Skip to content

README.md, docs/handbook.html and the comments in bump-leg.py and update-shape.py say when a project's own gate reaches a network: validate-pins.py asks gh api for a neutral product's pin with the operator's gh credentials, and make bootstrap, bump-leg.py and update-shape.py apply run it in the operator's environment, so none of them says any more that a project runs its own gate offline or that apply is otherwise offline (#411) - #465

Merged
brettheap merged 6 commits into
mainfrom
fix/docs-validate-pins-gh-fallback
Oct 13, 2026

Conversation

@brettheap

@brettheap brettheap commented Oct 12, 2026 •

Copy link
Copy Markdown
Contributor

Lane: openreposhape-3 (openRepoShape-3)
Claim: #411 (comment)

What

Words only. No tool's behaviour or exit code changes, and no printed line except one remediation sentence in a refusal and one --help line, each now saying what is true (below). The head is 892ec7d: the first commit 9605d40 plus a fix round for the review of it, which narrowed three claims.

  • README.md, the paragraph on validate-pins.py's referent recheck says the whole of it once: the call is gh api with the operator's gh credentials; finding no source is a named skip, exit 0; a checkout that cannot answer is the finding neutral-pin-source-unreadable, not a skip; make bootstrap, bump-leg.py and update-shape.py apply run the validator in the operator's environment, so each makes that call too; none takes --pin-source. To stay at its length the paragraph no longer says that a differing digest or a missing pin file is drift.
  • README.md, "Keeping a project's shape current": "a project runs its own gate offline" becomes "a project runs its own gate, which never consults this standard", naming "its validators' one possible network read" (the validators', not the gate's: validate.yml also reads the network, in the root checkout, the App-token mint and the legs' git submodule update). The 2026-09-03 story loses its list of manual steps, which the apply paragraph below it already gives, to stay at six lines.
  • README.md, the make bootstrap paragraph: "It adds no network call" becomes "That line adds no network call", said of the upstream-moved notice, with a clause that bootstrap's pins gate may ask gh api.
  • docs/handbook.html: the same two sentences, plus the referent-recheck paragraph the page lacked (in the legs section, where the README's sits), plus a footer history clause that also says "validators". The footer blob is git hash-object README.md.
  • scripts/bump-leg.py, the VALIDATORS comment: drops "offline", says the child gets this process's environment and what that costs. --local-remote-dir's help, "(the TEST path; no network)", is "(the TEST path; the leg needs no network, but the project's own validate-pins.py may still ask gh api)"; docs/cli.md is regenerated with scripts/render-cli-reference.py for that one hunk.
  • update-shape.py: open_upstream's docstring says the bare clone is the one place the tool fetches the shape, not the only place apply touches a network; its refusal says "the one step that fetches the shape from a network" and "nothing after it fetches the shape again" where it said "needs a network" and "everything after it is offline"; tracking_branch_of no longer says apply is otherwise offline.
  • tests/test_update_shape_pr_base.py: its docstring's "apply is otherwise offline" becomes "the base comes from the manifest".
  • README.md stays at 1419 lines, the cap, with every touched paragraph at its old length (11, 6 and 7 body lines). No cap moves.
  • AGENTS.md is not touched: it makes no offline claim about these tools, and it is at its cap.
  • No file under templates/ is touched, so no digest a project records moves. templates/assembly-root/scripts/bootstrap.py's comment ("NO NETWORK CALL IS ADDED HERE ... a bootstrap that paused to ask GitHub a question would have made the shape a dependency again") is about its upstream-moved notice and is true, so the pinned copy is left alone.

Why

The issue was re-measured on dd8d0ea (origin/main) in a scaffolded MedxGlass that pins a local stand-in openGlass, cloned away from it. Every repository is a local bare one, git reads an empty global config with GIT_ALLOW_PROTOCOL=file, and the gh first on PATH is a stub that logs its arguments and GH_TOKEN (GH_TOKEN=bogus, empty GH_CONFIG_DIR); the real gh was never reachable. The issue's claim holds, and so do its line numbers up to drift. Behaviour, identical on main and on this head (the logs diff clean after replacing shas and temp paths):

condition what the three callers print (exit 0 each) the stub logged
no source, gh exits 97 skip openGlass: pin commit <sha12> digest NOT rechecked — no local checkout (gh-unreadable: ..., pins ok gh api repos/opensoft/openGlass/git/trees/<sha>?recursive=1 (GH_TOKEN=bogus), once per caller
no source, gh answers the tree ok openGlass: pin commit <sha12> digest recomputes (gh-api-tree-recursive) the same call, once per caller
no source, no gh on PATH skip ... (gh-not-found: the gh CLI is not on PATH ...), pins ok nothing
SHAPE_PIN_SOURCE_OPENGLASS exported ok ... digest recomputes ($SHAPE_PIN_SOURCE_OPENGLASS) nothing
a checkout beside the root (validate-pins.py run directly) ok ... digest recomputes (sibling checkout (...)) nothing
the project declares no neutral product pins ok, no skip line nothing
a checkout beside the root that lacks the pinned commit FINDING neutral-pin-source-unreadable, validate-pins.py exit 1, bootstrap FAILED: pins (exit 1) nothing

The three callers are scripts/bootstrap.py, bump-leg.py --root <p> --leg spec --to <sha> and update-shape.py apply --root <p> --upstream <local clone> --at <sha> --yes --branch shape/update. Not measured: what a real, logged-in gh returns, macOS and Windows.

What each text said, and says:

where on main on this head
README.md "Keeping a project's shape current" "a project runs its own gate offline" "a project runs its own gate, which never consults this standard (its one possible network read is validate-pins.py's gh api recheck of a neutral product's pin, above)"
README.md, referent recheck "else from gh api when gh can read it" "else by gh api, with the operator's gh credentials, when gh can read it", and the three callers named
README.md, make bootstrap "It adds no network call" "That line adds no network call ... (Its pins gate may ask gh api; see above.)"
bump-leg.py VALIDATORS "a project runs its own gate offline" no "offline"; says when gh api runs, with which credentials, and the skip
update-shape.py refusal (--upstream nosuch/repo, exit 2) Remediation: this is the one step that needs a network. ... everything after it is offline. Remediation: this is the one step that fetches the shape from a network. ... nothing after it fetches the shape again.
update-shape.py tracking_branch_of "apply is otherwise offline" dropped; the sentence keeps its point, that the base is never asked of the remote
bump-leg.py --local-remote-dir help (and docs/cli.md) "(the TEST path; no network)" "(the TEST path; the leg needs no network, but the project's own validate-pins.py may still ask gh api)"
README.md "Neither answering is a named SKIP, exit 0, never a finding or a failure" held only when no source is found "Finding neither is a named SKIP, exit 0", and a checkout that cannot answer is the finding

A statement that is not wrong and was left alone: bootstrap.py's comment says its upstream notice adds no network call. That holds, and the gate it starts is documented in the README paragraph above.

Tests

On head 892ec7d (tests/test_repo_hygiene.py holds the handbook outline and footer-blob test and the README line cap; tests/test_cli_reference.py holds docs/cli.md against --help):

tests/test_repo_hygiene.py tests/test_cli_reference.py tests/test_agents_md_codes.py
tests/test_git_output_decoding.py tests/test_stdout_encoding.py
tests/test_update_shape_pr_base.py tests/test_bump_leg.py
297 passed, 2 skipped in 81.38s

The first commit 9605d40 gave the same line (297 passed, 2 skipped).

  • Skipped: tests/test_stdout_encoding.py:286 ("the default this is about is Windows' own") and tests/test_bump_leg.py:692 (needs a disk that ignores case, macOS or Windows).
  • No pin or digest test applies: no file under templates/ changed.
  • No new test. A test of the callers' gh api call passes on main and on this head, so it cannot fail on main; a test that bans a sentence would be a lint of prose. The behaviour is measured above instead.

Composes with

Trial merges (git merge-tree --write-tree --name-only <branch> HEAD) of every other origin/fix/* branch that touches a file this PR touches:

branch (PR) files shared result
fix/setup-help-offline (#452) README.md, docs/handbook.html README.md merges clean; docs/handbook.html conflicts in the footer only (the history clause and the blob line). It conflicts there with fix/bump-leg-unreadable-oserror (#403) already.
fix/bump-leg-unreadable-oserror (#403) docs/handbook.html, scripts/bump-leg.py bump-leg.py clean; docs/handbook.html conflicts in the footer only
fix/trailer-non-ascii-old-git (#376) scripts/bump-leg.py CLEAN
fix/doctor-manifest-kinds-unreadable-pin (#358), fix/doctor-root-shape-pin-unreadable (#267), fix/pin-files-not-a-list (#343), fix/update-shape-add-not-a-directory (#346), fix/update-shape-next-quoting (#374), fix/update-shape-pinned-copy-symlink (#347), fix/validate-pins-workflow-not-utf8 (#419) update-shape.py each CLEAN
landed, remote branch left behind: fix/pin-rewrite-indentation (#380), fix/update-shape-pr-rerun-pin-source (#379) scripts/bump-leg.py, update-shape.py each CLEAN
landed, remote branch left behind: fix/bump-leg-unreadable-files (#352) docs/handbook.html, scripts/bump-leg.py the same footer conflict, in a stale head
landed, remote branch left behind: fix/bump-leg-case-only-rename (#344) scripts/bump-leg.py conflicts with origin/main itself, so not this PR

Since this table was made, #403 landed on main (dba5fb0): this head now conflicts with origin/main in docs/handbook.html's footer only (README.md is unchanged on main since dd8d0ea, so the blob stays git hash-object README.md of this README). The resolution keeps both history clauses. The footer conflicts are the history clause and the blob line. #452 and this PR each edit README.md and so each move the blob; whichever lands after another recomputes git hash-object README.md after merging main, and #403's footer clause merges by keeping both.

Left out

Closes #411

🤖 Generated with Claude Code

Summary by Sourcery

Correct documentation and explanatory text so project pin validation and shape updates no longer claim to be entirely offline.

Enhancements:

  • Clarify that pin validation may query GitHub through the operator's gh credentials and that the relevant commands inherit this network-capable environment.
  • Replace inaccurate offline wording across the README, handbook, CLI reference, and tool documentation while preserving the distinction between fetching the shape and validating project pins.

Documentation:

  • Update user-facing documentation to accurately describe neutral-product pin rechecks, skip and unreadable-source outcomes, and the network behavior of bootstrap, leg bumps, and shape updates.

…ate-shape.py say when a project's own gate reaches a network: `validate-pins.py` asks `gh api` for a neutral product's pin with the operator's `gh` credentials, and `make bootstrap`, `bump-leg.py` and `update-shape.py apply` run it in the operator's environment, so none of them says any more that a project runs its own gate offline or that `apply` is otherwise offline (#411)

`templates/assembly-root/scripts/validate-pins.py` looks for a declared neutral product's tree in `--pin-source`, then `SHAPE_PIN_SOURCE_<PRODUCT>`, then a checkout beside the assembly root, and only then runs `gh api repos/<owner>/<product>/git/trees/<commit>?recursive=1`; with no `gh`, no login or no network that is a `skip` line and exit 0. `make bootstrap`, `bump-leg.py` and `update-shape.py apply` start it with their own environment and none takes `--pin-source`, so for a project declaring `neutral_product_pins:` with no local checkout of the product each makes that call with whatever `gh` is logged in as. Re-measured on dd8d0ea with a `gh` stub first on PATH, GH_TOKEN=bogus and an empty GH_CONFIG_DIR: the same call, with GH_TOKEN, from all three; no call with a sibling checkout, with `SHAPE_PIN_SOURCE_OPENGLASS` exported, or for a project declaring no neutral product. Nothing in the call is new. Only the words claimed otherwise.

- README.md, in the paragraph that documents `validate-pins.py`'s referent recheck: the call is `gh api` with the operator's `gh` credentials, a skip is exit 0, the three tools run the gate in the operator's environment and so make it too, and none takes `--pin-source`.
- README.md, "Keeping a project's shape current": "a project runs its own gate offline" is "a project runs its own gate, which never consults this standard", naming the one possible network read; the paragraph's 2026-09-03 story loses its list of manual steps, which the `apply` paragraph below already gives.
- README.md, the `make bootstrap` paragraph: "It adds no network call" is "That line adds no network call", said of the upstream-moved notice, with a clause that the pins gate bootstrap runs may ask `gh api`.
- docs/handbook.html: the "offline" sentence in "Keeping a project's shape current" and the bootstrap sentence get the same words; the legs section gains the referent-recheck paragraph the page lacked; the footer's blob is the new README.md blob.
- scripts/bump-leg.py, `VALIDATORS`' comment: drops "offline" and says the child gets this process's environment and what that costs.
- update-shape.py: `open_upstream`'s docstring says the bare clone is the one place the tool fetches the shape, not the only place `apply` touches a network, and names the other two; its refusal's remediation says "the one step that fetches the shape from a network" and "nothing after it fetches the shape again" where it said "needs a network" and "everything after it is offline"; `tracking_branch_of` no longer says `apply` is otherwise offline.
- tests/test_update_shape_pr_base.py: its module docstring's "`apply` is otherwise offline" is "the base comes from the manifest".

Unchanged: every tool's behaviour, exit codes and printed lines, except the one remediation sentence above; `--help` text (docs/cli.md is not regenerated); README.md's line count (1419, the cap); AGENTS.md; every file under `templates/`, so no digest a project records moves. `bootstrap.py`'s comment that "NO NETWORK CALL IS ADDED HERE" is about its upstream notice, which is true, so the pinned copy is left alone.

Left out: a test that pins the callers' `gh api` call (it cannot fail on main); starting the three children offline as #357 did the doctor's; passing a known source to them.

Lane: openreposhape-3 (openRepoShape-3)
Co-Authored-By: Claude Sonnet 5.5 <noreply@anthropic.com>
@brettheap

Copy link
Copy Markdown
Contributor Author

(lane openRepoShape-3, 2026-10-12T19:47Z) @codex review

@sourcery-ai

sourcery-ai Bot commented Oct 12, 2026

Copy link
Copy Markdown

Sorry @brettheap, you've used your own review budget of 250,000 diff characters for the last 7 days.

You can request another review in 2 hours and 55 minutes by commenting @sourcery-ai review. Upgrade to get a review now.

@chatgpt-codex-connector

Copy link
Copy Markdown

You have reached your Codex usage limits for code reviews. You can see your limits in the Codex usage dashboard.
To continue using code reviews, you can upgrade your account or add credits to your account and enable them for code reviews in your settings.

@sourcery-ai

sourcery-ai Bot commented Oct 12, 2026

Copy link
Copy Markdown

Reviewer's Guide

This prose-only PR corrects offline/network claims across the README, handbook, and implementation comments: neutral-product pin validation may invoke gh api with the operator’s environment, while upstream shape fetching remains the sole shape-fetch step. Runtime behavior, exit codes, output, templates, and CLI references are unchanged; existing tests pass.

