feat: zipped packages, target set, checklists, audit fixes and a stress test

Features for the next six months (accessible HTML export, paperpack and
Lode on packages, the personal bundle):

- Zipped packages: the oracle writes and reads `.sct.zip` archives under
  the rules of spec/12 §12.2; validate.py and load.py accept them; a
  byte-identical zip of the tiny package joins the fixtures, and two
  broken archives (traversal, symbolic link) join fixtures/invalid.
- The target set of targeted F3 (spec/08 §8.10) is computed by the
  oracle and pinned by vectors/targets.jsonl under each digit rule; the
  rule now covers cells as well as sentences and the leaves of anchored
  containers, and defines a node's section.
- scienting-checklist/1 (provisional): a conformance check of an export,
  covered by a receipt as ["checklist", id, hash] (spec/08 §8.11), with a
  WCAG 2.1 AA fixture and its receipt.
- QA reports are signed like receipts (spec/08 §8.9).
- A `description` annotation body with role alt or long, so an
  accessible export can find a confirmed figure description; the layer
  fixture carries one, and the store's body-kind constraint allows it.
- scienting-spot-check/1, the seed payload, is registered with a schema.
- exercise, submission and grade are provisional until a course has
  used them.

Audit fixes, each with a vector or a broken package where one was
missing:

- Folder packages: symbolic links are refused on validate and load,
  manifest paths must not collide under case folding, listed files are
  matched by exact name, files are hashed in chunks under a size limit.
- Files are compared byte for byte, so CR LF, a byte order mark, NaN,
  a lone surrogate or invalid UTF-8 is refused instead of translated;
  integers beyond 2^53 are read as doubles, as canonical JSON writes them.
- Receipts: signature.key must equal by and the key must be valid when
  signed; a qa receipt's nodes must be the sample at the original's
  hashes, its scope must name qa.of, its errors must be sampled nodes;
  statuses are computed once, iteratively, so chains of spot-checks
  hundreds deep settle; Base64 and manifest shape errors become refusals
  instead of tracebacks; counts and the fidelity of roster-less packages
  are recomputed.
- The gate enforces rule 11 of spec/11 §11.4: changed nodes are
  validated against the node schema and the references between nodes
  are checked, so a set to a bad value, an insert with unknown
  properties or a delete of a referenced header cell is refused; a
  relabel to null drops the label; a reclassify drops foreign
  attributes; a split strips whitespace across runs; ids.jsonl order
  follows spec/04 §4.4 in every state; a move after itself is refused.
- Anchors: the relabel rule requires that nothing else changed below the
  node; an alias chain ending in a deletion no longer crashes resolve.
- Notation: a script after an empty group applies to the previous atom
  ({}^{14}C); letters are defined by Unicode block in spec/05 §5.4 and
  the oracle; \left) is complex.
- Page fingerprints delete whitespace before folding, so "10 -20" and
  "10-20" fold alike (spec/07 §7.1).
- Grades are summed with exact decimals; the reviewer error bound is
  computed with integer arithmetic.
- receipts and revocations are keyed by (doc_key, id) in SQL, since one
  revocation may be carried by several packages.

Checking:

- tools/stress.py: seeded randomized property tests over canonical JSON,
  normalization, notation, random correction walks, anchor resolution,
  Merkle roots, spot-check samples, error bounds, fingerprints, mutated
  archives and packages, rights and spot-check chains; CI runs it.
- check.py verifies every count and version the prose states against
  the repository, the zipped fixture and crafted archives, the checklist
  coverage, and nine more broken packages.
- CONTRIBUTING.md gains a release checklist.

Co-Authored-By: Claude Fable 5.1 <noreply@anthropic.com>
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@@ -26,7 +26,7 @@ The formats supply those three, and they are worth most at the scale of one team
manuspec is a set of file formats for scientific papers that have been converted, split into addressable pieces and checked.
The repository is at <https://git.scient.ing/infra/manuspec>.
It is version 0.1.0 and defines 27 formats; in [registry/formats.json](../registry/formats.json), 20 are `candidate` and 7 are `provisional`.
It is version 0.1.0 and defines 29 formats; in [registry/formats.json](../registry/formats.json), 18 are `candidate` and 11 are `provisional`.
## Who it is for
@@ -52,11 +52,11 @@ It appears inside hashed data and test vectors, and it is separate from the repo
| Folder | Holds |
| --- | --- |
| [spec/](../spec/README.md) | The specification, in 23 chapters (00 to 22). Normative. |
| [schemas/](../schemas/README.md) | 37 JSON (plain-text data format) Schemas for the files and records. |
| [schemas/](../schemas/README.md) | 39 JSON (plain-text data format) Schemas for the files and records. |
| [registry/](../registry/README.md) | The list of formats, the rule IDs a checker reports, download-stamp rules, and default rights requirements. |
| [tools/](../tools/README.md) | Reference programs: `check.py` checks everything, `build.py` rebuilds the fixtures and vectors, `load.py` loads packages into SQLite, and `oracle/` is a compact implementation of every rule. |
| [vectors/](../vectors/README.md) | 20 files of test vectors: inputs and the exact outputs every implementation must compute. |
| [fixtures/](../fixtures/README.md) | Five valid example packages, 17 deliberately broken ones that each break one named rule, example records, and the test keys that signed them. All text is synthetic. |
| [vectors/](../vectors/README.md) | 21 files of test vectors: inputs and the exact outputs every implementation must compute. |
| [fixtures/](../fixtures/README.md) | Five valid example packages, one of them also as a zip, 28 deliberately broken ones that each break one named rule, example records, and the test keys that signed them. All text is synthetic. |
| [sql/](../sql/README.md) | Tables for SQLite, Dolt and PostgreSQL, and a SQLite bundle with full-text search. |
| [context/](../context/README.md) | The JSON-LD context that makes annotation layers W3C Web Annotations. |
| [docs/](README.md) | Guides, including this page. |
@@ -107,7 +107,7 @@ The [specification's reading paths](../spec/README.md) say which chapters each r
A store loads the package into a database.
A reader renders it with layers of annotations.
Anchors (stored references to a sentence, with its hash and a quotation) let a claim, a dataset value or a draft's citation point at a passage.
Datasets, drafts, views and projects are `provisional` formats.
Datasets, drafts, views, projects, exercises and checklists are `provisional` formats.
7.
Check and sign.
People proofread what matters and sign receipts; second reviewers spot-check them.