTRACT.md section. First of three cuts; containers and
PDF/MSG follow.
Files changed:
- CHANGES.md
- VERSION
- docs/how-to/ingest-a-source.md
- docs/reference/commands/README.md
- docs/reference/commands/raw-material-and-uploads.md
- instructions/wiki-ingest/SKILL.md
- raw/CONTRACT.md
- tools/CONTRACT.md
- tools/README.md
- tools/chemenu/cli_contract.py
- tools/chemenu/commands/raw_cmd.py
- tools/chemenu/filters/__init__.py
- tools/chemenu/filters/html_page.py
- tools/chemenu/filters/mail.py
- tools/chemenu/filters/ooxml.py
- tools/chemenu/tests/test_raw_derive.py
- tools/chemenu/web_capture.py
Co-Authored-By: Claude Code <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01SnAJ7Z3CpVD3PRbN73QtU2
The guide said a required migration is simply carried out, which
contradicts upgrade-instance.md: the agent can stop after the first
publish, leaving a valid intermediate state that migrate status resumes
and doctor warns about. The guide now says so without retelling the
instruction's steps.
Files changed:
- docs/how-to/update-an-instance.md
Co-Authored-By: Claude Code <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01SnAJ7Z3CpVD3PRbN73QtU2
The help and exit-42 cause texts still said "rebase-review gate" after the display
name was settled; the generated reference and CONTRACT row follow.
Files changed:
- CHANGES.md
- VERSION
- docs/reference/commands/git.md
- docs/reference/exit-codes.md
- tools/CONTRACT.md
- tools/chemenu/commands/git_publish.py
Co-Authored-By: Claude Code <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01SnAJ7Z3CpVD3PRbN73QtU2
The gate list contradicted itself across AGENTS.md, instructions/gates.md and the
command records' gate names. The Rebase-Review Gate is now listed, `new project`'s
exit 42 is no longer a pseudo-gate, gates.md and the explanation page link to the one
list instead of counting, and a register plus a docs verify check keep the three in step.
Files changed:
- AGENTS.md
- CHANGES.md
- VERSION
- docs/explanation/why-gates-are-code.md
- docs/reference/commands/pages.md
- docs/reference/commands/types-instructions-and-docs.md
- docs/reference/exit-codes.md
- instructions/gates.md
- tools/CONTRACT.md
- tools/chemenu/cli_contract.py
- tools/chemenu/commands/docs_verify.py
- tools/chemenu/commands/doctor.py
- tools/chemenu/commands/git_publish.py
- tools/chemenu/commands/new_page.py
- tools/chemenu/errors.py
- tools/chemenu/mcp/server.py
- tools/chemenu/tests/test_cli_contract.py
- tools/chemenu/tests/test_docs_verify.py
- tools/chemenu/tests/test_git_publish.py
- tools/chemenu/tests/test_reference_doc.py
Co-Authored-By: Claude Code <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01SnAJ7Z3CpVD3PRbN73QtU2
The telemetry, remotes, upload and tasks loaders take field names, defaults, coercions and their Expected: text from the record and accept exactly what they did before. doctor WARNs on a telemetry file the policy silently reads differently. configuration.md carries one generated region per file, also checked in an instance. docs reference --apply now refreshes several regions in one page in sequence instead of keeping only the last.
Files changed:
- CHANGES.md
- VERSION
- docs/how-to/set-up-the-mcp-server.md
- docs/reference/README.md
- docs/reference/commands/instance-health.md
- docs/reference/commands/types-instructions-and-docs.md
- docs/reference/configuration.md
- instructions/dev/doc-pull-through.md
- instructions/setup-instance.md
- tools/CONTRACT.md
- tools/README.md
- tools/chemenu/commands/docs_verify.py
- tools/chemenu/commands/doctor.py
- tools/chemenu/commands/git_publish.py
- tools/chemenu/config.py
- tools/chemenu/config_shapes.py
- tools/chemenu/reference_doc.py
- tools/chemenu/tasks/caldav.py
- tools/chemenu/tasks/config.py
- tools/chemenu/tasks/superproductivity.py
- tools/chemenu/telemetry/policy.py
- tools/chemenu/tests/test_config_shapes.py
- tools/chemenu/tests/test_doctor.py
- tools/chemenu/tests/test_reference_doc.py
- tools/chemenu/upload.py
Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01SnAJ7Z3CpVD3PRbN73QtU2
stack-build and stack-close carry disable-model-invocation, so each phase change is
the operator's slash command; no skill offers a mid-session /model or /effort switch.
Mode rules and the phase table move to instructions/dev/stack-mode.md, publish and CI
waiting to instructions/dev/publish-and-ci.md, the ready definition to issue-tracking.md.
Files changed:
- AGENTS.md
- CHANGES.md
- DEVELOPMENT.md
- README.md
- VERSION
- docs/model-and-effort-selection.md
- instructions/CONTRACT.md
- instructions/dev/commonplace-kb.md
- instructions/dev/dev-setup.md
- instructions/dev/doc-pull-through.md
- instructions/dev/issue-tracking.md
- instructions/dev/publish-and-ci.md
- instructions/dev/stack-build/SKILL.md
- instructions/dev/stack-close/SKILL.md
- instructions/dev/stack-dev/SKILL.md
- instructions/dev/stack-mode.md
- instructions/dev/testing-conventions.md
- instructions/dev/version-parts.md
- tools/chemenu/commands/git_publish.py
- tools/chemenu/tests/test_git_publish.py
- tools/chemenu/tests/test_instructions_cmd.py
Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
Claude-Session: https://claude.ai/code/session_01SnAJ7Z3CpVD3PRbN73QtU2
torbenandClaude Code