Sequence diagram for neutral-product pin validation in project commands

sequenceDiagram
    participant Operator
    participant Command as ProjectCommand
    participant Validator as validate-pins.py
    participant GH as gh_api

    Operator->>Command: run make bootstrap / bump-leg.py / update-shape.py apply
    Command->>Validator: run in operator environment
    Validator->>GH: request pinned tree with gh credentials
    alt gh can read the tree
        GH-->>Validator: tree response
        Validator-->>Command: digest recomputes
    else gh unavailable or unreadable
        GH-->>Validator: unavailable or unreadable
        Validator-->>Command: skip and exit 0
    end
Loading

File-Level Changes

Change Details Files
Correct documentation and code comments to describe the project gate's possible GitHub API access and operator environment.
  • Document neutral-product pin rechecks via gh api, credentials, skip behavior, and the three callers that invoke the gate.
  • Replace claims that project gates or apply are fully offline with precise descriptions of what can access the network.
  • Add the corresponding explanation to the handbook and update its README blob history.
  • Clarify bump-leg.py, update-shape.py, and test docstrings without changing runtime behavior.
README.md
docs/handbook.html
scripts/bump-leg.py
update-shape.py
tests/test_update_shape_pr_base.py
Preserve repository documentation invariants while making the prose-only correction.
  • Keep README.md at the 1419-line cap and preserve touched paragraph lengths.
  • Leave templates and generated CLI references unchanged because no behavior, template digest, or help text changed.
  • Rely on existing hygiene and tool test suites; add no new tests because behavior is unchanged.
README.md
docs/handbook.html
tests/test_repo_hygiene.py
tests/test_cli_reference.py

Assessment against linked issues

Issue Objective Addressed Explanation
#411 Make the network behavior of the three validator callers explicit: document that bootstrap, bump-leg, and update-shape apply may invoke gh api with the operator’s credentials when a neutral-product pin has no local source, and correct claims that those operations are offline. ✅

Possibly linked issues


Tips and commands

Interacting with Sourcery

  • Trigger a new review: Comment @sourcery-ai review on the pull request.
  • Continue discussions: Reply directly to Sourcery's review comments.
  • Generate a GitHub issue from a review comment: Ask Sourcery to create an
    issue from a review comment by replying to it. You can also reply to a
    review comment with @sourcery-ai issue to create an issue from it.
  • Generate a pull request title: Write @sourcery-ai anywhere in the pull
    request title to generate a title at any time. You can also comment
    @sourcery-ai title on the pull request to (re-)generate the title at any time.
  • Generate a pull request summary: Write @sourcery-ai summary anywhere in
    the pull request body to generate a PR summary at any time exactly where you
    want it. You can also comment @sourcery-ai summary on the pull request to
    (re-)generate the summary at any time.
  • Generate reviewer's guide: Comment @sourcery-ai guide on the pull
    request to (re-)generate the reviewer's guide at any time.
  • Resolve all Sourcery comments: Comment @sourcery-ai resolve on the
    pull request to resolve all Sourcery comments. Useful if you've already
    addressed all the comments and don't want to see them anymore.
  • Dismiss all Sourcery reviews: Comment @sourcery-ai dismiss on the pull
    request to dismiss all existing Sourcery reviews. Especially useful if you
    want to start fresh with a new review - don't forget to comment
    @sourcery-ai review to trigger a new review!

Customizing Your Experience

Access your dashboard to:

  • Enable or disable review features such as the Sourcery-generated pull request
    summary, the reviewer's guide, and others.
  • Change the review language.
  • Add, remove or edit custom review instructions.
  • Adjust other review settings.

Getting Help

Brett Heap and others added 4 commits October 12, 2026 20:04
…help say that the validators, not the whole gate, make the one possible network read, that a checkout found beside the root that cannot answer is the finding `neutral-pin-source-unreadable` and not a skip, and that the test path's leg needs no network while `validate-pins.py` may still ask `gh api`, so none of them claims more than the code does (#411)

The review of the first commit found three words that said more than they could.

- "its one possible network read" was said of the project's gate. The same paragraph names `validate.yml`, which is part of the gate and reads the network in the root checkout, the App-token mint and `git submodule update` of the legs, none of it through `gh api`. It is now "its validators' one possible network read" in README.md and in the handbook's paragraph, and the handbook's footer clause says "validators" too. The footer's README blob is the new `git hash-object README.md`.
- "Neither answering is a named SKIP, exit 0, never a finding or a failure" held only when no source is found. `../<product>` is taken whenever it has a `.git`, and one that lacks the pinned commit is the finding `neutral-pin-source-unreadable`, exit 1 (`bootstrap.py` prints `bootstrap FAILED: pins (exit 1)`; `bump-leg.py` and `apply` refuse), with no `gh` call. README.md and the handbook now say "Finding neither is a named SKIP, exit 0", and name that finding. To keep README.md at 1419 lines, the paragraph drops the sentence that a differing digest or a missing pin file is drift, which every validator finding already is.
- `bump-leg.py --local-remote-dir` said "(the TEST path; no network)", yet the project's own `validate-pins.py` runs in the same process's environment and may still call `gh api`. The help now says "the leg needs no network, but the project's own validate-pins.py may still ask `gh api`", and docs/cli.md is regenerated with `scripts/render-cli-reference.py`.

Unchanged: every tool's behaviour, exit codes and printed lines; README.md's line count (1419, the cap); AGENTS.md (at its cap; the nit that it never says the call exists stays with the issue author); every file under `templates/`.

Lane: openreposhape-3 (openRepoShape-3)
Co-Authored-By: Claude Sonnet 5.5 <noreply@anthropic.com>
…s-gh-fallback

Lane: openreposhape-3 (openRepoShape-3)
Co-Authored-By: Claude Sonnet 5.5 <noreply@anthropic.com>
One conflict, docs/handbook.html, in the footer every README-editing PR
rewrites. Resolved by keeping both changelog entries (main's #341, this
PR's #411) and setting the README.md blob line to `git hash-object
README.md` of the merged README. README.md and docs/cli.md merged
without conflict; docs/cli.md re-rendered with the merged
scripts/render-cli-reference.py and is byte-identical to the merge
result. README.md is 1422 lines, at its cap; nothing was tightened and
no cap was raised.

Lane: openreposhape-3 (openRepoShape-3)
Co-Authored-By: Claude Sonnet 5.5 <noreply@anthropic.com>
This was referenced Oct 12, 2026
Brings the branch up to main at f31a95a (#484 and #477 landed).

The one conflict was docs/handbook.html's footer, a clause list in
`<p class="meta">` and the README blob line. Both sides added a clause:
main's `bump-leg.py --dry-run` clause (#477), this branch's validators'
`gh api` recheck clause (#411). Resolved by keeping both, main's first,
then this branch's, and setting the blob to `git hash-object README.md`
of the merged README (5e311f1).

README.md and docs/cli.md merged without conflict. The merged README is
1422 lines, the cap in tests/test_repo_hygiene.py. docs/cli.md is what
`scripts/render-cli-reference.py --check` produces.

Lane: openreposhape-3 (openRepoShape-3)
Co-Authored-By: Claude Sonnet 5.5 <noreply@anthropic.com>
@brettheap

Copy link
Copy Markdown
Contributor Author

(lane openRepoShape-3, 2026-10-13T00:50Z) @codex review

@chatgpt-codex-connector

Copy link
Copy Markdown

You have reached your Codex usage limits for code reviews. You can see your limits in the Codex usage dashboard.
To continue using code reviews, you can upgrade your account or add credits to your account and enable them for code reviews in your settings.

@sonarqubecloud

Copy link
Copy Markdown

@brettheap

Copy link
Copy Markdown
Contributor Author

Lane: openreposhape-5 (openRepoShape-5)

(lane openRepoShape-5, v1.0.0 accuracy pass, #483; read at fix/docs-validate-pins-gh-fallback d181708 against main 5a25387, where #394 and #484 have landed; your branch is a merge of main) Three findings sit on sentences this pull request rewrites. Your replacement text already fixes two; the third is fixed by your deletion, but the deletion also removes a true half that is worth keeping. Lane 5's docs pull request (#505, branch docs/v1-accuracy, head f35e59fa, part of #483) does not touch these lines and merges clean with yours (git merge-tree --write-tree against d181708f: no conflict in README.md or AGENTS.md, both stay at their caps, 490 and 1422 lines; docs/handbook.html conflicts only in its footer).

1. README.md:705-707 (D2-F13): "Neither answering is a named SKIP, never a finding and never a failure". True: a SKIP happens only when no local source is FOUND and gh api fails. A source that is found but cannot answer is the FINDING neutral-pin-source-unreadable, exit 1 (templates/assembly-root/scripts/validate-pins.py:780, at your head and on main 5a253877 alike), including an unnamed sibling checkout that lacks the commit. Runs: no source gave skip openGlass: pin commit 2323f2da2277 digest NOT rechecked, exit 0; --pin-source openGlass=<non-repo> gave FINDING neutral-pin-source-unreadable, exit 1. Your "Finding neither is a named SKIP, exit 0 ... A checkout that cannot answer is the finding neutral-pin-source-unreadable" (your README.md:705-707) says it; nothing more needed.

2. README.md:708-709 (D2-F14, and N9 of the review): "a pin file the declaration names but that is not there, is reported as drift". The false half is the missing pin file: it is the REFUSAL neutral-pin-missing, exit 2 (validate-pins.py:686, at your head and on main), not a drift finding. Run with contracts/openglass-pin.yaml removed: REFUSED neutral-pin-missing: project.yaml declares a pin on 'openGlass' but contracts/openglass-pin.yaml does not exist, exit 2. Your replacement deletes the whole sentence, which removes the falsehood and also the TRUE half: "A digest that recomputes differently is reported as drift" is the FINDING neutral-pin-digest-mismatch, exit 1 (validate-pins.py:828 at your head; report.finding(...), "A neutral-product pin's digest no longer matches the bytes it names"), and a reader of the paragraph has nothing else that says what a recomputed digest that disagrees does. Suggested text, to keep after your "A checkout that cannot answer is the finding neutral-pin-source-unreadable.": "A digest that recomputes differently is the finding neutral-pin-digest-mismatch (exit 1); a pin file the declaration names but that is not there is the refusal neutral-pin-missing (exit 2)." If the line budget is tight, the first half alone (drop the clause about the missing file) is enough to keep the true statement.

3. README.md:1028 and 1095-1097 (D3-F8): "a project runs its own gate offline"; "It adds no network call". True: the project's own validate-pins.py falls back to gh api for a declared neutral-product pin when no local checkout answers (validate-pins.py's module docstring, "else from gh api when gh is authenticated"; scripts/repo_shape.py:931 tree_digest_from_gh, at d181708f), so the gate can reach the network, and make bootstrap runs that validator. Your rewrites of both sentences say so ("its validators' one possible network read is validate-pins.py's gh api recheck of a neutral product's pin, above"; your README.md:1028); no further change.

One detail for your list: lane 5's finding D2-F12 (the lookup order of --link-source, README.md:687-689, a bare path last) is two paragraphs above your hunk and is fixed in lane 5's pull request, which keeps your --pin-source [PRODUCT=]<path> listing as it is (it claims no order). docs/handbook.html's footer README.md blob conflicts with lane 5's only in the footer, so whichever lands second recomputes git hash-object README.md and keeps both "added (#n)" clauses.

@brettheap

Copy link
Copy Markdown
Contributor Author

(lane openRepoShape-3, 2026-10-13T01:47:08Z) Thanks for the read. Findings 1 and 3 need nothing, as you say. Finding 2: #465 lands as reviewed, with the false half gone. The true half is recorded on #460's checklist so it is not lost: "A digest that recomputes differently is the finding neutral-pin-digest-mismatch (exit 1); a pin file the declaration names but that is not there is the refusal neutral-pin-missing (exit 2)." If #505 is still open once #465 is on main, it is welcome to carry the sentence; whichever pull request adds it closes that line.

@brettheap
brettheap merged commit 48585e6 into main Oct 13, 2026
5 checks passed
@brettheap
brettheap deleted the fix/docs-validate-pins-gh-fallback branch October 13, 2026 01:51
brettheap pushed a commit that referenced this pull request Oct 13, 2026
#465 changed README.md at 699-709, 1028 and 1095 and the handbook beside them;
none of those lines is one this branch edits, so README.md and AGENTS.md merged
clean (1422 and 490 lines, the caps tests/test_repo_hygiene.py holds them to).
The handbook footer conflicted as it does for every docs pull request: the
history clauses of #477, #411 (from main) and #483 (here) are all kept, in that
order, and the README.md blob is recomputed for the merged README.md.

Lane: openreposhape-5 (openRepoShape-5)
Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
brettheap pushed a commit that referenced this pull request Oct 13, 2026
Conflict: docs/handbook.html's footer, the paragraph that names each addition and the `README.md blob <sha>`. Kept both sides' clauses (main's #477 and #411, then this branch's #476 and #492) and set the blob to `git hash-object README.md` of the merged README.md, bd45dcf. No other file conflicted.

Lane: openreposhape-3 (openRepoShape-3)
Co-Authored-By: Claude Sonnet 5.5 <noreply@anthropic.com>
brettheap added a commit that referenced this pull request Oct 13, 2026
… writes its pin file as the scaffold does, so an adopted root passes `validate-pins.py` (#273); a `--pin-source` that cannot answer is `pin-source-unreadable` (#339) (#508)

**Brought up to date after #409 squash-landed** by merging origin/main (9736424, #409's squash) as f9ed46f. Its `scaffold-project.py` conflict was resolved to this branch's side once `git diff b70a07d 9736424 -- scaffold-project.py` (#409's final head against its squash) came out empty. So the file is the one tested on this branch plus main's own later changes to it, and holds nothing of #409's; details below.

This branch carries #275's adopt half. It was built on `fix/pin-source-env-collisions`, PR #409 (#275's scaffold half and its fix round), merged at 6494714 as 583f647, over the earlier 5690235 (34dbd86). After 6494714, #409 only merged main, five times, up to its final head b70a07d, and none of those merges has a hand edit (`git show --remerge-diff` is empty for each). Adopt's refusal of two products that share a source variable goes through #409's function, so this branch lands after #409. It was never rebased.

`git diff b70a07d 9736424` is empty for each file #409 touched: `scaffold-project.py`, `scripts/repo_shape.py`, `templates/assembly-root/scripts/validate-pins.py` and `tests/test_pin_source_env_collisions.py`. What f9ed46f resolves, four files with one hunk each:
- **`scaffold-project.py`.**
  - The conflict hunk is main's block from `PIN_COLLISION_REMEDIATION` through `_pin_collision_remediation`, which #409's squash edits: it adds `PIN_VARIABLE_REMEDIATION`, `_colliding_pin_variables` and `_pin_collision_remediation` and changes `_refuse_colliding_pins`. This branch moved all of that to `scripts/shape_materialize.py`. The hunk takes this branch's side. (The merge commit's message says "re-adds"; this is the exact account.)
  - #409's auto-merged import of `PIN_SOURCE_ENV_PREFIX, pin_source_env_collisions` is dropped, because nothing in the file uses either name any more.
  - It is not `git checkout --ours` of the whole file. Main changed the file beyond #409 since this branch last merged it: #355's `--tracking-branch` check (6c2a371) and a73b4e9's `RULESET_HINT`. Those lines stay.
  - The result is the file `git merge-tree` gives for this branch with main before the squash (518010b). Its diff from the file tested here has the same patch-id as main's own 3ef059c..518010b change to it.
- **`templates/assembly-root/scripts/validate-pins.py`.** Main's side, which is #409's final blob, with main's #359 workflow reader in it. This branch had no change of its own to the file beyond #409.
- **`adopt-project.py`, `_commit_the_split`.**
  - Main: #445 wraps the function in its late-failure `try`, and #394 builds an `append` with the plan's submodule record.
  - This branch: its only edits there were a comment and `neutral_pins=_recorded_pins(plan)` on the materializer call.
  - Both now sit on main's call inside the `try`: `append=append, neutral_pins=_recorded_pins(plan)`.
- **`docs/cli.md`.** It is regenerated with `scripts/render-cli-reference.py`, and `--check` is ok. It differs from main's only in the `--pin`, `--pin-owner` and `--pin-source` help of `adopt-project.py plan`.

`scripts/repo_shape.py`, `templates/assembly-root/scripts/validate-pins.py` and `tests/test_pin_source_env_collisions.py` are main's blobs, which are #409's: this branch adds nothing to them. Nothing of #409 is lost. Its scaffold behaviour is `shape_materialize.refuse_colliding_pins` and `pin_variable_collisions`, keyed by #409's `pin_product_key`.

**73d65c6, after the merge.**
- **The change.** `_read_pins` reads `plan.get("pins")` where it read `plan.data.get("pins")`.
- **Why.** #445's `tests/test_adopt_late_failure.py` hands `_commit_the_split` a `SplitPlan` as its plan, a `dict` that adds `entries`. On f9ed46f, three of its tests stopped at "committing the split" with `AttributeError: 'SplitPlan' object has no attribute 'data'` (3 failed, 83 passed in that file).
- **Nothing else changes.** `Plan.get` with no default returns `plan.data.get(key)` exactly, so a loaded plan reads as before.

`adopt-project.py plan --pin` took a NAME only (`--pin openGlass`) and refused a trailing `@<commit>`. `plan`, `check` and `execute` each exited 0, and `execute` printed `adoption verified`. The manifest then listed the name in `neutral_product_pins:` with no `contracts/<product>-pin.yaml` beside it, and on its first run the adopted root's own `validate-pins.py` refused it as `neutral-pin-missing`.

#273's table, reproduced on c7c02fa with the issue's own commands (local bare remotes, and a stub `gh` that exits 97):

| `--pin` | c7c02fa | this branch |
|---|---|---|
| `openGlass` | `execute` exit 0, `- openGlass`; clone's `validate-pins.py` exit 2 `neutral-pin-missing` | `plan` exit 2 `pin-malformed`, with the scaffold's remediation (`--pin openGlass@<40 hex>`); no plan is written |
| `opensoft/openGlass` | exit 0, `- opensoft/openGlass`; exit 2 `neutral-pin-missing` for `contracts/opensoft/openglass-pin.yaml` | `plan` exit 2 `pin-malformed` |
| `spec` | exit 0; `validate-pins.py` exit 0, reading the leg's `contracts/spec-pin.yaml` as the neutral pin | `spec@<sha>` is `adopt-pin-collides` at `plan` |
| `shape` | exit 0; `contracts/shape-pin.yaml` read as the neutral pin | `shape@<sha>` is `adopt-pin-collides` at `plan` |
| `openGlass@<sha>`, `opensoft/openGlass@<sha>` | `plan` exit 2 `adopt-pin-malformed` | `plan`, `check` and `execute` exit 0, and `gh` is called 0 times. `contracts/openglass-pin.yaml` is written and the manifest lists `- openGlass`. In the clone, `validate-manifest.py` exits 0, and `validate-pins.py` exits 0 with `openGlass: pin commit … digest recomputes` |

Brett ruled for decision 1's first option ("go with your recommendation on #273"): adopt takes the scaffold's pin and writes the scaffold's pin file. That reverses the NAME-only `--pin` from #6, and the comment that described it is replaced with the new contract.

- **One implementation.** The scaffold's pin code moved into `scripts/shape_materialize.py`, next to `neutral_pin_path` and the materializer that writes the file. What moved:
  - `PIN_ARG_RE`, `parse_pin`, `pin_digest_from_source` and `pin_digest_from_gh`;
  - `declared_pin_values`, `declared_pin_products` and `PIN_COLLISION_REMEDIATION` (in #309's wording);
  - from #275's branch, `PIN_VARIABLE_REMEDIATION` and the variable check;
  - `_refuse_colliding_pins`, split into the pure `pin_collisions` and `pin_variable_collisions`, and `refuse_colliding_pins(refusal=...)`, which raises one refusal for both.

  The code did not move verbatim. `_refuse_colliding_pins` became the three functions above; `pin_digest_from_source` was rewritten for #339 (below); and fix round 1 changed three of them (below): `pin_variable_collisions` keys each pin by #275's `pin_product_key`, `pin_digest_from_source` spells a path that is not printable, and `pin_digest_from_gh` refuses a missing `gh`. The scaffold's behaviour is otherwise unchanged. `scaffold-project.py` imports what it calls under its old names. Lane 5's review ran 34 scaffold cases (every pin refusal, the `gh` stub's four modes, dry and real successes) on 34dbd86 and on this branch at 7a94b6b. rc, stdout, stderr, the `gh` log and the files made were identical, apart from the shape's own commit and digest and #339's row. Its pin tests and #275's pass as they are. `tests/test_git_output_decoding.py`'s exemption for `pin_digest_from_gh` follows the function to its new file.
- **`plan`.** `--pin`, `--pin-owner` and `--pin-source` mean what they mean for the scaffold. `plan` reads the digest from `--pin-source` or `gh api`, and records product, repository, commit, digest and `digest_source` in the plan, so `check` and `execute` read no network for a pin. `plan` refuses:
  - a name with no `@<commit>`, as `pin-malformed`. That includes an empty `--pin ''`, which adopt used to drop and now refuses, as the scaffold always has;
  - `spec`, `code` and `shape`, in any case, as `adopt-pin-collides` (#273 decision 4), in the scaffold's sentence and remediation (#241, #309);
  - one product given twice, the same way, whether it is a repeat or two names that share one file (decision 5);
  - two products that one `SHAPE_PIN_SOURCE_<PRODUCT>` names, such as `open-glass` and `open_glass`, the same way, through #275's check;
  - a leg path over a pin's file, as `adopt-leg-path-collides`;
  - a `--pin-source` path that `check` would refuse in `digest_source:` (fix round 1), as `adopt-unwritable-value`. It is asked only when a `--pin` records the path;
  - with no `gh` on PATH and no `--pin-source`, `gh-not-found` (fix round 1).
- **`check` and `execute`.** These are new `check` findings, and `execute` refuses each one before any leg exists. They come from `_leg_findings`, the list `check` and `_refuse_what_check_finds` share:
  - `plan-pin-unrecorded`: a name alone (an old plan's `pins: [openGlass]`, or a hand edit), or an entry missing its commit or digest;
  - `plan-pin-malformed`;
  - `plan-pin-collides`, which covers two pins at one file, a pin at a file the shape writes, and two products that share one source variable;
  - `plan-root-holds-pin`: a source path kept in the root at the pin's file. The materializer would write the shape's pin beside it under `shape/`, and `validate-pins.py` would read the source's file instead.

  How each finding ends:
  - `plan-pin-unrecorded` and `plan-pin-malformed` end with the `plan --pin <product>@<40 hex commit>` that records the pin whole.
  - `plan-pin-collides` ends with re-running `plan` with each product once, or, for two products that share a source variable, with one product of each such group.
  - `plan-root-holds-pin` ends with the kept path's own remedy: send that entry to a leg, `drop` it, or rename it in the source and re-run `plan`.

  A leg moved over a pin's file in the plan is `plan-leg-path-collides`.
- **Also part of #386: its `pins:` row.** A hand-edited `pins:` that is not a list (a name such as `pins: openGlass`, a number, a mapping, a quoted string) is now `plan-pin-malformed` in `check` (`` `pins:` is 'openGlass', not a list of pins ``), and `execute` refuses it before any leg exists.
  - Where: `_read_pins` in `adopt-project.py`; the test row is `plan-pin-malformed-not-a-list` in `tests/test_adopt_pins.py`.
  - Before: on main, `check` said `plan ok` for the name, the mapping and the string, and gave a traceback for the number (reproduced by lane 5's review on cb7063f). #386 records that `execute` then wrote the name as eight one-letter pins.
  - Not fixed here: #386's other keys, `allow_empty_legs:`, `paths:`, `legs:` and `source:`, so #386 stays open. Lane 2's #435 takes all of #386, `pins:` included, and its `pins:` rule keeps only text items where this branch writes mappings; whichever lands second reconciles them (#435 (comment), and "Where the meaning meets" below).
- **`execute`.** It writes each pin through `materialize_assembly_root(neutral_pins=...)`. The manifest lists the product with the owner stripped (decision 3), so the entry and the file agree.
- **Docs.** `--help` is updated and `docs/cli.md` regenerated (`render-cli-reference.py --check` ok).

`pin_digest_from_source` caught only `Refusal`. A directory that is no clone is git's own failure, so it was always `pin-source-unreadable`, exit 2. A path `subprocess.run` cannot enter never reaches git: it is a `FileNotFoundError`, `NotADirectoryError` or `PermissionError` out of `cwd=`, and nothing caught it. `scaffold-project.py --pin ... --pin-source <that>` ended `--dry-run` and the real run alike in a traceback, exit 1. Since the move above, `adopt-project.py plan --pin` reads its digest through the same function and ended the same way. Both reach it through `declared_pin_values`, and `check` and `execute` read no source, so that call is the only reader.

The issue's table, run on ab623dd for the scaffold and on d806e8f for `adopt-project.py plan` (adopt has no `--pin-source` on ab623dd), then on this head. `gh` is a stub that logs and exits 97, with `GH_TOKEN` bogus and an empty `GH_CONFIG_DIR`; it was called 0 times in every run:

| `--pin-source` | before | this branch |
|---|---|---|
| a directory that is not a clone | `pin-source-unreadable`, exit 2 | unchanged |
| a path that does not exist | `FileNotFoundError` traceback, exit 1 | `pin-source-unreadable`, exit 2: `<path> could not answer for opensoft/openGlass @ <40 hex>: no such directory` |
| a file | `NotADirectoryError`, exit 1 | exit 2, `... it is a file, not a directory` |
| under a parent this user cannot enter | `PermissionError`, exit 1 | exit 2, `... Permission denied` |
| a symlink loop (not in the issue) | `RuntimeError` out of `Path.resolve()` on 3.12, exit 1 | exit 2, `... Too many levels of symbolic links` |

The real run and `--dry-run` give the same stdout and stderr, and nothing exists afterwards (no remote directory, no work directory; for adopt, no plan file).

What changed, in `scripts/shape_materialize.py` only:
- `pin_digest_from_source` catches `OSError` as well as `Refusal` and raises the existing `pin-source-unreadable` with its remediation unchanged. The message names the path and the reason.
- `stat()` judges the source inside the guard, as #312 does in `validate-pins.py`, and the sentences are that file's: a missing path, or one beneath a file, is "no such directory"; a file is "it is a file, not a directory"; any other `OSError`, from `stat()` or from git's `cwd=`, is the system's own reason (`strerror`). It is not `exists()`/`is_dir()`, which before 3.14 swallow only a missing path. A source `stat()` can read but `cwd=` cannot enter, a directory with no search bit, fails in `tree_digest` and the same guard answers it.
- `declared_pin_values` resolves the path through a guarded `_resolved_pin_source`. `Path.resolve()` raises a `RuntimeError` on a symlink loop before 3.13 (an `OSError` since), before the digest was asked for. As typed, `stat()` meets the loop and says so.
- A source that answers is read exactly as before: a relative path resolves against the working directory, a symlink to a clone is followed, `digest_source` reads `local-clone (<path as typed>)`, and the digest is `tree_digest`'s.

`tests/test_pin_source_unreadable.py` (46 tests in the #339 commit; fix round 1 adds 17 for S1 and moves one, below) runs each case through `scaffold-project.py --dry-run`, its real run and `adopt-project.py plan`: missing, a file, beneath a file, relative and missing, a parent and a source with no search bit (skipped on Windows and as root, by a mark, so before any fixture builds a directory), a 300-character name, a symlink loop (skipped on Windows) and a directory that is no clone. Each asserts exit 2, the refusal naming the path and the reason, its remediation, no traceback and nothing created. It also holds `--dry-run` and the real run to the same stdout and stderr, checks the path is printed escaped under an ASCII stderr and as a surrogate when it is not UTF-8, and checks that a relative source and a symlink to a clone read as before. The session `gh` guard fails any test whose run called `gh`.

origin/main ab623dd reached this branch through implQ's branch: 34dbd86 is a30091f merged with ab623dd. One file conflicted there, `templates/assembly-root/scripts/validate-pins.py`, in seven hunks, because #312 (8cdca5e) replaced `keyed_sources` and `default_source` with `PinSources` and #275 added `env_shared` and `shared`. #312's blob is the same at its PR head, at the squash and at ab623dd, so it landed the file implQ resolved against. The resolution keeps #312's side in all seven and adds #275's on top:

| # | hunk | resolution |
|---|---|---|
| 1 | `resolve_neutral_pin_source` signature | #312's `sources: PinSources` and 3-tuple return, plus #275's `env_shared: bool = False` |
| 2 | its docstring tail | #312's `Returns (path, how, typed)` text, plus #275's "Rule 2 is skipped when `env_shared`" paragraph |
| 3 | `_recompute_neutral_pin_digest` signature | #312's `sources`, plus #275's `shared: frozenset[str]` after `report` |
| 4 | the `resolve_neutral_pin_source(...)` call inside it | #312's 3-tuple unpack, plus `env_shared = product.casefold() in shared` and the extra argument |
| 5 | `_check_one_neutral_product_pin` signature | #312's `sources`, plus #275's `shared` |
| 6 | its call of `_recompute_neutral_pin_digest` | `sources, report, shared` |
| 7 | `_check_neutral_product_pins` docstring and body | #312's `PinSources(...)` and `_note_unused_pin_sources`, plus #275's paragraph, `_report_pin_source_collisions(products, report)` and `shared = frozenset(pin_source_env_shared(products))` |

This branch's own merge of 34dbd86 (5690235) had no conflict, and neither had its merge of #409's fix round, 6494714 (583f647). That fix round made `neutral-pin-source-collides` a note and keyed "one product" by `repo_shape.pin_product_key`. At 421e4e5, `templates/assembly-root/scripts/validate-pins.py`, `scripts/repo_shape.py` and `tests/test_pin_source_env_collisions.py` were byte-identical to the tree `git merge-tree` gives for 6494714 with origin/main 3ef059c (blobs 5604007, 091966b, 5220787), so this branch added nothing to those three files beyond #409. The 34dbd86 merge brought in #335, #312, #317, #270 (f795cf7), #344 and #349 with no conflict. Earlier merges of origin/main (87373a6, for #309's reworded constant, and e43fa95) are unchanged.

Fix round 1 merged origin/main three more times:
- **cd1fc79 (2bcfa69).** It brought #245, #351, #350, #345, #372, #371, #354, #380, #377 and the rest since ab623dd, with no conflict.
- **45e01f4 (4098b61).** It brought #396's `tests/test_agents_md_codes.py`. That test finds `scaffold-pin-collides` as a string constant of `scripts/shape_materialize.py`, which `SHIPPED` lists.
- **3ef059c (421e4e5), #314.** One conflict, one hunk in `adopt-project.py`. This branch's `_refuse_an_unrecordable_pin_source` and #314's section "The project must be able to hold what `execute` writes into it (#261)" were added at the same place; both are kept. Where the two meet, lane 5's earlier recipe applies:
  - `_flag_plan` builds each pin as the `PIN_FIELDS` mapping `plan` writes, not `list(pins)` of products. So the plan `plan` asks the validator about is the plan it writes.
  - #314's `test_plan_asks_what_check_asks_of_the_same_keys` plans `--pin openGlass@<commit> --pin-source <stand-in>` where it planned the name alone, which `plan` now refuses.

Then f9ed46f, after #409 squash-landed, and 73d65c6 after it (top of this description).

On the merged tree exactly one test failed: `tests/test_adopt_template_values.py::test_check_finds_and_execute_refuses_a_hand_edited_value[pins-surrogate]`. It plans, then hand-edits the plan to `pins: ["openX\ud800"]`, a name-only pin with a lone surrogate. Before this branch the refusal's headline was `REFUSED plan-unwritable-value`. A name-only pin in a plan is now `plan-pin-unrecorded` (#273), so `check` has a second, independent finding for that very plan, and the headline is the first finding's:

```
REFUSED plan-pin-unrecorded: 2 finding(s) ...
FINDING plan-pin-unrecorded: `pins:` entry 1, 'openX\ud800', is a name with no commit and no digest ...
FINDING plan-unwritable-value: a `pins:` item is 'openX\ud800', which `execute` writes into the assembly root's `project.yaml`, and it holds a lone surrogate ...
```

Nothing about #270's contract changed. The lone surrogate is still found as `plan-unwritable-value`, listed under the refusal, and `execute` still refuses before any leg exists. `check` builds `_leg_findings`, where `_pin_findings` sits, before it calls `_value_findings`, so the pin finding comes first. d806e8f changes one assertion for that row, `pins` only: the headline is `REFUSED plan-pin-unrecorded: ` where it was `PLAN_REFUSED`. The other 15 rows and the finding assertions, including the `plan-unwritable-value` line, are untouched.

Lane 5's review of 7a94b6b found 3 should-fix and 5 nits. Each is answered here:
- **#409's `pin_product_key` (review N1).** The merge of #409's fix round could not carry it, because this branch had moved the function that used it out of `scaffold-project.py`. `pin_variable_collisions` now keys each pin by that function, where it casefolded. `openß` and `openss` are two pin files and one `SHAPE_PIN_SOURCE_OPENSS`, and a casefold named each of the two pins twice. No `--pin` or recorded `pins:` entry `PIN_ARG_RE` admits can spell either, so the test asks the function directly. `refuse_colliding_pins`' docstring now says, in #409's words, that the root's `validate-pins.py` only notes such a pair.
- **S1, a `--pin-source` path that is not printable.** `pin_digest_from_source` names the path as typed unless it is not printable (`str.isprintable`), and then as Python's `repr` spells it (`shown_source`). That covers the refusal's head and git's own reason, which names the directory it ran in. Printed raw, an ESC reached the terminal, and a line break or a carriage return began a line of the path's choosing, a forged `REFUSED` line among them, from the scaffold and from adopt. The traceback #339 replaced had shown a `repr`. A printable path is named byte for byte as before.
- **S2, no `gh` on PATH.** `pin_digest_from_gh` refuses as `gh-not-found`, exit 2, as `repo_shape.tree_digest_from_gh` names it, and offers `--pin-source`. It was a `FileNotFoundError` traceback, exit 1, from the scaffold and, new with this branch, from `adopt-project.py plan --pin`.
- **S3, a hand-edited `commit:` or `tree_sha256:`.** The lane's decision is to accept it and document it (option (c)); no behaviour changed. A pair that disagrees passes `check` and `execute` (`adoption verified`), because neither reads a network for a pin, by design. The adopted root's own `validate-pins.py` then exits 1 with `neutral-pin-digest-mismatch` wherever it can read the product. `check` now says so once, after the pins it will write: "each pin as `plan` read it, not read again here: the root's own `validate-pins.py` recomputes its digest wherever it can read the product". Options (a), `execute` recomputes before it creates the legs, and (b), `check` recomputes from a clone still on the machine, are filed as #449.
- **N2, a `--pin-source` that `plan` cannot record.** `plan` asks `check`'s question (`one_printable_line`) of the path it records in each pin's `digest_source:`, before any digest is read. It refuses one that fails as `adopt-unwritable-value`, in #270's words (`unwritable_reason`), or as "an invisible formatting character" where those name nothing. Before, it was planned, exit 0, and printed raw in the report. `check` then refused it as `plan-pin-malformed` and said to re-run the same `plan`. The report's `pin` line and `check`'s `write` line now spell the digest's source with `_shown`. The scaffold half is pre-existing (a line break in the path is written into the pin file; a byte that is not UTF-8 dies after all three repositories exist) and is filed as #450.
- **N3, six hunks no test guarded.** Each now has a test that fails when it alone is reverted:
  - the two name guards (a `pins:` name holding an ESC and a forged line);
  - the lower-casing of the commit and the digest (an upper-cased hand edit);
  - the `digest_source` printability check;
  - the not-text check (`commit: 1234567` unquoted);
  - the gitlink filter (a submodule kept where the pin is written is `plan-submodule-root` alone).
- **N4.** This body.
- **N5, #339's third decision.** A `--pin-source` that nothing reads is still silent, now in adopt too. This PR does not decide it. #451, filed, lays out refuse, note and leave, so closing #339 loses nothing.

Lane 5's second review, of 421e4e5, found no blocking item, 2 should-fix items and 3 nits. The two should-fix items are this body: the landing after #409 (above) and #386 (above). The code needed no change for them. f63d1ed adds two tests and no code:
- **n1. `plan` asks nothing of a `--pin-source` no `--pin` records.** With the `args.pin and` guard dropped, such a path holding an ESC or a zero-width joiner was refused in a sentence naming no file ("`execute` writes into , and ..."), and every test still passed. `test_a_pin_source_no_pin_records_is_not_asked_about` holds the plan to exit 0 and `pins: []`, with the path named nowhere in the plan or the report. The ESC row is POSIX-only by the file's `POSIX_NAMES` mark; the zero-width joiner row runs everywhere. It holds #451's answer today, silence, so a decision there changes this test on purpose.
- **n2. A printable `--pin-source` is printed as it is.** With `_spelled` in place of `_shown` in `plan`'s `pin` line, every test still passed. `test_a_printable_pin_source_is_printed_as_it_is` holds `plan`'s `pin` line, and `check`'s `write` line for the plan `plan` wrote, to their exact text, ending `(local-clone (<path>))` with no backtick.
- **n3** needs a code change and is left out (below).

**Fix round 2, on f63d1ed.** Each run had a `gh` stub first on PATH (it logs and exits 97), `GH_TOKEN` bogus, an empty `GH_CONFIG_DIR`, `git-filter-repo` 2.47.0 next on PATH, and the identity blanked with `GIT_CONFIG_COUNT`; the session `gh` guard came first inside each run.
- **The pin set: 812 passed, 2 skipped.** It covers adopt pins, adopt plan, #339's file, #275's tests, the pin and neutral-pin validators, git output decoding, adopt template values, CLI reference, scaffold pin and reuse, scaffold pin collisions, #314's two files and #396's file. The skips are `test_adopt_plan.py:403` (no MedxEHR clone) and `test_adopt_template_values.py:223` (this host reads `git config user.name` from the repository, not from `GIT_CONFIG_GLOBAL`). That is fix round 1's 809 passed, plus the three new rows.
- **Shape doctor and scaffold leg-path collisions: 369 passed, 3 skipped** (the PowerShell line exists only on a Windows host).
- **Mutation probes**, each one line changed in a throwaway worktree, over `tests/test_adopt_pins.py` and `tests/test_pin_source_unreadable.py` less the five end-to-end adoptions:
  - the `args.pin and` guard dropped: 2 failed, both n1 rows;
  - `plan`'s `pin` line `_spelled`: 1 failed, the n2 test;
  - `check`'s `write` line `_spelled`: 2 failed, the n2 test and `test_an_upper_cased_hand_edit_is_written_lower_cased`;
  - `plan`'s `pin` line raw: 1 failed, the no-break-space test that already guarded that hunk.

**On the merged tree, 73d65c6** (the merge f9ed46f and the `_read_pins` commit), with the same harness:
- **The pin set** above, with #445's `test_adopt_late_failure.py`, `test_adopt_git_reads.py` and `test_adopt_filter_repo_failure.py` and #387's `test_adopt_empty_symlinks.py` and `test_adopt_root_manifest.py`: **988 passed, 2 skipped**. The skips are the two above.
- **Shape doctor, scaffold leg-path collisions and the adopt suites:** **967 passed, 3 skipped** (the PowerShell line). The adopt suites are e2e, execute refusals, verify, root shape paths (#387's too), leg-path collisions, clone template, ignored shape files and submodules.
- **On the merge alone, f9ed46f** (the same tree as before the `_read_pins` commit): `tests/test_adopt_late_failure.py` gave 3 failed, 83 passed, the three `AttributeError` rows above.
- `render-cli-reference.py --check` is ok on the merged tree. pyflakes reports the same four warnings on `adopt-project.py`, `scaffold-project.py` and `scripts/shape_materialize.py` as before the merge.

**Fix round 1, on 421e4e5.** Each run had `git-filter-repo` 2.47.0 on PATH and the identity blanked with `GIT_CONFIG_COUNT`. A `gh` stub that logs and exits 97 was first on PATH, with `GH_TOKEN` bogus and an empty `GH_CONFIG_DIR`, and the session `gh` guard came first inside each run.
- **The pin set:** 809 passed, 2 skipped (the same files and skips as above).
- **Doctor and scaffold:** 782 passed, 3 skipped (the PowerShell line exists only on a Windows host). It covers shape doctor, scaffold leg-path collisions, scaffold e2e, referent chain links, naming policy, repo hygiene and #351's free-text values.
- **The adopt suites:** 882 passed. It covers e2e, execute refusals, verify, spec-only, leg paths, root shape paths, plan escapes, leg-path collisions, clone template and submodules.
- **Before the #314 merge,** on 74ce4d9's tree: the first two sets gave 577 passed, 2 skipped and 782 passed, 3 skipped. On 2bcfa69's tree (the merges alone, before the fix) they gave 542 passed, 2 skipped and 782 passed, 3 skipped. After the 45e01f4 merge, `tests/test_agents_md_codes.py`, repo hygiene and CLI reference: 110 passed.
- **Lane 5's second review** also ran 421e4e5 merged with main cb7063f and with 53bee5b: the pin set, the manifest-value set, and the doctor set with #357's `tests/test_doctor_validator_rows.py`. All passed, with only the skips above.

Proof that fix round 1's tests test something:
- **On 2bcfa69's tree,** with this head's two test files laid over it, 31 of the new rows fail:
  - S1: 17;
  - N2 and its report spelling: 7;
  - S2: 3;
  - the `pin_product_key` port: 2;
  - `check`'s S3 line: 1;
  - the not-UTF-8 `adopt plan` row: 1.

  The N3 rows pass there, as they must: they guard hunks this branch already had.
- **Mutation probes.** Each hunk was reverted alone, in a throwaway worktree, and both test files were run: 18 of 18 were caught.
  - **The port:** the casefold keying (2 fail); the casefold lookup alone (2).
  - **S1:** the path named raw (13); git's reason named raw (2); every path `repr`'d, printable or not (27).
  - **S2:** no `except` (3).
  - **N2:** no `plan` check (11); only #270's question asked (1); the formatting-character reason said otherwise (1); the report's `pin` line raw (1); `check`'s `write` line raw (1).
  - **S3:** the line dropped (1).
  - **N3:** the `_pin_fix` name guard (1); the `_read_pins` path guard (1); the lower-casing (1); the `digest_source` check (1); the not-text check (1); the gitlink filter (1).
- **The issue rows reproduced.** S1, S2 and N2 were reproduced on 2bcfa69's tree and shown gone on the fix (a probe driving both tools; `gh` was called 0 times).

**Before fix round 1.** Runs were on 7a94b6b, with `git-filter-repo` 2.47.0 first on PATH and the repository-local `user.name` blanked with `GIT_CONFIG_COUNT` (a workstation whose standard checkout sets one fails `test_the_scaffold_refuses_with_no_elector` on main itself; CI sets none). 7a94b6b differs from ffd1297 in `tests/test_pin_source_unreadable.py` only, so the three suites that do not read that file ran on ffd1297:

- the new file: 46 passed;
- adopt pins, adopt plan, git output decoding: 172 passed, 1 skipped (the MedxEHR clone is absent);
- scaffold pin and reuse, pin collisions, e2e, referent chain links, neutral pin and pin validators, #275's tests, naming policy, repo hygiene, CLI reference, scaffold leg-path collisions: 571 passed;
- shape doctor: 254 passed, 3 skipped (the PowerShell line exists only on a Windows host);
- the new file with repo hygiene, git output decoding and CLI reference, once more after the last edit: 176 passed.

Earlier on 5690235 and d806e8f, before the #339 commit: the adopt suites (e2e, execute refusals, verify, spec-only, leg paths, root shape paths, plan escapes, leg-path collisions, clone template) 740 passed, and `tests/test_adopt_template_values.py` with #273's other adopt tests 489 passed, 2 skipped. They were not re-run on 7a94b6b: the #339 diff touches `pin_digest_from_source` and the call in `declared_pin_values`, which those suites reach through `test_adopt_pins.py` only. Nothing was run on macOS or Windows.

Proof the new tests test something:
- **On d806e8f.** 38 of the 46 fail, each on the traceback and its exit 1. The 8 that pass are the unchanged behaviour: the not-a-clone refusal (4 rows) and the valid-source rows (4).
- **Mutation probes.** Ten hunks reverted one at a time, each failing at least one new test: the `OSError` catch (16 fail), the catch narrowed to `OSError` only (21), the missing-path clause (9), the clause narrowed to `FileNotFoundError` (3), the `S_ISDIR` judgement (3), the loop guard (4), no resolve at all (3), the old `.resolve()` call (4), the reason as `str(exc)` (12), and the file sentence as the OS's (3).
- #273's own 52 tests still fail on c7c02fa (51 fail or error; the one that passes checks the test's own table), and its 18 mutation probes were each caught.

**Re-verified after the merge.** An independent re-verification of f9ed46f and 73d65c6 found the code correct:
- #409 is carried whole. A 30,000-case fuzz of `--pin` lists through #409's final refusal and this branch's port differed in 0 cases.
- `scaffold-project.py` equals the tested file plus main's own changes that are not #409's (same patch-id).
- `_commit_the_split` keeps #445's `try` and #394's `append`.
- `_read_pins` reads a loaded plan as before.

Its findings were all in this description (the #506 bullet and three stale facts), now fixed. Runs on the head and on its merge with main 48585e6: 988 passed, 2 skipped; and 967 passed, 3 skipped.

`git merge-tree --write-tree` was run at 01:48Z on 2026-10-13, comparing hunks per file. Each PR head, fetched from `refs/pull/<n>/head` with no `gh`, was merged with 73d65c6 and with origin/main 9736424 alone. Two sets were asked about:
- every PR this description listed before that main does not now contain;
- every PR numbered above #468 whose head main does not contain: #473, #474, #490, #491, #493, #494, #495, #496, #497, #503, #504 and #505.

**Open state, read with `gh` by the coordinator at 02:00Z and refreshed at 02:25Z after a re-verification on main 48585e6.** Every pull request named below is open. #184, #94, #96, #98, #100 and #161 are closed, and #465 landed as 48585e6. `fix/adopt-plan-quote-yaml-keywords` has no pull request. #506 (`fix/scaffold-reuse-seeded-legs`) opened after this list was made, and the re-verification reads it.

- **Landed since the last draft of this list:** #343, #346, #355, #358, #373, #378, #382, #387, #394, #397, #401, #404, #409, #419, #452, #456, #465, #466 and #484. #394's `_commit_the_split` conflict and #401's `docs/cli.md` conflict are both resolved in f9ed46f, above.
- **Clean, 20:** #266, #347, #356, #374, #376, #384, #395, #453, #467, #468, #473, #474, #490, #491, #493, #494, #495, #497, #503 and #505. #453, #468 and #491 were updated onto main since the first read and now merge clean. #507 (lane 5's #486-#488) shares only the generated `docs/cli.md` with this branch and merges clean with it.
- **Conflicting with main alone, and this branch adds no hunk:**
  - #402: `shape-doctor.py` 5;
  - #496: `shape-doctor.py` 10 and `tests/test_shape_doctor.py` 1.

**Conflicts this branch adds:**
- **#435** (3efcc7a, lane 2's `fix/adopt-plan-field-types`, for #386).
  - It adds 2 hunks in `adopt-project.py`: 5 here, against 3 with main alone. They are `render_plan`'s `pins:` line and `Plan.pins`.
  - Keep this branch's `_pin_lines` and `_pin_products`. The rest is under "Where the meaning meets".
- **#504** (37ef29a, `fix/adopt-root-kept-symlinks`).
  - It adds 1 hunk in `adopt-project.py`: 2 here, against 1 with main alone. It is the materializer call in `_commit_the_split`.
  - Keep both arguments and both comments: `append=append, neutral_pins=_recorded_pins(plan), spell=_spelled`.
- **#506** (119d8c4, `fix/scaffold-reuse-seeded-legs`).
  - It adds 1 hunk in `scaffold-project.py`. With main alone, #506 conflicts only in `docs/handbook.html`.
  - #506 inserts `LEG_TEMPLATES` right after `declared_pin_products`, which this branch moved out, and rewrites `_reusable_remotes` further down. Keeping both sides breaks the file with an unterminated string literal.
  - Keep only #506's `LEG_TEMPLATES` block. Drop #506's `declared_pin_values`/`declared_pin_products`, which moved here, and this branch's three-line `_reusable_remotes` opener, which #506 rewrites below. Resolved that way, pyflakes is clean and #506's scaffold tests pass (88).
- **`fix/adopt-plan-quote-yaml-keywords`** (ed9968f; a branch with no pull request).
  - It adds 2 hunks in `adopt-project.py`: 3 here, against 1 with main alone.
  - One is `render_plan`'s `pins:` line. Keep `_pin_lines`, which already sends product, repository and `digest_source` through `y`.
  - The other is `_refuse_unholdable_values`' signature. Keep `pins: dict`, with that branch's `_validator_judged` and `_named_as_read` above it.
- `fix/adopt-late-failure-notice` is no longer on origin. #445, the late-failure notice, is on main and merged here.

**Where the meaning meets:**
- **#435 and #386.** The coordinator has said this on #435: #435 (comment)
  - #435's `_plan_key_findings` (`plan-bad-pins`) keeps only text items in `pins:`, and its `PINS_REMEDIATION` tells a person to write `pins: [openGlass]`.
  - This branch writes each pin as a mapping, and it makes a name alone `plan-pin-unrecorded`.
  - Read from #435's code, not run: on a tree with both, the plan `plan --pin` writes is `plan-bad-pins` in `check`.
  - Whichever lands second reconciles them, with three changes:
    - `_plan_key_findings` takes this branch's mappings, or leaves `pins:` items to `_read_pins`;
    - a `pins:` that is not a list gives one finding, not both `plan-bad-pins` and `plan-pin-malformed`;
    - `PINS_REMEDIATION` says the mapping `plan` writes.
  - Until that is done, `tests/test_adopt_pins.py::test_a_plan_with_a_whole_pin_checks_ok` fails.
- **#314.** It landed, and it is merged here (above).
- **`fix/adopt-plan-quote-yaml-keywords`.** Its pin tests are written against the name-only `--pin`. They need the `name@commit` form, and their expected `pins: [...]` line becomes `_pin_lines`'s mapping.

- **Two unwritable values are refused in two runs (lane 5's second review, n3).** `plan --elected-by 'A<LF>B' --pin openGlass@<sha> --pin-source <a path holding an ESC>` refuses the elector alone, exit 2. Re-run with the elector retyped, it refuses the source; #270's refusal names every unwritable value at once. Reproduced on 421e4e5, with `gh` called 0 times. One refusal would need a code change, not made here:
  - `_refuse_an_unrecordable_pin_source` would split into a function that returns the sentence;
  - `_checked_plan_inputs` would ask it before #270's `unwritable_values` raise, and raise one `adopt-unwritable-value` that names both, with both remediations;
  - a test would add the two-value row.

  N2's question is `one_printable_line`, not `unwritable_reason`, so it cannot simply join #270's list.
- **Docs.** The README, AGENTS.md and `docs/handbook.html` are unchanged, because none of them calls adopt's `--pin` a name. A sentence saying adopt now takes the scaffold's `--pin` is a follow-up. It costs an AGENTS.md line-cap raise, and a README edit forces the handbook's README blob to change.
- **A product spelled `null`, `true` or `false`.** The scaffold already accepts `--pin null@<sha>`: it exits 0 and builds a root whose `validate-pins.py` exits 1 `neutral-pin-entry-malformed`. Adopt's `plan` writes `product: null` through `y`, and `check` then finds `plan-pin-malformed` and refuses it before any leg exists. The one fix for both tools is in `parse_pin`, and it would change the scaffold's behaviour.
- **Wording shared with the scaffold.** `digest_source` is written bare into the pin file, so a `--pin-source` path holding ` #` is cut short there. `templates/assembly-root/contracts/neutral-product-pin.yaml` and `validate-pins.py`'s `neutral-pin-missing` remediation name only the scaffold as the writer. Two comments in `scripts/repo_shape.py` still name the scaffold's `pin_digest_from_gh`, in a digest-pinned shipped copy.
- **Filed as follow-ups:**
  - #449: S3, a hand-edited `commit:` or `tree_sha256:` that disagrees, with options (a) and (b);
  - #450: the scaffold half of N2, a `--pin-source` path no file can hold;
  - #451: #339's third decision (N5), a `--pin-source` that nothing reads.
- **`validate-pins.py` prints a `--pin-source` path raw** in `neutral-pin-source-unreadable`, the twin of S1. It is a shipped template that #409 and other open PRs edit, so it is left for its own change. No issue is filed for it yet.
- **Windows and macOS** were not run here; CI ran both (below). Two assertions that depend on what Windows answers for a path (a name past the filesystem's limit, a path beneath a file) check only the refusal and its remediation there. Fix round 1's rows that need a control character or a byte that is not UTF-8 in a path, or a symlink to `git`, are skipped on Windows by a mark, and so is fix round 2's ESC row. The rows for a no-break space and a zero-width joiner run everywhere, and so does the in-process `gh-not-found` test.

Reviewed independently by lane 5 at 7a94b6b (3 should-fix, 5 nits: fix round 1) and at 421e4e5 (0 blockers, 2 should-fix, 3 nits: fix round 2). After #409's squash, the re-verification of f9ed46f and 73d65c6 found the code correct; its 1 should-fix and 3 nits were in this description and are fixed. GitHub's update-branch then merged main twice (33bae3f, 2170526), with no hand edit. CI's tests, tests-macos and tests-windows and SonarCloud all passed at 2170526 (main cac6bb2 merged in). On that head merged with main 57c85e9 (#490, #474 and #468, none of which touches this branch's files), the pin and adopt set with `tests/test_update_shape_landing.py` gave 1112 passed, 2 skipped, and the doctor, adopt end-to-end, unfinished-merge and bootstrap set gave 1056 passed, 3 skipped (the doctor's PowerShell line, which exists only on a Windows host).

Closes #273
Closes #339

Lane: openreposhape-5 (openRepoShape-5)
Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
brettheap added a commit that referenced this pull request Oct 13, 2026
… false are corrected to what the tools do on main (#483) (#505)

**Closes #483.** #483 is the v1.0.0 "README and AGENTS.md accurate" criterion. Three read-only audits (AGENTS.md; README.md lines 1-727; README.md lines 711-end) checked every statement that names a command, a flag, an exit code, a refusal, a file or a step against the code at `ec4a7a0e` and ran the tools offline (local bare remotes, a stub `gh`, a blank git identity). They found 38 false or incomplete statements. This pull request corrects 28 of them (27 whole, and D2-F1 in part), plus two the independent review found (the `MISPLACED` text after #394, and `openRepoShape --preflight` "offers to install" git-filter-repo): 29 rows in all, D1-F9 and D3-F7 sharing one. The other ten, and the rest of D2-F1, were settled by pull requests that landed while this one was open: #484 and #465 settle six (D1-F8, D2-F7, D3-F6; D2-F13, D2-F14, D3-F8), and #491 and #468, to which this branch had routed them, settle four (D1-F1, D2-F5, D1-F2; D3-F11) and the rest of D2-F1. The two routed to #490 (D1-F9, D3-F7) were still false once it landed, and are corrected here. A last read of every line main has added to README.md and AGENTS.md since `ec4a7a0e` found nothing else false, so nothing is left open under #483.

Two independent reviews, six rounds. The first head (`bfbd4eeb`) came back CHANGES NEEDED: two corrections that were themselves untrue (exit 3; "each of those tools has its own section") and nine gaps. The second (`ccf520bd`, on a merge of `7a8b981d`, where #394 landed) fixed them and came back with no blocker and three landing changes, which the third commit (`f35e59fa`, on a merge of `5a253877`, where #484 landed) makes: D2-F5 and D1-F1's block go back to #491 (at `2d59d141` its `setup-project.py` reads the yes from the controlling terminal, so the piped one-liner asks once it lands, and its new test strips `<...>` from README.md, which a `bash <(` line breaks); D3-F5 is fixed here now that #484 has landed; and the routes are re-derived at the current heads. The same commit leaves AGENTS.md's family steps 3 and 5 as main has them, so #486-#488 (`10c93ded`) still merges clean. The fourth round merges `48585e62`, where #465 landed (README.md at 699-709, 1028 and 1095 and the handbook beside them, none of which this branch edits), and re-reads the three #465 rows on main. The fifth merges `57c85e92`, where #468 landed (the doctor's `merge` row), as `fb6a9ab4`: the doctor's verdict table, in README.md and in the handbook, takes this branch's `COMPLIANT`, `SHAPE BEHIND` and `DRIFTED` rows and main's `MISPLACED` and `INVALID` rows, and the handbook footer keeps both clauses (#424, then #483) with its blob recomputed. `aa4e1f59` (#508) then merged clean, as `83cfad54`. The sixth merges `70d0d1b3`, where #491 landed (setup asks at the person's own terminal), as `94793aeb`: README.md's "What Dana sees" paragraph takes #491's text whole with this branch's D2-F6 ("a hyphenated name"), and the handbook footer keeps #476's and #492's clauses ahead of #483's, with its blob recomputed. The same round re-reads every routed row on main, corrects D1-F9 and D3-F7 (`ea634043`), and reads what main changed in both files since `ec4a7a0e`. The first reviewer's round four came back APPROVE WITH NITS (0/0/3) and asked for one word, made at `9ac90d16`: "a hyphenated project name", since the leg names are hyphenated and pass.

**What.** `README.md` and `AGENTS.md` only, plus `docs/handbook.html` where it repeats a corrected sentence, with its footer's `README.md blob` recomputed (`git hash-object README.md` = `1417b9ec0235675da8f73ca023756411bc3fbe8a`). No tool, test, template or `docs/cli.md` changes. `README.md` hashes identically at `ec4a7a0e`, `437a360a`, `d222a124` and `7a8b981d`, so its audit line numbers held; `AGENTS.md` changed only by #394 (it adds 5 lines after line 154 and 3 more after the doctor's item 4); #484, #465 and #491 since edited both files, and #468 README.md, without changing either total. Each fix is the smallest true sentence, keeps the surrounding voice, and states only what the code or a run showed.

**The line caps.** `tests/test_repo_hygiene.py` holds `AGENTS.md` to 490 lines (#394 raised it from 482) and `README.md` to 1422, and both files stand exactly at their caps, so every correction is line-neutral. To give back the lines the longer sentences need, paragraphs that no correction touches are re-wrapped to 80 columns with no word changed:
- README.md, eight paragraphs no correction touches: macOS (`and refuses anything below 3.9`), `2. Login.`, the InkRouter ruling quote, `Each leg is pinned TWICE`, the neutral-product election paragraph (`Ruled by Brett Heap on 2026-09-05`), `Its entries are adopt-project.py plan's entries`, `This repository implements neither`, `A FAMILY holder carries both verbs too`; and the tail of the `--link-source` paragraph that D2-F12 edits. None is in README.md's family section (903-925 on main), which #486-#488 edits.
- AGENTS.md, four paragraphs no correction touches: the opening paragraph, the NO-code seeding paragraph, doctor item 1 and the park overlay item; and the first half of the doctor intro, whose second half D1-F7 edits. The family steps are main's exact bytes: an earlier head re-wrapped steps 3 and 5 (`make siblings`) and #486-#488 edits both.
- Three sentences this pass corrects give up a few words to keep a line: D2-F1's "offers to run" (no "for you"), D2-F11's "asks the same of one name", and AGENTS.md's `check` verdict list and doctor next-command item (D3-F9, D1-F7).

Word-level diffs of both files (`rvD-worddiff.py`) show only the edits in the tables below, `rvD-hunks.py` marks each re-wrapped hunk `WHITESPACE-ONLY`, and `rvD-mdstruct.py` finds the Markdown block structure, links and HTML identical (AGENTS.md 320/320 blocks, README.md 678/678).

"Where" is the audited `ec4a7a0e` for README.md (it hashes the same up to #394, and #484 and #465 changed its text and not its line count, so those numbers still point at the same places on main); AGENTS.md lines after 154 read 5 higher on main, and 8 higher after the doctor's item 4, since #394. "Evidence" is code at `7a8b981d` (the line numbers below are that file's, re-derived at the merged head `48585e62` for every tool file that #394, #484, #465 and the later landings moved), and "run" is the audit's or this pass's offline run.

| finding | where | was | now | evidence |
|---|---|---|---|---|
| D1-F3 | AGENTS.md:121 | "the preflight prints the install command" for git-filter-repo | "`execute` refuses without it, printing the install command" | adopt-project.py:4148-4158 (`_require_filter_repo`, `filter-repo-missing` + `FILTER_REPO_HINT` at 261-267), only call at 5652; `--preflight` checks git, Python, bootstrap, gh, helper, autocrlf only (setup-project.py:1110-1134); openRepoShape:212-216 |
| D1-F4 | AGENTS.md:176-178 | the row reads `code: 0 of N source paths (seeded from template)` | the table's `code` row reads `0 of N source paths (seeded from template)` | adopt-project.py:6107-6108 prints `f"  {leg:<6} {counts[leg]:>5} of {len(before)} source " f"paths{note}"`, no colon; run: `  code       0 of 2 source paths (seeded from template)` |
| D1-F5 | AGENTS.md:182 | "`MedxGlass` descends from `openGlass` only if it PINS it (2026-09-02)" | "...or pins a layer that does and records the chain (`--referent-chain`; 2026-09-02, chains 2026-09-05)" | scaffold-project.py:379-391; run: `--pin openXglass@<sha> --referent-chain openXglass,openGlass --dry-run` printed "classifies as domain-descendant / assembly" |
| D1-F6 | AGENTS.md:205-210, 258-259 | `openRepoShape --doctor` and `./shape-doctor.py` presented as one tool; "`--json` is the same report" | installed, it runs from a temporary clone deleted on exit and takes a path and nothing else; to act on a row (`--json`, `--placement-plan`, its next command) run `./shape-doctor.py --root <path>`; item 7 names `./shape-doctor.py --json` | openRepoShape:112-116 (EXIT trap), 329-352 (`shape_checkout` into `$WORKDIR/shape`), 379-392 (`run_doctor` clones when no checkout is beside it), 463-471 (`--doctor takes a path and nothing else`); run: the installed copy printed `NEXT python3 <tmp>/shape/adopt-project.py plan ...` and the directory was gone after exit; `--doctor <root> --json` printed `REFUSED: --doctor takes a path and nothing else`, exit 2 |
| D1-F7 | AGENTS.md:226-232 | next commands are "`update-shape.py apply …`, `make bootstrap`, `bump-leg.py …`"; every one "carries the exact next command"; "each of those commands has its own section above" | "Every one carries the exact next command, where one can be named — `update-shape.py check …` and its `apply`, `git submodule update …` (in a holder, its `scripts/bootstrap.py`), the project's own validator"; "Each of those commands keeps its own refusals" | shape-doctor.py:2813 and 2828 (check NEXT), 3075-3089 (`legs` NEXT is `git submodule update`, `make bootstrap` only in the trailing comment), 5044 (holder `members` NEXT); no row's NEXT is a `bump-leg.py` command (`grep -c -i 'bump.leg\|bump_leg' shape-doctor.py` was 0 at `7a8b981d`; since #495 the `pins` row's reason names two `bump-leg.py --to` lines, as text, at shape-doctor.py:1847-1856 and 1904-1922 of `ea634043`); rows with no next command: 1393, 1526-1532, 5758 (`could not be run: {exc}`); only update-shape has a section in AGENTS.md |
| D1-F9, D3-F7 | AGENTS.md:344-346, README.md:994-995, and the handbook beside it | after a bump the leg is left detached, and "`make bootstrap` in the root re-places it on its tracking branch AT the new pin; say so in your relay" (README.md: "`make bootstrap` re-places it on its tracking branch AT the new pin.") | AGENTS.md: "`make bootstrap` in the root puts it on its tracking branch AT the new pin, or says why not; relay which."; README.md and the handbook: "...re-places it on its tracking branch AT the new pin, or says why not." | templates/assembly-root/scripts/bootstrap.py at `ea634043`, `checkout_tracking_branch` (393-448): a branch behind the pin is fast-forwarded (275-340), and one ahead of it with no commit of its own is moved back (343-390, 177-187), both since #490 (`7348c57b`); a branch with commits of its own, or one that diverged, is not moved, and bootstrap prints `not moving an existing branch` (444-448); a commit made on the detached leg is left where it is, said as "which is neither" (313-322); a branch another worktree has checked out is not moved, and git's refusal is printed (226-228, 238-243) |
| D2-F1 (part) | README.md:175-178, 217-220 | step 4's preflight "prints the command for THIS machine and asks once"; git commands are "the same commands that preflight offers to run for you" | "for `gh`, its login and its credential helper"; "the same commands `setup-project.py --preflight` offers to run" | setup.sh:85 (`command -v git ... \|\| die`, exit 2 by setup.sh:40) and :76; setup-project.py:1829-1831 (`bad(GIT_MISSING); die(PREREQ_MISSING)` ahead of `preflight(opts)`); the git offer (setup-project.py:926-932, rows 787-796) is reached only by `setup-project.py --preflight` (1820-1821); the `gh`, login and `gh auth setup-git` offers at 982-1078; run, no git on PATH: `openRepoShape --preflight` printed `REFUSED: git is not installed`, exit 2, no offer. The third place (README.md:434-436) is routed to #491 |
| D2-F2 | README.md:181-183 | `openRepoShape --preflight` "exits 0 when everything is present and 1 when it is not" | "(`openRepoShape --preflight` exits 2 when `git` or a Python 3.9 or newer is missing)" | openRepoShape:446, 564 run setup.sh; setup.sh:76, 85 `die` (exit 2, setup.sh:40) before `preflight_only` (setup-project.py:1142-1166) |
| D2-F3 | README.md:269-271 | "add `--visibility private` if you want that" | "`--visibility` defaults to `private`: add `--visibility public` (or `internal`) if you want that" | setup-project.py:428 (`self.visibility = "private"`), usage :138; scaffold-project.py:310-316; run: no `--visibility` printed `[ok] visibility   private` |
| D2-F4 | README.md:306-308 | the rehearsal leaves behind `./Atlas` and three bare repositories | "...and the scaffold's three working trees, in the temporary directory its `Working trees are at` line names" | scaffold-project.py:1570-1571 (`tempfile.mkdtemp(prefix="openreposhape-")`, never removed), 1611; run: `/tmp/openreposhape-q5eeici3` held `atlas atlas-code atlas-spec` |
| D2-F6 | README.md:436-438 | "a hyphenated or lowercase name is refused here" | "a hyphenated project name is refused here" (the review's N1: `Atlas-spec` and `Atlas-code` are hyphenated and pass) | contracts/repository-naming.yaml:335-345 (`^[A-Za-z][A-Za-z0-9]*(?:-spec\|-code)?$`); run: `validate-repository-naming.py --explain atlas atlas-spec atlas-code` exit 0, `At-las` exit 1 `naming-unclassified`; the rehearsal for `atlas` ended `DONE. atlas is scaffolded and bootstrapped.` |
| D2-F8 | README.md:573-574 | every other family "is CamelCase" | "from the neutral-product, domain-descendant and family forms, all of which are CamelCase words" | contracts/repository-naming.yaml:412 (`^[a-z0-9]+(?:-[a-z0-9]+)*-wip$`), 182 (`-Install` is hyphenated) |
| D2-F9 | README.md:619-620 | the rewrite covers "both HTTPS and SSH leg URLs" | "both HTTPS and scp-form SSH (`git@github.com:`) leg URLs" | templates/assembly-root/.github/workflows/validate.yml:160-161 (two `insteadOf` rewrites) and :69-73 (`*) continue` skips any other spelling); run: `ssh://git@github.com/...` went to ssh unrewritten |
| D2-F10 | README.md:625-628 | a leg under another owner "can only be reached via `SHAPE_LEGS_TOKEN`" | "`SHAPE_LEGS_TOKEN` is read only when the App is not configured, so that leg is reachable only with the App secrets removed" | validate.yml:146-154 (`if [ -n "$SHAPE_LEGS_APP_TOKEN" ] ... elif [ -n "$SHAPE_LEGS_TOKEN" ]`); run: both set printed `leg credential source: app` |
| D2-F11 | README.md:680-682 | `validate-repository-naming.py --referent-chain openXdox,openDox` asks the same question for one name | `... --pins openXdox --referent-chain openXdox,openDox ...` asks "the same of one name" | scripts/validate-repository-naming.py:522-528 ("The first entry must be in `--pins`"); run: without `--pins`, `codexDox` classified `project-leg/assembly` (exit 0); with it, `domain-descendant` |
| D2-F12 | README.md:687-689 | `--link-source [PRODUCT=]<path>`, env, or a checkout beside the root | `--link-source PRODUCT=<path>`, env, a checkout beside the root, then a bare `--link-source <path>` | scripts/repo_shape.py:2589-2621 (`resolve_link_source`, bare path 4th); templates/assembly-root/scripts/validate-pins.py:597-632 uses the same order |
| D3-F1 | README.md:736 | "the only change to it is ONE split commit" | "the only change to its history is ONE split commit" | adopt-project.py:5355-5376 (`_set_the_topic` runs `gh repo edit <source> --add-topic` on all three), called at 5734; the topic is not history |
| D3-F2 | README.md:764-765 | `plan` "writes it into `follow_ups:`" for every such file | "lists up to eight per directory in `follow_ups:`, counting the rest" | adopt-project.py:1329-1337 (`hits[:8]`, then `… and N more file(s) under the code leg naming ...`) |
| D3-F3 | README.md:810-811 | the row reads `code: 0 of N source paths (seeded from template)` | the table's `code` row reads `0 of N source paths (seeded from template)` | as D1-F4; run: `  code       0 of 3 source paths (seeded from template)` |
| D3-F4 | README.md:958-960 | `sorted-ls-tree-r-v1` records "joined with LF" | "each followed by LF, the last one included" | scripts/repo_shape.py:904-928 (`digest.update(record); digest.update(b"\n")`); run over `HEAD:templates/code-root`: LF-joined gave `f44766c9...`, LF-terminated and `tree_digest()` both `fca315e6...` |
| D3-F5 | README.md:976 | `--dry-run` "prints the move and writes nothing", and (with #484) "`--dry-run` writes nothing, so it runs there" | "# --dry-run prints the move; it fetches into the leg and writes nothing else"; "`--dry-run` fetches into the leg and writes nothing else, so it runs there and prints that command" | scripts/bump-leg.py at `48585e62`: `fetch_leg` is called at :1453 (refspec `+refs/heads/*:refs/remotes/origin/*`, :854) and the `--dry-run` exit is at :1473, so the fetch comes first; the tool says so itself ("--dry-run: nothing was changed. The leg's object store was fetched into, which is how the digest above was computed", :1474-1477; docstring :447). Run (audit, offline): before the dry run the target object was absent from the leg and `origin/main` was f85673e; after it the object was present and `origin/main` was b9bce3e. #484 (landed) lets `--dry-run` run on the tracking branch (:1030 `and not dry_run`) and print `git switch -c`; it kept "writes nothing" at README.md:975 and in the refusal sentence, and the handbook (code comment and paragraph) says the same |
| D3-F9 | README.md:1041-1044, AGENTS.md:285-288 | `check` prints `unchanged`, `upstream-changed`, `locally-modified` or `both` | "also `already-at-target` (the root has the target's bytes) and `upstream-removed`, `unmapped` and `copy-missing`; `apply` refuses the last three" (README; AGENTS.md appends the same four after `both`: `already-at-target`, `upstream-removed`, `unmapped` and `copy-missing`) | update-shape.py:239-256 (states, `CONFLICTS`, `ORDER`), 541-642 (`_classify_row`, `_row_verdict`) |
| D3-F10 | README.md:1059-1063 | a `both` file "is refused outright" | "refused until a human merges it, commits the merge and re-runs with `--accept-local <path>`" | update-shape.py:2515-2535 (`_refuse_conflicts` excludes an accepted `both`), :1582 (`check` says "Merge it by hand, commit it, then `apply --accept-local <path>`"); run: `apply ... --accept-local Makefile` after the hand merge committed, exit 0 |
| D3-F12 | README.md:1137-1139 | "every one that is not `ok` names the exact command that fixes it" | "a row that is not `ok` names the exact command that fixes it whenever there is one to run" | shape-doctor.py:1429, 3026, 5337 build `Row(..., None, ...)` with no fix; run: `--json` on a plain directory gave `contents n/a` with no next |
| D3-F13 | README.md:1151-1153 | `COMPLIANT`: "every row ok"; one `SHAPE BEHIND` spelling; `DRIFTED`: "a copy was edited here, or a leg is off its pin" | "no row is a `FINDING`"; adds `(pin <a> -> <b>, no copied file differs)`; "edited, deleted or no longer maps onto the standard, or a leg (a member, in a holder) is off its pin" | shape-doctor.py:5942 (`COMPLIANT` is the end of the ladder, `n/a machine` is always there), 5875-5899 (`behind_verdict`), 5775-5795 (`drifted_file_reasons`), 5796-5824 (`drifted_reasons`) |
| D3-F14 | README.md:1158 | "Exit 3 is usage or environment" | "Exit 3 is usage or environment (a flag argparse rejects is exit 2) — nothing about it is a statement about the tree you pointed at: no such path, a refused `--placement-plan`, a `shape-doctor.py` not sitting in a checkout of the standard, or a pin naming a commit **this** checkout does not carry (`CANNOT ANSWER`)" | shape-doctor.py:6029-6051 (plain argparse, exit 2), 6061-6082 (the exit-3 paths, among them `except Refusal: return 3` for the flag), 4547-4553 (`shape-doctor-no-placement-audit`), docstring :227 (`3  usage or environment`); tests/test_shape_doctor.py:5844-5858 asserts `returncode == 3`; runs: `--bogus` rc 2, `--root <missing>` rc 3, `--root <plain dir> --placement-plan pp.yaml` rc 3 |
| D3-F15 | README.md:1273-1278 | bare `park` "PARKS EVERY ESTATE it finds" | "lists every estate ... and ASKS whether to park them all (with no terminal on stdin it refuses and names `--all`); `park --all`, or `-a`, parks them all unasked ... skipping a standalone root with no Speckit overlay (Brett Heap's RULINGs of 2026-09-10, the later superseding #91's unasked sweep)"; `resume` has no `--all` | openRepoTools `park` at GitHub's main `f87fd5a` (the review fetched it: nothing newer): header 17-41, usage 77-100, sweep skip at 802-808, `resume` refuses `--all` at 863-867; runs: bare `park </dev/null` outside an estate gave `REFUSED ... park --all parks every estate below without asking`, rc 2; `park --all --dry-run` gave `skipped Solo (no Speckit overlay)`, rc 0 |
| MISPLACED (new, #394) | README.md:1176-1180 | `placement` "names the paths the policy would have put somewhere else" | "...and a submodule in a leg other than the one its `submodules:` record names" | since #394 (`7a8b981d`) a submodule in a leg other than the one `project.yaml`'s `submodules:` records for it is `misplaced`, counted in `MISPLACED`, exit 1: shape-doctor.py:3604-3624 (`recorded_placement`), 3754-3769 (`leg_submodules`); tests/test_shape_doctor.py:6770 (`test_a_submodule_in_the_other_leg_from_its_record_is_misplaced`), 7219. AGENTS.md already says it (#394's item 4). The verdict table's `MISPLACED` row sits directly above #468's `INVALID` row, so it is not edited here: #468 is asked for it |
| N7 | AGENTS.md:259-262 (item 6) | "`openRepoShape --preflight` is what offers to install one" | "`openRepoShape --preflight` offers only the `gh` set-up" | the preflight never checks git-filter-repo (setup-project.py:1110-1135; openRepoShape:212-216) and setup.sh:85 exits 2 for a missing git before the preflight; the offers are `gh`, its login and its credential helper (982-1078) |

`docs/handbook.html` repeats these and is corrected where it does: the preflight offers, `git` and the credential helper (four platform panels), the `openRepoShape --preflight` exit codes, the visibility default, the rehearsal leftovers, the CamelCase sentence, the credential rewrite and `SHAPE_LEGS_TOKEN`, the source repository's one change, the digest definition, `check`'s verdicts and the `both` refusal, the doctor's row sentence, verdict table and exit 3, the placement paragraph's submodule, and bare `park`. The handbook says more than the README in four places (the `git`-before-the-preflight sentences in the Linux panel, the Windows git offer "only under `py setup-project.py --preflight`", glosses for the three non-comparable `check` states, park "from anywhere"); all are true. Its footer's history prose gains "added (#483)".

| finding | where | evidence at `71359744`, the merge of `48585e62` |
|---|---|---|
| D1-F8 | AGENTS.md:323-328, 337-339 | the block carries `git -C <path> switch -c <branch>` (AGENTS.md:335), item 3 says "A new project stands on its tracking branch; the dry run runs there and prints the `git switch -c`, but the real run is refused" (:348-349); scripts/bump-leg.py:1030 refuses on the tracking branch only `and not dry_run`; tests/test_bump_leg_dry_run_tracking.py |
| D2-F7 | README.md:502-504 | README.md:502 `git -C ../Atlas switch -c <branch>           # the tool will not commit on main` |
| D3-F6 | README.md:974-977, 987-992 | README.md:988-991 "`git switch -c <branch>` first; `--dry-run` ... runs there and prints that command" |
| D2-F13 | README.md:705-707 | #465 rewrote the sentence: README.md:705-707 now reads "Finding neither is a named SKIP, exit 0: no checkout and no network does not make a descent a lie. A checkout that cannot answer is the finding `neutral-pin-source-unreadable`", and the handbook says the same (1139-1141). True: a source that is found but cannot answer is a FINDING, templates/assembly-root/scripts/validate-pins.py:796; the SKIP is only "no source found and `gh api` fails" |
| D2-F14 | README.md:708-709 | #465 deleted the whole sentence, so "a pin file the declaration names but that is not there, is reported as drift" is gone from README.md and the handbook (the missing file is the refusal `neutral-pin-missing`, validate-pins.py:699). It also dropped the true half, "A digest that recomputes differently is reported as drift" (the finding `neutral-pin-digest-mismatch`, validate-pins.py:853): not a false statement; see "Not holding #483 open" below |
| D3-F8 | README.md:1028, 1095-1097 | #465 rewrote both: README.md:1027-1029 "a project runs its own gate, which never consults this standard (its validators' one possible network read is `validate-pins.py`'s `gh api` recheck of a neutral product's pin, above)" and :1095-1098 "That line adds no network call ... (Its pins gate may ask `gh api`; see above.)"; the handbook the same (1403, 1448). True: `validate-pins.py` falls back to `gh api` when no local checkout answers (scripts/repo_shape.py:931 `tree_digest_from_gh`) |

Evidence is at `ea634043`, the merge of `70d0d1b3` with the D1-F9/D3-F7 correction; `9ac90d16` changes one README word in place and the footer blob, so the line numbers hold at this head. The runs are this round's, offline: local bare remotes, a stub `gh`, a blank identity.

| finding | where | evidence |
|---|---|---|
| D1-F1 | AGENTS.md:22-24, 56-62, 78-80 | #491 reads the yes from the controlling terminal (setup-project.py:1322, `ask()` at 1325-1432; the confirmation at 1770-1779), and setup.sh hands the child the pipe (282-283). Run under a pty: the piped `cat setup.sh \| bash -s -- … --local-remote-dir …` asked `Type yes to continue:`, and `no` gave `REFUSED: not confirmed; nothing was created.`, exit 1. With no terminal at all (AGENTS.md:23, 83-86) it prints the plan and refuses (1770-1776): `REFUSED: this will create THREE repositories and there is no terminal to confirm on…`, exit 2 |
| D2-F5 | README.md:315-336, 414-420 | the same read, for the README's three one-liner blocks |
| D1-F2 | AGENTS.md:76-77 | #491 took the audit's text (AGENTS.md:73-75). `_choose_org` (setup-project.py:1244-1258) takes a fork's `origin` organisation (run: `[ok] organisation acmefork (from the \`origin\` remote…)`) and refuses opensoft's own without `--org` (run: `REFUSED: you are running from the upstream checkout (…); pass --org <your-org>.`, exit 2) |
| D2-F1 (rest) | README.md:434-436 | #491's words, kept whole in the merge (README.md:432-445). The `gh` offers are the install (setup-project.py:992-1005, `INSTALL_OFFERS` at 795-798), the login (1009, 1015-1032) and git's credential helper (1051-1083, asked only once `gh` is ready, 1134-1137); git and Python are refused before any offer (setup.sh:76 and 85, exit 2 by :40). Run with no git on PATH: `openRepoShape --preflight` printed `REFUSED: git is not installed. Install it: https://git-scm.com/downloads`, exit 2, and offered nothing |
| D3-F11 | README.md:1130-1133 | #468's sentence (README.md:1130-1134) names `agent files` for a holder and `machine` for a plain directory, as the doctor's `CHECKS` registry has them (shape-doctor.py:6115-6155, at 6135 and 6153). Run, `--json` on a plain directory: the rows naming, contents, way-in, machine |
| `MISPLACED` table row (the review's) | README.md:1151, and the handbook's verdict table | #468's row reads "...or a submodule in a leg other than the one its `submodules:` record names" (README.md:1155, handbook:1509); shape-doctor.py:3843-3862, 3993-4008 |

Every finding of the three audits is corrected above or settled by a pull request that has landed. A fourth read took what main changed in README.md and AGENTS.md since the audits' `ec4a7a0e` (#394, #484, #465, #468, #491: `git diff -U0 ec4a7a0 70d0d1b`), every line this branch does not itself rewrite, and asked the audits' question by their method. It found one false statement, D1-F9/D3-F7's own sentence as #484 kept it, corrected above, and checked the rest true: AGENTS.md 23, 63-67, 73-81, 83-86, 88-96, 155-158, 252-254, 335, 347-349 and 357-361; README.md 333-338, 343, 432-445, 503, 508, 699-709, 987-992, 1028-1033, 1095-1098, 1118-1136, 1155-1156 and 1163-1171 (line numbers at `ea634043`). Read in code only: the offers' real-GitHub paths and Windows (the real `gh` never ran). Not read: `park` and `resume`, which live in openRepoTools.

**True but loose, left as they are.** AGENTS.md:83 and README.md:440 say a run with no terminal "stops after the plan"; a missing prerequisite stops it earlier, at the preflight (exit 2), which AGENTS.md:88 covers. README.md:1216-1218 says the machine check runs "with stdin closed"; the doctor also starts it in a session of its own (shape-doctor.py:1284-1285), which is what keeps the terminal out since #492. AGENTS.md's doctor item 3 does not say to ask the human which of #495's two `bump-leg.py --to` lines to run: an omission, not a false statement.

**Outside these files.** `scripts/bump-leg.py:1513` still prints "re-places it on its tracking branch AT the new pin" after every bump. It is on #458's checklist with the rest of #490's follow-ups, and a docs-only pull request leaves it there.

**Not holding #483 open: an omission.** #465 deleted "A digest that recomputes differently is reported as drift" together with its false clause. So README.md (698-709) and the handbook beside it no longer say what a recomputed neutral-pin digest that disagrees does. Nothing there is false, so it does not hold #483 open. Both files are at their caps, and the sentence needs about two more README lines that no untouched paragraph gives back, so it is not added here. Re-checked at `ea634043`: the finding is validate-pins.py:968-970 and 1140-1142 (exit 1), the refusal 814-816 and 1172-1175 (exit 2). A sentence for whoever next edits that paragraph: "A digest that recomputes differently is the finding `neutral-pin-digest-mismatch` (exit 1); a pin file the declaration names but that is not there is the refusal `neutral-pin-missing` (exit 2)."

A robustness note on main's `test_the_documents_say_what_an_assistant_does_with_no_terminal` (#491): it strips `<...>` from README.md as well as from the HTML page, and a README line holding `<(` and no `>` swallows lines up to the next `>`; stripping tags from the `.html` page only would make that test indifferent to such a line.

`git merge-tree --write-tree` of `ea634043` against the open pull requests that edit these files: clean with #503 (`6fe17be5`); #506 (`f184a51c`) and #486-#488's #507 (`708f3bbb`) each conflict in the handbook footer alone (its history prose and `README.md blob` line), and README.md and AGENTS.md merge clean with all three and stay at 1422 and 490 lines. Whichever lands later recomputes `git hash-object README.md` and keeps every "added (#n)" clause. #394, #484, #465, #468 (`57c85e92`), #490 (`7348c57b`), #508 (`aa4e1f59`) and #491 (`da197359`) are merged here.

- At this head (`9ac90d16`): `tests/test_repo_hygiene.py tests/test_agents_md_codes.py tests/test_cli_reference.py tests/test_setup_project_py.py tests/test_setup_sh.py`, 277 passed; `scripts/validate-repository-naming.py --explain Atlas Atlas-spec Atlas-code` exits 0 (`project-leg`: assembly, spec, code) and `--explain At-las At-las-spec At-las-code` exits 1 (`FINDING naming-unclassified`), so only the project name's hyphen is refused.
- At `ea634043`: `tests/test_repo_hygiene.py tests/test_agents_md_codes.py tests/test_cli_reference.py`, 122 passed (the same on the merge `94793aeb`); `tests/test_setup_project_py.py tests/test_setup_sh.py`, which read README.md and the handbook for #491's no-terminal route, 155 passed; `tests/test_free_plan_hint.py` with the AGENTS.md step 7 tests of `tests/test_adopt_late_failure.py` and `tests/test_adopt_github_exits.py`, 18 passed; and on the merge, `tests/test_bootstrap_after_bump.py`, 23 passed. A stub `gh` first on PATH (it logged no call), `GH_TOKEN` bogus, an empty `GH_CONFIG_DIR`, a blank identity.
- `rvD-worddiff.py`, `rvD-hunks.py` and `rvD-mdstruct.py` over `ea634043` against its parent: four `WORDS CHANGED` hunks, all of them the D1-F9/D3-F7 sentence and the blob, and no re-wrap; block structure, links, HTML and code spans identical (README.md 678/678 blocks, AGENTS.md 322/322). The merge `94793aeb` against `70d0d1b3` changes the same lines as `83cfad54` against `aa4e1f59` (366 insertions, 336 deletions), apart from the two resolved hunks.
- Review round four (the first reviewer, at `ea634043`): APPROVE WITH NITS (0 blockers, 0 should-fixes, 3 nits).
  - It ran `git show --remerge-diff` on every merge since round three (`71359744`, `fb6a9ab4`, `83cfad54`, `94793aeb`). Each hand resolution is a named conflict hunk, and no row, clause or fact was lost.
  - It reproduced the D1-F9/D3-F7 sentence with a real bump and `make bootstrap` in seven cases, and each placed the leg or said why not: a branch behind the pin; ahead with no commit of its own; with commits of its own; diverged; checked out in another worktree; a commit on the detached leg; a move a local change blocks.
  - It re-checked every routed row and ten moved-evidence rows, and read the whole of main's change since `ec4a7a0e`, finding nothing else false.
  - It ran the hygiene, codes, CLI-reference, setup, bootstrap-after-bump and free-plan tests: 314 passed.
  - Its nits: N1, the hyphenated project name, made at `9ac90d16`; N2, a run with no terminal stops at the preflight rather than after the plan when something is missing, which AGENTS.md:88 covers; N3, this description.
  - Two `bootstrap.py` defects it met while reproducing are on #458's checklist (issuecomment-6142614866).
- At `83cfad54`: `tests/test_repo_hygiene.py tests/test_agents_md_codes.py tests/test_cli_reference.py`, 119 passed. On `fb6a9ab4`, the merge of `57c85e92`, the same three gave 119 passed, and `tests/test_shape_doctor.py tests/test_doctor_unfinished_merge.py tests/test_free_plan_hint.py tests/test_openreposhape_command.py tests/test_shape_advisory.py` gave 465 passed, 3 skipped (the doctor's PowerShell line, which prints only on a Windows host). The table's "no row is a `FINDING`" holds with the `merge` row: `shape-doctor.py` returns `COMPLIANT` only at :6171, after :6168-6170 answer `INVALID (<ids>)` for any `FINDING` row, and `merge` is a `FINDING` only for an unmerged path (:5879; a merge with none left is a `note`, :5862). All runs with a stub `gh` first on PATH, `GH_TOKEN` bogus, an empty `GH_CONFIG_DIR`.
- At `71359744`, the merge of `48585e62`: the three files, 119 passed (a stub `gh` first on PATH, `GH_TOKEN` bogus, an empty `GH_CONFIG_DIR`; the stub logged no call).
- The same three files on a throwaway merge of `f35e59fa` with #491's head (merge-tree, commit-tree, a detached worktree, footer resolved, then removed): 122 passed, and `tests/test_setup_project_py.py tests/test_setup_sh.py -k no_terminal`: 8 passed. The failure the second review found (`test_the_documents_say_what_an_assistant_does_with_no_terminal[README.md]`, 1 failed, 122 passed) came from the `bash <(` lines this commit removes.
- `tests/test_adopt_late_failure.py::test_agents_md_step_7_names_the_exit_the_tool_prints` and `tests/test_adopt_github_exits.py -k "step_7 or agents"` (round two, on `ccf520bd`): 2 passed; they read AGENTS.md step 7, which is untouched.
- `rvD-worddiff.py`, `rvD-hunks.py` and `rvD-mdstruct.py` over the third commit against its merge parent: every changed region is one of the corrections above (the `bash <(` blocks back to main's text, D3-F5, the park parenthetical, the placement sentence and the three word trims), and the two `WHITESPACE-ONLY` hunks are the family steps going back to main's bytes; block structure 320/320 and 678/678, links, HTML and code spans identical.
- No test greps a phrase this pull request changed: the old phrases appear under `tests/` only in history comments and the doctor's docstring.

The third head (f35e59f) was re-verified: APPROVE WITH NITS (0/0/4), all four in this description and fixed there. Main 48585e6 (#465) was then merged as 7135974, and 57c85e9 (#468) as fb6a9ab; aa4e1f5 (#508) merged clean as 83cfad5. Main 70d0d1b (#491) was merged as 94793ae, and ea63404 corrects D1-F9/D3-F7. A fourth review round at ea63404 covered every merge since f35e59f (remerge-diff: no row, clause or fact lost), the bootstrap sentence in seven reproduced cases, and the whole docs delta since ec4a7a0: APPROVE WITH NITS (0/0/3), and #483 can close. Its N1, "a hyphenated project name", is 9ac90d1. CI is green on Linux, macOS and Windows, with SonarCloud passing, at 9ac90d1. Main cc8f2da (#376), which landed after its last merge, touches none of its files, and the combined tree passed the docs and setup tests (277 passed).

Closes #483

Lane: openreposhape-5 (openRepoShape-5)
Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
brettheap added a commit that referenced this pull request Oct 13, 2026
…`scripts/siblings.py` is absent, and update-shape.py says the Makefile it copies calls it, so a holder updated without `--add` no longer fails on `can't open file` (#489) (#503)

A family holder cut before 2026-09-09 (#76) has no `scripts/siblings.py`. Updating it the way AGENTS.md prescribes, `update-shape.py apply` without `--add scripts/siblings.py`, still copies the changed Makefile, and that Makefile's `siblings`, `park` and `resume` targets run the script. `apply` exited 0, `validate-family.py` was green, only `note ... not added` was printed, and then all three targets died on `python3: can't open file '.../scripts/siblings.py'`.

This takes the issue's second option, which keeps per-file consent and never leaves a dead target. `apply` still refuses nothing, copies the Makefile and adds nothing it was not told to.

**What changed**
- `templates/family-root/Makefile`: each of the three targets asks make itself, `$(wildcard scripts/siblings.py)`, whether the script is there, and when it is not it refuses by name with `$(error)`: exit 2, one shared message, and no shell involved (no `test -f`, no `echo`), so the answer is the same wherever make runs. The message says what is missing, that `update-shape.py` adds a file only on the human's word, `python3 update-shape.py check --root "<this holder>"` to read the verdict, then the apply command it prints with `--add scripts/siblings.py`, and, for a holder that took the script and then deleted it (where `check` says `copy-missing` and `--add` refuses a pinned path), to restore it from the holder's history instead. With the file there, each recipe is what it was: same command line, same arguments.
- `update-shape.py`: `check` and `apply` say, on the line that already reports the file, that the Makefile calls it. `check` appends it to the `upstream-added` detail and `apply` to its `note ... not added` line. It is a table (`CALLED_BY_A_COPY`) with one row, and it speaks when the calling copy is `upstream-changed` (the one verdict `apply` writes on its own: "the Makefile that `apply` copies calls it, so `make siblings`, `make park` and `make resume` cannot run until it is added") or `unchanged` (the holder after that first `apply`, pinned at the target, where every later `check` and `apply` still finds the script `upstream-added`: "this root's Makefile already calls it, so ... cannot run until it is added"). A `locally-modified` or `both` Makefile says nothing. Nothing is refused and the exit codes are unchanged.
- `AGENTS.md`, item 6 of the family section: one clause, in place, with the same line count, so the file stays at its cap (490/490). It keeps "per file": `apply --add scripts/siblings.py` takes it on the human's word, per file, and without it `make siblings`, `park` and `resume` refuse.

**Evidence**
- Reproduced on `main` (7a8b981) with a real holder cut at 0170edd, the commit the issue names, local remotes and a stub `gh`: `check` says `Makefile` `upstream-changed` and `scripts/siblings.py` `upstream-added`; `apply` without `--add` exits 0 with `family ok`; `make siblings`, `make park` and `make resume` each print `can't open file` and exit 2.
- On this head, the same holder: `check` and `apply` carry the sentence above, `apply` still exits 0, and the three targets exit 2 with `make <verb> needs scripts/siblings.py, which this holder does not have. ...` and no `can't open file`. With `apply --add scripts/siblings.py` all three exit 0 and run the real script.
- `tests/test_family_makefile_siblings.py` (new, 31 tests; skipped only where `make` is absent) cuts a holder from a standard before #76 (a clone with no `scripts/siblings.py`, its copy-list entries stripped and the v0.4 Makefile: built, not read from history, so a shallow clone runs it), updates it to this checkout's bytes with `apply` with and without `--add`, and runs the three targets in each. It also runs the Makefile alone: the refusal is one message for the three targets, it needs no shell (`SHELL=/nonexistent` still refuses), `make -n` refuses too, the present-script path calls the script with the arguments it always had, `help`, `bootstrap`, `validate` and `pins` are untouched, and `CALLED_BY_A_COPY` is held to the template. It also covers a second `check` and a second `apply` on a holder already at the target (the `unchanged` clause), and the `copy-missing` sentence in the refusal. It carries no `WINDOWS_SKIP`, unlike `tests/test_park_resume_targets.py`: the refusal needs no shell, and `windows-latest` ships a GNU make (the runner-images install script copies `mingw32-make.exe` to `make.exe`), so the tests are expected to run on all three runners. CI's logs are quiet-mode, so they do not show whether they ran.
- Mutation checks, run in a throwaway clone of the head: with the Makefile reverted to `origin/main`'s, 13 of the 31 fail (the refusal tests, the one-message and no-shell tests, `make -n`, and every `make` run on the updated holder, which print `can't open file` again). With `update-shape.py` reverted, 9 fail (the `check` and `apply` sentence, the `left_dead_by` cases and the table). Taking only the `unchanged` branch out of `left_dead_by` fails 2 (the unit case and the second `check`/`apply`), and taking only the `copy-missing` sentence out of the Makefile fails 3 (the refusal test, once per verb).
- No static digest of the family-root Makefile exists in the repository: `git grep` of its sha256 finds nothing, and every `shape-pin.yaml` row is rendered from the bytes at `init` and `apply`. A holder's pinned digest moves with the file, as for any template change.

**Tests**
All at 49330dc (origin/main 5a25387 merged in), with a stub `gh` first on PATH, a bogus token, an empty `gh` config directory and the git identity blanked:
- `tests/test_family_makefile_siblings.py`: 31 passed.
- `tests/test_update_shape*.py` (seven files), the new file, `tests/test_park_resume_targets.py`, `tests/test_repo_hygiene.py`, `tests/test_agents_md_codes.py` and `tests/test_cli_reference.py`: 438 passed, 3 skipped (the NTFS-junction cases, Windows only).
- every `tests/test_family*.py` and `tests/test_shape_doctor.py` (the doctor loads `update-shape.py` in process): 842 passed, 11 skipped (`tests/test_family_init_values.py:242`, which the file documents, and the doctor's PowerShell line, which prints only on a Windows host).

At 44000f6, after GitHub's update-branch merged main af01068 (no hand edit), the same sets ran again with the same stubs. The update-shape set, which now has eight files with #374's `tests/test_update_shape_next_quoting.py`: 535 passed, 3 skipped. Every `tests/test_family*.py` and `tests/test_shape_doctor.py`: 858 passed, 11 skipped. That head was then merged with main 47b1e06 (#395, the templates quote their text placeholders) as a local gate commit. On it, the two sets, together with `tests/test_template_text_placeholders.py`, gave 1481 passed, 25 skipped.

**Merge-tree.** At 49330dc, which contains `origin/main` 5a25387 (merged as f08129d), `git merge-tree --write-tree` is clean against `origin/main`, against every open pull-request head that touches `AGENTS.md`, `update-shape.py` or `templates/family-root/` (#347, #374, #395, #465, #474), and against lane 5's `fix/family-commands-and-branch` (10c93de, #486-#488). #491 conflicts only in `docs/handbook.html`, as it does with `origin/main`. The trees merged with #474 and with `fix/family-commands-and-branch` were run: the new test file and the neighbouring suites pass on both, and `AGENTS.md` stays at 490 lines.

**Review.** An independent review at 8643774 gave APPROVE WITH NITS (0 blockers, 0 should-fixes, 5 nits). It reproduced the defect on `main` and the fix on this head, and ran 10 mutations, all of them caught. Round 2 (49330dc) took four of the nits: the test file's docstrings say where it runs; the refusal also covers a holder that deleted a pinned `scripts/siblings.py`; AGENTS.md keeps "per file"; and a later `check` on a holder already at the target names the Makefile that calls the script. The fifth nit was this description. Re-verified at 49330dc: APPROVE WITH NITS (0/0/1). That nit was this description's merge-tree paragraph, now as above.

**Left out**
- `apply` does not refuse to take the Makefile without the script (the issue's first option), and it does not take the script on its own: both break per-file consent.
- The holder's `AGENTS-shape.md` and `README.md` are pinned copies and say nothing about this; editing them moves every holder's digests for a sentence the Makefile's own refusal already carries. README and the handbook are untouched.
- The doctor's `shape currency` row does not carry the sentence and is unchanged; the per-file detail line of `check` and `apply`'s note do, and the Makefile's own refusal covers the moment of use.
- The refusal is written for GNU make. macOS ships 3.81: the guard uses only `$(if)`, `$(call)`, `$(wildcard)` and `$(error)`, which 3.81 documents. It was run on 4.3 here. CI's `tests`, `tests-macos` and `tests-windows` and SonarCloud all passed at 8643774, and again at ca4778e (49330dc with main 48585e6 merged in by GitHub's update-branch), at 6fe17be (main 57c85e9 merged in the same way, after #474 changed `update-shape.py`; no hand edit) and at 44000f6 (main af01068 merged in the same way, after #374 changed `update-shape.py` and #491 and #505 changed `AGENTS.md`; no hand edit).

Reviewed independently at 8643774: APPROVE WITH NITS (0/0/5). Round 2 (49330dc) took the four code nits, and its re-verification gave APPROVE WITH NITS (0/0/1), the description's merge-tree paragraph, now updated. CI is green on Linux, macOS and Windows, with SonarCloud passing, at 44000f6 (main af01068 merged in by update-branch). Main 47b1e06 (#395), which landed after, touches none of its files, and the combined tree passed the family, doctor, update-shape and hygiene tests (1481 passed, 25 skipped).

Closes #489

Lane: openreposhape-5 (openRepoShape-5)
Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
brettheap pushed a commit that referenced this pull request Oct 13, 2026
…5 cites the 34 pull requests merged since #343, section 6 drops the 13 known-limit issues that closed and adds the 63 checklist lines the five parents gained, section 7 lists the 12 open milestone issues, and the preflight sentence offers only what the preflight offers (#472)

Refresh round 1 of the draft, against main d41cc29 (#402, merged
2026-10-13T21:17:39Z). GitHub was read between 21:23 and 21:43 UTC: the
merged pull requests, the v1.0.0 milestone open and closed, every open
issue, and the five tracking parents with their sub-issues, bodies and
comments. Every merge commit of the 217 merged pull requests is on main.

Section 5 places each of the 34 pull requests merged after #343
(2026-10-12T22:31:20Z) in its area, from its own body, one clause each;
all 217 merged pull requests are now cited, with #16, #53 and #57 still in
two areas. Three earlier sentences are made true of main: `check` has
more verdicts than the four it named, and #465's docs and #505's accuracy
pass show that `validate-pins.py` may ask `gh api` and that
`openRepoShape --preflight` offers only `gh`, its login and its credential
helper (`setup-project.py --preflight` also offers `git`).

Section 6 lists the 47 open, unmilestoned sub-issues (it listed 60). It
drops #189, #293, #303, #328, #386, #286, #259, #275, #322, #324, #338,
#339 and #359, which closed. #389 is reworded now that #305's refusal has
landed. #420 and the `a=b` line are narrowed to a hand-edited
`adopt_branch:`, because an offline probe on d41cc29 shows #493's
`plan-tracking-branch-missing` now stops a bad `tracking_branch:` at
`check`, with no leg made, while `adopt_branch: "a..b"` still passes
`check` and fails after both legs exist. The family annotated-tag line
says `bump --to` now refuses one (#466). The 63 new lines are the
parents' checklist lines posted or added since the first build, each
checked against the code at d41cc29. Left out, and said so in the
refresh record: docstring, comment and wording nits (as L2-7 was), lines
that describe a branch not on main (#504's, #507's, #511's, #515's and
#517's), lines filed into the milestone (#485, #514, #516), and three with
no effect a person meets.

Section 7 lists the 12 open milestone issues; 24 of the 30 it listed have
closed. Lane 4's #510, #511, #512 and #513 have not landed, so #471,
#499, #500, #501 and #502 stay open here and the Windows qualifier stays.

Lane: openreposhape-4 (openRepoShape-4)
Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
brettheap pushed a commit that referenced this pull request Oct 16, 2026
… that a digest that recomputes differently is the finding `neutral-pin-digest-mismatch` (exit 1), and that a declared pin file that is not there is the refusal `neutral-pin-missing` (exit 2) (#460 L1)

#465 removed a sentence whose other half was false (a missing pin file is
the refusal `neutral-pin-missing`, exit 2, not drift), and with it the
true half: a digest that recomputes differently is the finding
`neutral-pin-digest-mismatch`, exit 1. v1.0.0's notes listed that as a
known limit. Both codes read from templates/assembly-root/scripts/
validate-pins.py on this tree: `report.finding("neutral-pin-digest-
mismatch", ...)`, which `_emit_report` turns into exit 1, and `raise
Refusal("neutral-pin-missing", ...)`, which `main` turns into exit 2.

- README.md: the paragraph's last sentences, +2 lines, with
  tests/readme-cap.d/460.txt (+2) giving the reason. README.md is 1463
  lines, its cap: 1422 + 2 (460) + 5 (550) + 12 (563) + 22 (564).
- docs/handbook.html: its twin in the `legs` section says the same.
  The three `The three legs` markers move: `legs` (text and marker),
  and the masthead and `ci` (marker only: neither says anything about
  these codes). No other marker moves.
- docs/release-notes/v1.1.0.md: one line under "Install, CI and the
  docs", saying v1.0.0's known limit is closed.

Brett Heap gave #460 to lane 3 at 2026-10-16T12:24:41Z; lane 3's triage
(T460a) puts this line in #630, whose files it already touches.

Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com>
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment