feat: comment categories; emend, relink and resolve corrections

scienting-layer/1: an optional, fixed category on comment, caveat and question bodies (comment, context, critique, question, correction, feedback, resource). Corrections: emend fixes the authors' own slip and keeps what was printed (a run's printed), never lowering fidelity or a witness match; relink sets or removes what a citation names; resolve sets a reference's resolution. Co-Authored-By: Claude Opus 5.5 <noreply@anthropic.com> Claude-Session: https://claude.ai/code/session_017R7sgDNvUGWY2zFPCq2JH6
2026-10-17 06:17:10 -04:00
1 parent 4d59b29b63
commit 8b5ee87275
@@ -46,3 +46,18 @@ Both are minor changes in the sense of [spec/00](spec/00-introduction.md): no va
  `paperspec.align` gains `lcs_length` (bit-parallel, Hyyrö 2004) and `similarity`, and `alignment.jsonl` a second case, `substitutions`: a misread number, a misread word, a sentence too short to be paired this way and two sentences too unlike to be one.
 - A suspect may name the witness its second reading came from (`witness`, a witness ID; [spec/05 §5.7](spec/05-hashes.md#57-suspects), `suspect.schema.json`), and a package whose suspect names a witness it does not have breaks `doc.suspect.witness`.
  No broken package exercises the rule yet: adding one changes the count of broken packages that the 0.1.0 entry above states, so it waits for the release.
+
+Four more, asked for by editors who correct and discuss papers rather than readings.
+They are minor changes too: new operations, enumeration values and optional properties, with no valid file made invalid, no value of an existing file computed differently, and no existing vector case or package changed.
+
+- Annotation categories ([spec/18 §18.4](spec/18-layers.md#184-bodies), `annotation.schema.json`, the `category` term of the JSON-LD context): a `comment`, `caveat` or `question` body may carry a `category` from the fixed list `comment`, `context`, `critique`, `question`, `correction`, `feedback` and `resource`, which a producer that supports categories SHOULD set on every such body.
+  The store's `annotations` table gains a nullable `category` column with its CHECK ([sql/store.sql](sql/store.sql)).
+  The example layer's comment, question and reply gain categories, which changes their record IDs, and it gains a caveat; no other fixture changes.
+- `emend`, a correction of the authors' own typo, spelling, grammar, punctuation or wording, where the reading matches the page and the page is wrong ([spec/11 §11.6](spec/11-corrections.md#116-emendations)).
+  The emended text keeps what was printed in a new optional run property, `printed` ([spec/03 §3.5](spec/03-nodes.md#35-inline-runs), `runs.schema.json`), so a leaf as printed is recovered from the package alone ([3.6](spec/03-nodes.md#36-the-plain-projection), `paperspec.hashing.printed` and `as_printed`), and runs with `printed` are never joined.
+  The strict and lossy projections are of the runs as printed, so an emend changes the leaf's `text_hash`, `own_hash` and `node_hash` but not its `match_hash` or `align_key`, and alignment, corroboration and suspects never report an emendation ([spec/05 §5.1](spec/05-hashes.md#51-the-five-values)).
+  The gate refuses an emend in math, across runs, or that changes a digit or edits beside one, and refuses a `replace`, text `insert` or `split` inside an emended run (`correction.emend`).
+- `relink` makes a run a citation of other references, a text run a cite run, or a cite run text, without changing its text, and `resolve` sets a reference's resolution in `references.jsonl`, keeping the one before in `from` ([spec/11 §11.7](spec/11-corrections.md#117-citations-and-references)); a package whose last resolve of a reference is not its resolution breaks `doc.correction.resolution`.
+  Like an emend, neither lowers a leaf's level, and a receipt keeps counting across all three ([spec/08 §8.1–8.2](spec/08-fidelity.md#82-levels), `receipts.carried_hashes`).
+- The rules `correction.emend`, `correction.relink`, `correction.resolve` and `doc.correction.resolution` are registered, the `corrections` table's CHECK takes the three operations ([sql/doc.sql](sql/doc.sql)), `corrections.State` carries the reference records, and `paperspec stress` walks the three operations with their invariants.
+  `corrections.jsonl` gains thirteen cases and `projections.jsonl` and `projection-groups.jsonl` two each; no existing case changes.
@@ -33,7 +33,7 @@ The repository's name, paperspec, is a separate matter.

 ## An example from the fixtures

-[`fixtures/records/layer/annotations.jsonl`](../fixtures/records/layer/annotations.jsonl) holds nine annotations on the example paper `hale2026harmonic-damb`.
+[`fixtures/records/layer/annotations.jsonl`](../fixtures/records/layer/annotations.jsonl) holds eleven annotations on the example paper `hale2026harmonic-damb`.
 The first is a `gloss`, an explanation for a novice, of the phrase "bond force constant".
 Shortened, it reads:

@@ -57,10 +57,10 @@ This context defines `kind`, `status`, `audience`, `AnchorSelector` and `anchor`

 ## What it defines

-The file defines 23 terms.
-Twenty-two map to IRIs under `https://paperspec.scient.ing/vocab#`: `format`, `kind`, `status`, `receipt`, `layer`, `audience`, `visibility`, `purpose`, `project`, `docs`, `pin`, `role`, `symbol`, `verdict`, `reason`, `reference`, `for`, `generator`, `exercise`, `anchor`, `rights_use` and the class `AnchorSelector`.
+The file defines 24 terms.
+Twenty-three map to IRIs under `https://paperspec.scient.ing/vocab#`: `format`, `kind`, `status`, `receipt`, `layer`, `audience`, `visibility`, `purpose`, `project`, `docs`, `pin`, `role`, `symbol`, `verdict`, `reason`, `reference`, `for`, `category`, `generator`, `exercise`, `anchor`, `rights_use` and the class `AnchorSelector`.
 Three are renamed: `for` is `sct:questionFor`, `generator` is `sct:generatedBy`, and `rights_use` is `sct:rightsUse`.
-The twenty-third, `total`, maps to `totalItems` in the ActivityStreams namespace.
+The twenty-fourth, `total`, maps to `totalItems` in the ActivityStreams namespace.
 Two terms carry a type rule.
 A processor reads `layer` as an IRI, and it always reads `docs` as a set, so a one-element list stays a list.

@@ -88,7 +88,7 @@ Such a tool still reads the annotation's body and its `TextQuoteSelector`; the c
 That is the repository's statement; no Web Annotation client has been tested against these files.

 The fallback is not always there.
-Three of the nine fixture annotations have only an `AnchorSelector` (the section-level question, the `generated` annotation on a figure and the exercise on a table), because the anchor points at a container and has no quote.
+Three of the eleven fixture annotations have only an `AnchorSelector` (the section-level question, the `generated` annotation on a figure and the exercise on a table), because the anchor points at a container and has no quote.

 ## Using the context

@@ -25,6 +25,7 @@
    "reason": "sct:reason",
    "reference": "sct:reference",
    "for": "sct:questionFor",
+    "category": "sct:category",
    "generator": "sct:generatedBy",
    "exercise": {
      "@id": "sct:exercise",
@@ -212,7 +212,9 @@ Every fix is a correction: an operation with its evidence, its author and a reas
 ```

 A document's history is its first reading plus its corrections, and its revision is the index of the last one.
-The operations are `replace`, `insert`, `delete`, `split`, `merge`, `move`, `reclassify`, `relabel` and `set`.
+The operations are `replace`, `insert`, `delete`, `split`, `merge`, `move`, `reclassify`, `relabel`, `set`, `emend`, `relink` and `resolve`.
+A `replace` fixes what the converter misread; an `emend` fixes a typo the authors printed, and keeps the printed text, so the sentence still agrees with the PDF and keeps its level.
+A `relink` changes which references a citation names, and a `resolve` what a reference resolves to.
 Evidence is a crop (an image of the page region), a witness, a source file by SHA-256, or a named person.

 A gate refuses any correction that would change a digit without a crop of the page as evidence, or that would let a digit change anywhere it did not declare.
@@ -371,6 +373,7 @@ A statement true independently of the paper is a claim, which is checked and lev
 A statement about reading the paper belongs in a layer, where it is attributed and signed and not checked.
 Claims are not defined in this repository.

+A comment, caveat or question also says what it is about with a `category` from a fixed list: a general `comment`, `context`, a `critique`, a `question`, a `correction` of an error in the paper, `feedback` for the authors, or a `resource`.
 Model-written text is always a `generated` annotation, never source, and a model's annotation stays `proposed` until a person confirms it.
 Whether a generic Web Annotation client displays an `AnchorSelector` has not been tested; the fallback exists so that it can still use the quote.
 Layers are `candidate`.
@@ -62,6 +62,10 @@ Drift
 :   The amount that has changed below a container since an anchor on it was made, counted from the corrections: the share of the container's leaves touched by later corrections.
 It is reported as `none`, `low` or `high`, with a default threshold of a quarter. ([6.6](../spec/06-anchors.md#66-drift))

+Emend
+:   A correction of the authors' own typo, spelling, grammar, punctuation or wording, where the reading matches the page and the page is wrong; a `replace` fixes a misreading instead.
+The emended run keeps the text as printed, so the leaf as printed, which is what witnesses are compared with, stays what it was, and so do its match hash and its level. ([11.6](../spec/11-corrections.md#116-emendations), [3.6](../spec/03-nodes.md#36-the-plain-projection))
+
 Exercise
 :   An annotation whose body holds a prompt, an answer key and a grading rule.
 The key is anchors, a verdict, a chain, a value or planted errors, by exercise kind. ([19.1](../spec/19-exercises.md#191-exercises))
@@ -1,10 +1,11 @@
 {"@context":["http://www.w3.org/ns/anno.jsonld","https://paperspec.scient.ing/context/scienting-1.jsonld"],"body":{"audience":"novice","format":"text/markdown","kind":"gloss","language":"en","type":"TextualBody","value":"A *harmonic* term treats a bond like a spring: the energy grows with the square of the stretch."},"created":"2026-10-11T19:00:00Z","creator":{"id":"tag:scient.ing,2026:key:ana","name":"Ana Example","type":"Person"},"id":"tag:scient.ing,2026:annotation:smithlab/f4s8pc1hdhd9d","layer":"tag:scient.ing,2026:layer:smithlab/kp4m2x7q","motivation":"describing","receipt":"r10e5mzvw6tja","status":"confirmed","target":{"selector":[{"anchor":{"doc":"hale2026harmonic-damb","format":"scienting-anchor/1","kind":"sentence","node":"rr20tev","node_hash":"76e06b4811a688357ac4b912172283463cfaf1b7a1f0795d274fc733a2309ba7","own_hash":"2d7df7b8b233eab6f96d5db0d29c99062aaa94b55cf4e388c49b9995ce7548d5","quote":{"exact":"bond force constant","prefix":"rm{eq}})^2$$ where $K_r$ is the ","suffix":" and $r_\\mathrm{eq}$ the equilib"},"rev":12,"span":[111,130],"store":"smithlab"},"type":"AnchorSelector"},{"exact":"bond force constant","prefix":"rm{eq}})^2$$ where $K_r$ is the ","suffix":" and $r_\\mathrm{eq}$ the equilib","type":"TextQuoteSelector"}],"source":"tag:scient.ing,2026:doc:smithlab/hale2026harmonic-damb","type":"SpecificResource"},"type":"Annotation"}
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-{"@context":["http://www.w3.org/ns/anno.jsonld","https://paperspec.scient.ing/context/scienting-1.jsonld"],"body":{"kind":"comment","type":"TextualBody","value":"The step size matters more than the text admits."},"created":"2026-10-11T19:00:00Z","creator":{"id":"tag:scient.ing,2026:key:ana","name":"Ana Example","type":"Person"},"id":"tag:scient.ing,2026:annotation:smithlab/m9e0g8r5ebnkf","layer":"tag:scient.ing,2026:layer:smithlab/kp4m2x7q","motivation":"commenting","status":"proposed","target":{"selector":[{"anchor":{"doc":"hale2026harmonic-damb","format":"scienting-anchor/1","kind":"sentence","node":"xjns57z","node_hash":"42b1de7852cdc68730984fff789fe248ecd5b43198c0e7d671931ff3fe561dc3","own_hash":"4dc28d1ad57c74d044f87264dfbc744ae9d5e9644638db976dbc346361442486","quote":{"exact":"steps of 0.01","prefix":"Each bond was scanned in ","suffix":" Å around its minimum, and the e"},"rev":12,"span":[25,38],"store":"smithlab"},"type":"AnchorSelector"},{"exact":"steps of 0.01","prefix":"Each bond was scanned in ","suffix":" Å around its minimum, and the e","type":"TextQuoteSelector"}],"source":"tag:scient.ing,2026:doc:smithlab/hale2026harmonic-damb","type":"SpecificResource"},"type":"Annotation"}
-{"@context":["http://www.w3.org/ns/anno.jsonld","https://paperspec.scient.ing/context/scienting-1.jsonld"],"body":{"for":"group","kind":"question","type":"TextualBody","value":"Why fit to a scan first and to frequencies second?"},"created":"2026-10-11T19:00:00Z","creator":{"id":"tag:scient.ing,2026:key:ana","name":"Ana Example","type":"Person"},"id":"tag:scient.ing,2026:annotation:smithlab/x0emxkxem54hw","layer":"tag:scient.ing,2026:layer:smithlab/kp4m2x7q","motivation":"questioning","status":"proposed","target":{"selector":[{"anchor":{"doc":"hale2026harmonic-damb","format":"scienting-anchor/1","kind":"section","node":"d400rz3","node_hash":"e5a8eeb3c112f2dc3341da8f433540a3fc5a7e7f631e72c4dd36c6933aae808d","own_hash":"c3d50f266b05d7889c001aef16662cecd4e99ac4a2747ec331c1044e6adc8e3e","rev":12,"store":"smithlab"},"type":"AnchorSelector"}],"source":"tag:scient.ing,2026:doc:smithlab/hale2026harmonic-damb","type":"SpecificResource"},"type":"Annotation"}
+{"@context":["http://www.w3.org/ns/anno.jsonld","https://paperspec.scient.ing/context/scienting-1.jsonld"],"body":{"category":"critique","kind":"comment","type":"TextualBody","value":"The step size matters more than the text admits."},"created":"2026-10-11T19:00:00Z","creator":{"id":"tag:scient.ing,2026:key:ana","name":"Ana Example","type":"Person"},"id":"tag:scient.ing,2026:annotation:smithlab/sxj4eq8415s92","layer":"tag:scient.ing,2026:layer:smithlab/kp4m2x7q","motivation":"commenting","status":"proposed","target":{"selector":[{"anchor":{"doc":"hale2026harmonic-damb","format":"scienting-anchor/1","kind":"sentence","node":"xjns57z","node_hash":"42b1de7852cdc68730984fff789fe248ecd5b43198c0e7d671931ff3fe561dc3","own_hash":"4dc28d1ad57c74d044f87264dfbc744ae9d5e9644638db976dbc346361442486","quote":{"exact":"steps of 0.01","prefix":"Each bond was scanned in ","suffix":" Å around its minimum, and the e"},"rev":12,"span":[25,38],"store":"smithlab"},"type":"AnchorSelector"},{"exact":"steps of 0.01","prefix":"Each bond was scanned in ","suffix":" Å around its minimum, and the e","type":"TextQuoteSelector"}],"source":"tag:scient.ing,2026:doc:smithlab/hale2026harmonic-damb","type":"SpecificResource"},"type":"Annotation"}
+{"@context":["http://www.w3.org/ns/anno.jsonld","https://paperspec.scient.ing/context/scienting-1.jsonld"],"body":{"category":"question","for":"group","kind":"question","type":"TextualBody","value":"Why fit to a scan first and to frequencies second?"},"created":"2026-10-11T19:00:00Z","creator":{"id":"tag:scient.ing,2026:key:ana","name":"Ana Example","type":"Person"},"id":"tag:scient.ing,2026:annotation:smithlab/fsg960szdyy6q","layer":"tag:scient.ing,2026:layer:smithlab/kp4m2x7q","motivation":"questioning","status":"proposed","target":{"selector":[{"anchor":{"doc":"hale2026harmonic-damb","format":"scienting-anchor/1","kind":"section","node":"d400rz3","node_hash":"e5a8eeb3c112f2dc3341da8f433540a3fc5a7e7f631e72c4dd36c6933aae808d","own_hash":"c3d50f266b05d7889c001aef16662cecd4e99ac4a2747ec331c1044e6adc8e3e","rev":12,"store":"smithlab"},"type":"AnchorSelector"}],"source":"tag:scient.ing,2026:doc:smithlab/hale2026harmonic-damb","type":"SpecificResource"},"type":"Annotation"}
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 {"@context":["http://www.w3.org/ns/anno.jsonld","https://paperspec.scient.ing/context/scienting-1.jsonld"],"body":{"exercise":{"exercise":"anchor","format":"scienting-exercise/1","key":{"elements":[{"anchors":[{"context":{"column_path":["Set A","$K_r$ (kcal mol⁻¹ Å⁻²)"],"row_path":["Bond parameters","CT–CT"],"table_label":"Table 1"},"doc":"hale2026harmonic-damb","format":"scienting-anchor/1","kind":"cell","node":"c20cna6","node_hash":"c8e6a553f5ae1377776e86dde6ee7d48a923dea7de417408841ea33b81563272","own_hash":"45bf6ab427d435f28b82cb2b64d93c502968921507fc9397abd5d5170731c6ab","quote":{"exact":"310.0"},"rev":12,"store":"smithlab"}],"feedback":{"hit":"That is the cell.","miss":"Look in Table 1, row CT–CT."},"points":"1"}]},"prompt":"Find the table cell that gives the Set A bond constant for the CT–CT bond.","rule":{"match":"same-node"}},"kind":"exercise","type":"TextualBody","value":"Find the table cell that gives the Set A bond constant for the CT–CT bond."},"created":"2026-10-11T19:00:00Z","creator":{"id":"tag:scient.ing,2026:key:ana","name":"Ana Example","type":"Person"},"id":"tag:scient.ing,2026:annotation:smithlab/whcypxav2cqbx","layer":"tag:scient.ing,2026:layer:smithlab/kp4m2x7q","motivation":"assessing","receipt":"r10e5mzvw6tja","status":"confirmed","target":{"selector":[{"anchor":{"doc":"hale2026harmonic-damb","format":"scienting-anchor/1","kind":"table","node":"hj4s7pb","node_hash":"6c6fba200faf41cd06fa8b64e06e2aa29ff8848568b859ae42d1902596348643","own_hash":"66310a9ab1c92568f4c6cae012e35d4245d4ca4b89d2542b7c2113a31ad379ed","rev":12,"store":"smithlab"},"type":"AnchorSelector"}],"source":"tag:scient.ing,2026:doc:smithlab/hale2026harmonic-damb","type":"SpecificResource"},"type":"Annotation"}
 {"@context":["http://www.w3.org/ns/anno.jsonld","https://paperspec.scient.ing/context/scienting-1.jsonld"],"body":{"exercise":{"exercise":"check","format":"scienting-exercise/1","key":{"elements":[{"anchors":[{"doc":"hale2026harmonic-damb","format":"scienting-anchor/1","kind":"sentence","node":"kea5026","node_hash":"b836d5872ca37471fa996be04c538254a8b1e37ca12e8f1b4a40837b503afa33","own_hash":"d673d236c03d9583ecf6e01fa819765ec324dc684bd9bbc6967fa50f216e34d2","quote":{"exact":"the most common description","prefix":"Harmonic bond terms remain ","suffix":" of covalent stretching in class"},"rev":12,"span":[27,54],"store":"smithlab"}],"points":"1"}],"verdict":{"points":"1","value":"supports"}},"prompt":"Does the cited passage support the claim that harmonic terms are the most common choice?","rule":{"match":"overlap","min_overlap":"0.5"}},"kind":"exercise","type":"TextualBody","value":"Does the cited passage support the claim that harmonic terms are the most common choice?"},"created":"2026-10-11T19:00:00Z","creator":{"id":"tag:scient.ing,2026:key:ana","name":"Ana Example","type":"Person"},"id":"tag:scient.ing,2026:annotation:smithlab/y7bd3he0jwjbx","layer":"tag:scient.ing,2026:layer:smithlab/kp4m2x7q","motivation":"assessing","receipt":"r10e5mzvw6tja","status":"confirmed","target":{"selector":[{"anchor":{"doc":"hale2026harmonic-damb","format":"scienting-anchor/1","kind":"sentence","node":"kea5026","node_hash":"b836d5872ca37471fa996be04c538254a8b1e37ca12e8f1b4a40837b503afa33","own_hash":"d673d236c03d9583ecf6e01fa819765ec324dc684bd9bbc6967fa50f216e34d2","quote":{"exact":"Harmonic bond terms remain the most common description of covalent stretching in classical force fields.1"},"rev":12,"store":"smithlab"},"type":"AnchorSelector"},{"exact":"Harmonic bond terms remain the most common description of covalent stretching in classical force fields.1","prefix":"","suffix":"","type":"TextQuoteSelector"}],"source":"tag:scient.ing,2026:doc:smithlab/hale2026harmonic-damb","type":"SpecificResource"},"type":"Annotation"}
 {"@context":["http://www.w3.org/ns/anno.jsonld","https://paperspec.scient.ing/context/scienting-1.jsonld"],"body":{"kind":"description","language":"en","role":"alt","type":"TextualBody","value":"Energy along the C–C bond stretch (panel a) and the fit residual (panel b)."},"created":"2026-10-11T19:00:00Z","creator":{"id":"tag:scient.ing,2026:key:ana","name":"Ana Example","type":"Person"},"id":"tag:scient.ing,2026:annotation:smithlab/gb5tmv3hq08vz","layer":"tag:scient.ing,2026:layer:smithlab/kp4m2x7q","motivation":"describing","receipt":"r10e5mzvw6tja","status":"confirmed","target":{"selector":[{"anchor":{"doc":"hale2026harmonic-damb","format":"scienting-anchor/1","kind":"figure","node":"v7cx6qs","node_hash":"f76864779843485fa9e2f3cc3cd1c76ad222e1649c56f4cface33bf20b8f33b6","own_hash":"a1e46cb40201a17903dfd6f128db1e707b0e9f5bf45fcc32ec7ca772011edeae","rev":12,"store":"smithlab"},"type":"AnchorSelector"}],"source":"tag:scient.ing,2026:doc:smithlab/hale2026harmonic-damb","type":"SpecificResource"},"type":"Annotation"}
-{"@context":["http://www.w3.org/ns/anno.jsonld","https://paperspec.scient.ing/context/scienting-1.jsonld"],"body":{"kind":"comment","type":"TextualBody","value":"Agreed; see the residual panel."},"created":"2026-10-11T19:05:00Z","creator":{"id":"tag:scient.ing,2026:key:ana","name":"Ana Example","type":"Person"},"id":"tag:scient.ing,2026:annotation:smithlab/j3vr50xm97cp7","layer":"tag:scient.ing,2026:layer:smithlab/kp4m2x7q","motivation":"replying","status":"proposed","target":{"source":"tag:scient.ing,2026:annotation:smithlab/m9e0g8r5ebnkf","type":"SpecificResource"},"type":"Annotation"}
+{"@context":["http://www.w3.org/ns/anno.jsonld","https://paperspec.scient.ing/context/scienting-1.jsonld"],"body":{"category":"comment","kind":"comment","type":"TextualBody","value":"Agreed; see the residual panel."},"created":"2026-10-11T19:05:00Z","creator":{"id":"tag:scient.ing,2026:key:ana","name":"Ana Example","type":"Person"},"id":"tag:scient.ing,2026:annotation:smithlab/t5cv4rec7j0mt","layer":"tag:scient.ing,2026:layer:smithlab/kp4m2x7q","motivation":"replying","status":"proposed","target":{"source":"tag:scient.ing,2026:annotation:smithlab/sxj4eq8415s92","type":"SpecificResource"},"type":"Annotation"}
+{"@context":["http://www.w3.org/ns/anno.jsonld","https://paperspec.scient.ing/context/scienting-1.jsonld"],"body":{"category":"context","kind":"caveat","type":"TextualBody","value":"The band position is cited, not measured here; reference 2 is not in the library."},"created":"2026-10-11T19:10:00Z","creator":{"id":"tag:scient.ing,2026:key:ana","name":"Ana Example","type":"Person"},"id":"tag:scient.ing,2026:annotation:smithlab/g7ngzk3jkdy40","layer":"tag:scient.ing,2026:layer:smithlab/kp4m2x7q","motivation":"commenting","status":"proposed","target":{"selector":[{"anchor":{"doc":"hale2026harmonic-damb","format":"scienting-anchor/1","kind":"sentence","node":"hca6dc5","node_hash":"8cfed5a34aab28517e89e8a164f0f96c14361de83ebc800439116e83ef479f34","own_hash":"c270571517825ceed31ca912b80ac76203effe47f1c84f8ee8962800d0afc92f","quote":{"exact":"1595","prefix":" case, with a bending band near ","suffix":" cm⁻¹.2"},"rev":12,"span":[71,75],"store":"smithlab"},"type":"AnchorSelector"},{"exact":"1595","prefix":" case, with a bending band near ","suffix":" cm⁻¹.2","type":"TextQuoteSelector"}],"source":"tag:scient.ing,2026:doc:smithlab/hale2026harmonic-damb","type":"SpecificResource"},"type":"Annotation"}
@@ -1 +1 @@
-{"@context":["http://www.w3.org/ns/anno.jsonld","https://paperspec.scient.ing/context/scienting-1.jsonld"],"audience":"student","created":"2026-10-11T19:00:00Z","creator":{"id":"tag:scient.ing,2026:key:ana","name":"Ana Example","type":"Person"},"docs":["smithlab/hale2026harmonic-damb"],"format":"scienting-layer/1","id":"tag:scient.ing,2026:layer:smithlab/kp4m2x7q","label":"Smith lab reading of Hale and Osei","license":{"spdx":"CC-BY-4.0"},"project":"smithlab-charges","purpose":"Glosses, claim links and exercises for new students.","total":10,"type":"AnnotationCollection","visibility":"team"}
+{"@context":["http://www.w3.org/ns/anno.jsonld","https://paperspec.scient.ing/context/scienting-1.jsonld"],"audience":"student","created":"2026-10-11T19:00:00Z","creator":{"id":"tag:scient.ing,2026:key:ana","name":"Ana Example","type":"Person"},"docs":["smithlab/hale2026harmonic-damb"],"format":"scienting-layer/1","id":"tag:scient.ing,2026:layer:smithlab/kp4m2x7q","label":"Smith lab reading of Hale and Osei","license":{"spdx":"CC-BY-4.0"},"project":"smithlab-charges","purpose":"Glosses, claim links and exercises for new students.","total":11,"type":"AnnotationCollection","visibility":"team"}
@@ -5,9 +5,14 @@
  "rules": [
    {
      "id": "correction.digits",
-      "description": "A digit changes without crop evidence, or a leaf's digits change undeclared.",
+      "description": "A digit changes without crop evidence, an emend changes a digit or edits beside one, or a leaf's digits change undeclared.",
      "chapter": "spec/22-conformance.md"
    },
+    {
+      "id": "correction.emend",
+      "description": "An emend targets no runs, falls in math or across runs, or another operation changes an emended run or writes `printed`.",
+      "chapter": "spec/11-corrections.md"
+    },
    {
      "id": "correction.evidence",
      "description": "An insert has no crop evidence.",
@@ -48,11 +53,21 @@
      "description": "The kind takes no label.",
      "chapter": "spec/22-conformance.md"
    },
+    {
+      "id": "correction.relink",
+      "description": "A relink names no text or cite run of a node with runs, or unlinks a run that is not a cite.",
+      "chapter": "spec/11-corrections.md"
+    },
    {
      "id": "correction.replace",
      "description": "Runs replace text outside a text run, or include an equation run.",
      "chapter": "spec/22-conformance.md"
    },
+    {
+      "id": "correction.resolve",
+      "description": "A resolve names a node that is not a reference, or a resolution that is not doi, document or none.",
+      "chapter": "spec/11-corrections.md"
+    },
    {
      "id": "correction.schema",
      "description": "A proposed correction does not match the correction schema.",
@@ -88,6 +103,11 @@
      "description": "Correction indexes do not count from 1 without gaps.",
      "chapter": "spec/22-conformance.md"
    },
+    {
+      "id": "doc.correction.resolution",
+      "description": "The last resolve of a reference does not end at its resolution in references.jsonl.",
+      "chapter": "spec/11-corrections.md"
+    },
    {
      "id": "doc.correction.rev",
      "description": "document.json's rev is not the number of corrections.",
@@ -330,7 +350,7 @@
    },
    {
      "id": "doc.run.canonical",
-      "description": "Runs are not canonical: an empty text run, or two adjacent text runs with the same styles.",
+      "description": "Runs are not canonical: an empty text run, two adjacent text runs with the same styles and no `printed`, or a `printed` equal to its run's text.",
      "chapter": "spec/22-conformance.md"
    },
    {
@@ -3,6 +3,20 @@
  "$id": "https://paperspec.scient.ing/schemas/annotation.schema.json",
  "title": "Annotation",
  "description": "One line of annotations.jsonl in scienting-layer/1: a W3C Web Annotation; spec/18-layers.md.",
+  "$defs": {
+    "category": {
+      "description": "What a comment, caveat or question is about (spec/18 §18.4).",
+      "enum": [
+        "comment",
+        "context",
+        "critique",
+        "question",
+        "correction",
+        "feedback",
+        "resource"
+      ]
+    }
+  },
  "type": "object",
  "properties": {
    "@context": {
@@ -173,6 +187,9 @@
            },
            "kind": {
              "const": "comment"
+            },
+            "category": {
+              "$ref": "#/$defs/category"
            }
          },
          "required": [
@@ -203,6 +220,9 @@
            },
            "kind": {
              "const": "caveat"
+            },
+            "category": {
+              "$ref": "#/$defs/category"
            }
          },
          "required": [
@@ -240,6 +260,9 @@
                "group",
                "authors"
              ]
+            },
+            "category": {
+              "$ref": "#/$defs/category"
            }
          },
          "required": [
@@ -3,6 +3,18 @@
  "$id": "https://paperspec.scient.ing/schemas/correction.schema.json",
  "title": "Correction",
  "description": "scienting-correction/1: a line of corrections.jsonl, or a proposal; spec/11-corrections.md.",
+  "$defs": {
+    "emendKind": {
+      "enum": [
+        "typo",
+        "spelling",
+        "grammar",
+        "punctuation",
+        "wording",
+        "other"
+      ]
+    }
+  },
  "type": "object",
  "properties": {
    "format": {
@@ -25,7 +37,10 @@
        "move",
        "reclassify",
        "relabel",
-        "set"
+        "set",
+        "emend",
+        "relink",
+        "resolve"
      ]
    },
    "target": {
@@ -71,7 +86,38 @@
      "type": "string"
    },
    "kind": {
-      "$ref": "common.schema.json#/$defs/nodeKind"
+      "description": "A reclassify's new node kind, or what an emend corrects.",
+      "anyOf": [
+        {
+          "$ref": "common.schema.json#/$defs/nodeKind"
+        },
+        {
+          "$ref": "#/$defs/emendKind"
+        }
+      ]
+    },
+    "note": {
+      "type": "string",
+      "minLength": 1
+    },
+    "refs": {
+      "description": "A relink's references: reference node IDs, or null to unlink.",
+      "anyOf": [
+        {
+          "type": "array",
+          "items": {
+            "$ref": "common.schema.json#/$defs/nodeId"
+          },
+          "minItems": 1,
+          "uniqueItems": true
+        },
+        {
+          "type": "null"
+        }
+      ]
+    },
+    "resolution": {
+      "$ref": "reference.schema.json#/properties/resolution"
    },
    "label": {
      "anyOf": [
@@ -287,12 +333,74 @@
        }
      },
      "then": {
+        "properties": {
+          "kind": {
+            "$ref": "common.schema.json#/$defs/nodeKind"
+          }
+        },
        "required": [
          "target",
          "kind"
        ]
      }
    },
+    {
+      "if": {
+        "properties": {
+          "op": {
+            "const": "emend"
+          }
+        }
+      },
+      "then": {
+        "properties": {
+          "replace": {
+            "type": "string",
+            "minLength": 1
+          },
+          "kind": {
+            "$ref": "#/$defs/emendKind"
+          }
+        },
+        "required": [
+          "target",
+          "find",
+          "replace",
+          "kind"
+        ]
+      }
+    },
+    {
+      "if": {
+        "properties": {
+          "op": {
+            "const": "relink"
+          }
+        }
+      },
+      "then": {
+        "required": [
+          "target",
+          "run",
+          "refs"
+        ]
+      }
+    },
+    {
+      "if": {
+        "properties": {
+          "op": {
+            "const": "resolve"
+          }
+        }
+      },
+      "then": {
+        "required": [
+          "target",
+          "resolution"
+        ]
+      }
+    },
    {
      "if": {
        "properties": {
@@ -3,6 +3,13 @@
  "$id": "https://paperspec.scient.ing/schemas/runs.schema.json",
  "title": "Inline runs",
  "description": "The runs of a sentence, cell, reference, authors or keywords node; spec/03-nodes.md.",
+  "$defs": {
+    "printed": {
+      "description": "The run's text as the paper prints it, kept by an emend correction (spec/03 §3.5, spec/11 §11.1).",
+      "type": "string",
+      "minLength": 1
+    }
+  },
  "type": "array",
  "minItems": 1,
  "items": {
@@ -31,6 +38,9 @@
            },
            "minItems": 1,
            "uniqueItems": true
+          },
+          "printed": {
+            "$ref": "#/$defs/printed"
          }
        },
        "required": [
@@ -79,6 +89,9 @@
          "text": {
            "type": "string",
            "minLength": 1
+          },
+          "printed": {
+            "$ref": "#/$defs/printed"
          }
        },
        "required": [
@@ -110,6 +123,9 @@
          "text": {
            "type": "string",
            "minLength": 1
+          },
+          "printed": {
+            "$ref": "#/$defs/printed"
          }
        },
        "required": [
@@ -138,6 +154,9 @@
          "text": {
            "type": "string",
            "minLength": 1
+          },
+          "printed": {
+            "$ref": "#/$defs/printed"
          }
        },
        "required": [
@@ -159,6 +178,9 @@
          "text": {
            "type": "string",
            "minLength": 1
+          },
+          "printed": {
+            "$ref": "#/$defs/printed"
          }
        },
        "required": [
@@ -112,7 +112,10 @@ No other kind carries `attrs`, and each kind carries only its own attributes.
 | `link` | `url`, `text`. | The text. |
 | `equation` | `node`: the ID of an equation child of the sentence. | `$$` + that equation's source + `$$` |

-Runs are canonical: no `text` run is empty, and no two adjacent `text` runs have the same style list.
+A `text`, `link`, `cite`, `xref` or `fnmark` run MAY carry `printed`: its text as the paper prints it, where an `emend` corrected the authors ([11.6](11-corrections.md#116-emendations)).
+The run's `text` is then the emended text, and only an emend writes `printed`.
+
+Runs are canonical: no `text` run is empty, no two adjacent `text` runs have the same style list unless one of them carries `printed`, and no run's `printed` equals its `text`.
 A sentence's `equation` runs name its `equation` children, each once, in the children's order, and a sentence has no other children.
 A display equation the sentence runs through is thus part of the sentence, while keeping its own ID and hashes.

@@ -125,3 +128,8 @@ That of any other node is the plain projections of its text leaves joined with o
 A node's text leaves are found by walking its subtree in document order and stopping at `sentence`, `cell`, `reference`, `authors`, `keywords`, `code` and `algorithm` nodes, and at `equation` nodes whose parent is not a sentence; an `equation-line` is never a text leaf.

 Offsets, quotations and the text hash are all defined on the plain projection as stored, before normalization.
+
+A node's runs as printed are its runs with each run's `printed` in place of its `text`, and each `text` run that carried one joined with the adjacent `text` runs of the same style list, as the run was before an emend split it.
+Its projection as printed is the plain projection of its runs as printed; an equation's or a verbatim node's is its plain projection, and any other node's joins its text leaves' projections as printed with one U+0020.
+It is the text a witness of the paper holds, recovered from `nodes.jsonl` alone; for a node no emend touched it is the plain projection.
+The strict and lossy projections are taken over the runs as printed ([5.3](05-hashes.md#53-the-strict-projection)), and `projections.jsonl` gives an emended sentence's projections with its projection as printed.
@@ -17,6 +17,9 @@ In this chapter *H* is SHA-256 written as hexadecimal; under a keyed scheme, *H*
 | `node_hash` | *H*(canonical JSON of `{"own": own_hash, "children": [each child's node_hash, in order]}`) | Pins on leaves; the root hash; knowing that something below has changed. |

 Normalization is that of [1.4](01-conventions.md#14-text-normalization-for-hashing).
+The plain projection is of the runs as stored, and the strict and lossy projections of the runs as printed ([3.6](03-nodes.md#36-the-plain-projection)).
+So an `emend`, which corrects the authors' own slip ([11.6](11-corrections.md#116-emendations)), changes a leaf's `text_hash`, `own_hash` and `node_hash`, because the text that is read, quoted and pinned is the emended one.
+It leaves the leaf's `match_hash` and `align_key` as they were, because the witnesses they compare the leaf with hold the printed text, and a value computed from the emended text would report every emendation as a disagreement.
 Because each `node_hash` covers its children's, the root's `node_hash` covers the whole tree (it is a hash over canonical JSON of `{own, children}`, not an RFC 6962 Merkle root, which [8.5](08-fidelity.md#85-merkle-roots) defines for receipts): a correction to one sentence changes that sentence's values and the `node_hash` of each ancestor, and nothing else.
 `hashes.jsonl` gives every value for every node of a small document, with each node's own content.

@@ -42,7 +45,7 @@ A table's columns name header cells by ID, so fixing a header cell changes that
 ## 5.3 The strict projection

 The strict projection folds notation to one canonical linear form and keeps structure, so that it can certify agreement.
-It is computed over a node's runs, or its math, as follows; for other nodes it is the strict projections of the text leaves joined with U+0020, then step 3.
+It is computed over a node's runs as printed ([3.6](03-nodes.md#36-the-plain-projection)), or its math, as follows; for other nodes it is the strict projections of the text leaves joined with U+0020, then step 3.

 1. Apply NFC to every string, then project each run:

@@ -142,6 +145,7 @@ A node's prose length is the number of code points in its lossy projection other

 Two readings of a document are aligned as whole sentence sequences, never paragraph by paragraph, because backends disagree about paragraphs at page and column breaks.
 Each reading is a list of sentences in document order, each with its strict projection, lossy projection, complex keys, container and context (the kind of its container: paragraph, heading, caption and so on).
+Those projections are of the runs as printed ([5.3](#53-the-strict-projection)), so a corrected document aligned with a witness again shows no emendation as a suspect.

 1. **Anchors.** A sentence is a candidate when its lossy projection occurs exactly once in each reading and its prose length is at least 20.
   Take the candidates in the order of the first reading, and choose the longest subsequence whose positions in the second reading increase; among equally long ones, the one whose sequence of positions in the first reading is lexicographically smallest.
@@ -105,6 +105,8 @@ The result is `{result, node, node_hash?, span?, drift?, via?, reason?}`: the ou
 A `moved` or `reattached` anchor is re-pinned to the live node, and the move is recorded.

 Checks are stricter than readers: an extract is a span or leaf anchor and never accepts `changed-below`, because a check is about exact words.
+An `emend` changes a leaf's `node_hash` and plain projection as a `replace` does ([11.6](11-corrections.md#116-emendations)), so an anchor on the leaf is judged as after a replace: a quote outside the emended text that occurs once is `reattached` with its new position, and a quote that spans the emended text is `stale`.
+A `relink` changes the leaf's `node_hash` but not its plain projection, so an anchor on it is `reattached` by its quote; a `resolve` changes no node, so an anchor on the reference stays `current`.
 `resolve.jsonl` resolves seventeen anchors made at revision 0 against `fixtures/packages/hale2026harmonic-damb` at revision 12, with every outcome.

 ## 6.6 Drift
@@ -12,10 +12,16 @@
 Levels apply to leaves.
 The pipeline records F0, F1 or F2 in a leaf's `fidelity`; F3 comes only from receipts.
 A correction that changes a leaf drops it back: the gate's crop evidence makes it F1 at most, until it is corroborated or proofread again.
+An `emend`, `relink` or `resolve` ([11.1](11-corrections.md#111-operations)) never does, because a level measures the reading against its witnesses and the page.
+An emend corrects the authors, not the reading, and leaves the leaf as printed ([3.6](03-nodes.md#36-the-plain-projection)) as it was; a relink or a resolve changes no text, and the references a citation names are not text a witness corroborates.
+
+Whatever compares a leaf with a witness or with the page compares the leaf as printed: alignment and its suspects ([5.6](05-hashes.md#56-alignment)), corroboration by `match_hash`, a proofreader who signs a receipt, and a spot-check's `errors`.
+So an emendation is never reported as a misreading.

 ## 8.2 Levels

-A leaf's level is the highest of its recorded `fidelity` and the levels of every valid receipt ([8.6](#86-receipt-status)) that lists it at its current `node_hash`.
+A leaf's level is the highest of its recorded `fidelity` and the levels of every valid receipt ([8.6](#86-receipt-status)) that lists it at its current `node_hash`, or at a `node_hash` that only `emend`, `relink` and `resolve` corrections of the leaf have changed since.
+To find those hashes, walk the document's corrections back from the last: one of those three that targets the leaf and whose `after` is the hash reached so far leads back to its `before`, and any other correction that names the leaf, as its `target` or in `touched`, `path`, `to_path`, `created` or `retired`, ends the walk.
 A receipt at a lower level never lowers a node; only a revocation, a failed spot-check or a correction does.
 A spot-check's `qa:` receipt ([8.8](#88-spot-checks)) raises the nodes it sampled, except those its `errors` name.
 A document reports, in `document.json`, the lowest level among its leaves and the count at each level.
@@ -45,6 +51,7 @@ A paper has thousands of nodes, and nobody signs thousands of times, so people s

 A receipt lists nodes, records, or both.
 A correction invalidates a receipt for the corrected node only, because the node's `node_hash` no longer matches; the rest still counts.
+An emend, relink or resolve invalidates none ([8.2](#82-levels)).

 A receipt shared outside the team cannot carry plain node hashes, which would leak short texts, and its signature covers them.
 So an export re-issues it: a new receipt with `export_of`, values under the export's key, signed by the original reviewer or a team key with the `export` purpose.
@@ -9,7 +9,11 @@ Each reference is a `reference` node holding its printed runs, exactly as printe
 | `{type: "document", doc}` | It names a document in the same store, by key. |
 | `{type: "none"}` | Nothing yet. |

+A reference without a record has the resolution `none`.
+A `resolve` correction sets a reference's resolution, and its record keeps the one before ([11.7](11-corrections.md#117-citations-and-references)).
+
 Every `cite` run links a sentence to one or more references.
+A `relink` correction changes the references a run names, makes a text run a cite run, or makes a cite run text again, without changing its text ([11.7](11-corrections.md#117-citations-and-references)).
 The citation graph is therefore sentence-level: for any reference, the format gives every sentence that cites it, which is the citation's context.
 The database derives a `citations` table from the runs ([13](13-database.md)).
 An article's references and its Supporting Information's are separate documents' references and never mix.
@@ -18,9 +18,14 @@ Each has an `index`, counted from 1 in the order corrections are applied, and th
 | `reclassify` | `target`, `kind` | Changes a node's kind, such as a paragraph that is really a caption, to a kind with the same content shape. | Unchanged. |
 | `relabel` | `target`, `label` | Changes a printed label. | Unchanged. |
 | `set` | `target`, `attr`, `value` | Sets one structural attribute: a section's `level`, a table's `columns`, a cell's `column`, `rowspan`, `colspan` or `role`, a row's `header_path`, a list's `ordered`, an item's `marker` or a theorem's `variant`. | Unchanged. |
+| `emend` | `target`, `find`, `replace`, `kind`, optional `run` and `note` | Corrects the authors' own slip, where the reading matches the page and the page is wrong: replaces the one occurrence of `find` among the target's prose strings with `replace`, a non-empty string, and keeps what was printed ([11.6](#116-emendations)). `kind` is `typo`, `spelling`, `grammar`, `punctuation`, `wording` or `other`. | Unchanged. |
+| `relink` | `target`, `run`, `refs` | Makes run `run` of the target a `cite` run naming `refs`, a non-empty list of reference nodes, or with `refs` null makes a `cite` run a `text` run, keeping its text ([11.7](#117-citations-and-references)). | Unchanged. |
+| `resolve` | `target`, `resolution` | Sets a reference node's resolution in `references.jsonl` ([11.7](#117-citations-and-references)). | Unchanged. |

 A leaf's editable strings are the `text` of its `text`, `link`, `cite`, `xref` and `fnmark` runs and the `source` of its `math` runs, each searched on its own; an equation's `source`; a verbatim node's `text`.
+Its prose strings, which an emend searches, are the `text` of those five run kinds alone: never a math or equation source, and never a verbatim node's text.
 `set` exists because readings drop spans, roles and header paths; see the [rationale](../docs/rationale.md#corrections).
+`emend` exists because a faithful reading of a wrong page is not a misreading: it corrects the paper while keeping what was printed ([11.6](#116-emendations)).
 Runs are made canonical after every operation, and the result MUST satisfy every rule of [3](03-nodes.md).

 ## 11.2 Every correction records
@@ -43,9 +48,9 @@ When a correction is applied, its record gains:
 | `before`, `after` | The target's `node_hash` before and after, or null; for an inserted subtree, `target` is its root. |
 | `path` | The target's ancestors when it was applied, root first; for an insert, the new subtree's. |
 | `to_path` | For a move, the new ancestors. |
-| `touched` | The leaves whose content the correction changed, sorted: the target of a `replace`, text `insert`, `relabel` or `set` on a leaf; the new leaves of a node `insert`; the deleted leaves of a `delete`; both parts of a `split`; both nodes of a run `merge`, or the moved-in leaves of a container `merge`; the moved leaves of a `move`; the leaves of a reclassified node. |
+| `touched` | The leaves whose content the correction changed, sorted: the target of a `replace`, text `insert`, `relabel` or `set` on a leaf, and of an `emend` or `relink`; the new leaves of a node `insert`; the deleted leaves of a `delete`; both parts of a `split`; both nodes of a run `merge`, or the moved-in leaves of a container `merge`; the moved leaves of a `move`; the leaves of a reclassified node; none for a `resolve`. |
 | `created`, `retired` | IDs minted or retired. |
-| `from` | The label, kind or attribute value before a `relabel`, `reclassify` or `set`. |
+| `from` | The label, kind or attribute value before a `relabel`, `reclassify` or `set`; the references the run named before a `relink`, or null for a text run; the resolution before a `resolve`. |

 Retirements are also entered in `ids.jsonl` with the correction's index as `rev`.
 Drift ([6.6](06-anchors.md#66-drift)) is computed from `path`, `to_path` and `touched` alone, so it needs no replay.
@@ -58,19 +63,22 @@ A correction is refused, naming the rule ([22](22-conformance.md)), when:
 2. a target, parent or sibling is not live, or the root would be deleted, moved, merged or reclassified;
 3. `find` is empty or does not occur exactly once;
 4. an `insert` has no crop evidence, or names a run or offset its target does not have;
-5. a digit changes without crop evidence: in a `replace` whose `find` and replacement have different digits, a `delete` of leaves that hold digits, or a `relabel` whose labels have different digits;
+5. a digit changes without crop evidence: in a `replace` whose `find` and replacement have different digits, a `delete` of leaves that hold digits, or a `relabel` whose labels have different digits; or an `emend` changes, adds or removes a digit, or edits beside one, whatever its evidence ([11.6](#116-emendations));
 6. any leaf outside `touched` has different digits afterwards;
-7. a `split` falls outside the sentence, inside a run other than text, or leaves a part empty;
+7. a `split` falls outside the sentence, inside a run other than text or inside an emended run, or leaves a part empty;
 8. a `merge` joins nodes that differ in kind, are not mergeable, or are not adjacent siblings;
 9. a `move` would put a node inside itself;
-10. a `reclassify` changes the content shape, or a `relabel` or `set` targets a kind that does not take it; or
-11. the result breaks a rule of [3](03-nodes.md).
+10. a `reclassify` changes the content shape, or a `relabel` or `set` targets a kind that does not take it;
+11. the result breaks a rule of [3](03-nodes.md);
+12. an `emend` targets a node without runs, or finds its text only in a math or equation source or only across runs; or a `replace` or text `insert` would change an emended run, or a correction other than an emend writes `printed`;
+13. a `relink` names a run that is neither text nor a cite, or unlinks a run that is not a cite; or
+14. a `resolve` names a node that is not a reference.

 The gate needs only the document's current state, so a tool can run it on a proposal before applying anything, and get back the record the correction would append or the rule it breaks.
 `paperspec validate --correction` does this against a package.

 Digits are characters of General Category Nd in the plain projection.
-A package's corrections are also checked as a whole: indexes run from 1 without gaps, each `id` derives from its record, `rev` equals their number, every retired ID is in `ids.jsonl`, and the last correction of each leaf ends at its current `node_hash`.
+A package's corrections are also checked as a whole: indexes run from 1 without gaps, each `id` derives from its record, `rev` equals their number, every retired ID is in `ids.jsonl`, the last correction of each leaf ends at its current `node_hash`, and the last `resolve` of each reference ends at its resolution in `references.jsonl`.
 `corrections.jsonl` in the vectors applies each operation, and each refusal, to a small document.

 ## 11.5 The history root
@@ -80,3 +88,50 @@ Because corrections are only appended, a consistency proof (RFC 9162 §2.1.4) be
 The proof is a `scienting-proof/1` with `kind` `consistency`, holding the `doc`, `from_rev`, `to_rev`, `from_root`, `to_root` and the `path` as hex hashes; a verifier applies RFC 9162 §2.1.4.2.
 A checks-only package carries no corrections, so its history is the empty root.
 `proofs.jsonl` gives consistency proofs for every prefix of small trees and for the example paper between revisions 8 and 12; `fixtures/records/proof-consistency.json` is the latter.
+
+## 11.6 Emendations
+
+A `replace` fixes the reading: the converter misread the page, and the page is right.
+An `emend` fixes the paper: the reading matches the page, and the authors printed a typo, a misspelling, a slip of grammar or punctuation, or a wording an editor corrects for readers.
+The two claim different things, so different things follow from them.
+
+**What is kept.**
+In a `text` run, the found text becomes a run of its own, with the style of the run it was in, whose `text` is the replacement and whose `printed` is the found text.
+In a `link`, `cite`, `xref` or `fnmark` run, or a text run emended before, the run's text changes and `printed` keeps its whole text as it was first printed.
+The record keeps `find`, the printed string, and `replace`, the emended one, so the history says what each emendation was, while the runs say where it is after any later split, merge or move.
+A leaf as printed ([3.6](03-nodes.md#36-the-plain-projection)) is therefore recovered from `nodes.jsonl` alone: each run's `printed` in place of its text.
+
+**The gate.**
+An emend searches the target's prose strings for exactly one occurrence, as a `replace` searches its editable strings, but never a math or equation source, which `replace` corrects.
+The replacement is a string, never runs, and is not empty; to delete a word, an editor finds it with a neighbor and keeps the neighbor.
+The edit stays inside one run, so a `find` that occurs only across runs is refused.
+No digit may change, be added or removed, and the edit may not touch one: setting aside the longest common prefix of the run's string before and after, and then the longest common suffix of the rest, what remains holds no digit in either string, and the unchanged character on each side of it is not a digit.
+So an emend never turns "3,5" into "3.5": a number is data, corrected by `replace` with crop evidence, even where the authors printed it wrong.
+Only an emend writes `printed`.
+A `replace` or text `insert` that would change an emended run, a `split` inside one, and replacement runs or inserted nodes that carry `printed` are refused, and a second emend of an emended run keeps what was first printed.
+
+**What follows.**
+
+1. The leaf keeps its level ([8.1](08-fidelity.md#81-levels-of-fidelity), [8.2](08-fidelity.md#82-levels)): a level measures the reading against its witnesses and the page, and the leaf as printed is what it was.
+2. Whatever compares the leaf with a witness or the page compares it as printed, so an emendation is never reported as a misreading ([8.1](08-fidelity.md#81-levels-of-fidelity)).
+3. The leaf's `text_hash`, `own_hash` and `node_hash` change, as for any change of text, because the text read, quoted and pinned is the emended one; its `match_hash` and `align_key`, which are of the runs as printed, do not ([5.1](05-hashes.md#51-the-five-values)).
+4. Anchors on the leaf relocate by their quote, as after a `replace` ([6.5](06-anchors.md#65-resolution)).
+
+`corrections.jsonl` emends a word and a cross-reference's printed form, and refuses a changed digit, a `find` across runs, a `find` in math, an emend of a node without runs and a `replace` of an emended run; each emend's expectation adds the leaf as printed.
+
+## 11.7 Citations and references
+
+A `relink` changes what a citation names, never its text, so it needs no crop.
+With `refs` a non-empty list of reference nodes, run `run` becomes a `cite` run naming them, or stays one, and keeps its text: a text run's whole text becomes the cite's printed form, and its style is dropped, since a cite run has none ([3.5](03-nodes.md#35-inline-runs)).
+With `refs` null, a cite run becomes a text run with the same text.
+Anything an emend kept in `printed` stays.
+Every reference must be a `reference` node, as for any cite run (rule 11 of [11.4](#114-the-gate)), and `from` keeps the references the run named before, or null for a text run.
+A relink changes no plain projection, so the leaf keeps its level.
+Turning a text run into a cite, or back, still changes the leaf's `match_hash` and `align_key`, because the strict projection marks a citation ([5.3](05-hashes.md#53-the-strict-projection)); changing only which references a cite run names changes neither.
+To cite part of a text run, a `replace` gives that part as runs that include the cite run ([11.1](#111-operations)).
+
+A `resolve` sets a reference node's resolution in `references.jsonl` ([10](10-references.md)) to any valid one: `doi`, `document` or `none`.
+The record keeps the resolution before in `from`, which is `{type: "none"}` for a reference without a record; the resolve then adds the record, in document order.
+No content value covers `references.jsonl`, so a resolve changes no node's values: its `before` and `after` are the reference's unchanged `node_hash`, and `touched` is empty.
+It changes `references.jsonl`, that file's entry in the manifest, the revision and the history root, as every correction does ([11.5](#115-the-history-root)).
+`corrections.jsonl` links a citation printed as a superscript, unlinks a cite run, resolves a reference to a DOI, and refuses a relink of a cross-reference, a cite of a node that is not a reference and a resolve of a sentence.
@@ -39,7 +39,7 @@ Unloading gives the package back byte for byte, and its manifest hash with it; t
 ## 13.4 The store tables

 `store.sql` adds what a team adds to its documents: `roster_keys`, `projects`, `members`, `project_documents`, `reading_paths`, `layers`, `annotations`, `annotation_targets` (derived, so a reader finds the annotations on a node), `datasets`, `dataset_values`, `digitizations`, `views`, `policies`, `submissions` and `grades`.
-Each keeps its record whole in a `record` or `descriptor` column, with the columns a query needs beside it.
+Each keeps its record whole in a `record` or `descriptor` column, with the columns a query needs beside it, such as an annotation's `body_kind` and its `category`, which is NULL when the body has none.

 ## 13.5 The bundle

@@ -45,9 +45,9 @@ Replies are annotations that target annotations, so discussions are threads anch
 | `gloss` | `TextualBody` | `audience` | An explanation at `novice`, `student` or `expert` level. |
 | `claim-link` | `SpecificResource` | `source` (`lode:<tag>`), `pin`, `role` | That the span `states`, `uses` or `disputes` a claim. |
 | `symbol` | `SpecificResource` | `source`, `pin`, `symbol` | That this occurrence of a symbol is a symbol claim. |
-| `comment` | `TextualBody` | | A remark, opinion or interpretation. |
-| `caveat` | `TextualBody` | | A warning a reader should see. |
-| `question` | `TextualBody` | `for` | A question for a `reader`, a `group` or the `authors`. |
+| `comment` | `TextualBody` | `category` | A remark, opinion or interpretation. |
+| `caveat` | `TextualBody` | `category` | A warning a reader should see. |
+| `question` | `TextualBody` | `for`, `category` | A question for a `reader`, a `group` or the `authors`. |
 | `exercise` | `TextualBody` | `exercise` | A task with a key and a rule ([19](19-exercises.md)). |
 | `citation-context` | `TextualBody` | `reference`, `verdict`, `reason` | Why a sentence cites a reference, and whether it supports it. |
 | `prerequisite` | `SpecificResource` | `source` | What to read or know first. |
@@ -57,7 +57,24 @@ Replies are annotations that target annotations, so discussions are threads anch
 | `generated` | `TextualBody` | `generator` | Text a model wrote about the span; never mistaken for source. `generator` is `{model, run}` as a correction's model author is ([11.2](11-corrections.md#112-every-correction-records)). |

 A textual body has a `value`, and optionally a `format` (`text/plain` or `text/markdown`) and a `language`.
+
+A `comment`, `caveat` or `question` body MAY carry a `category`, which says what it is about, from a fixed list:
+
+| `category` | Says |
+| --- | --- |
+| `comment` | A general remark. |
+| `context` | Background, related work, or what a reader should know to follow the span. |
+| `critique` | A flaw in the method, the analysis or the argument. |
+| `question` | A question. |
+| `correction` | An error of fact, number, citation or reference in the paper. |
+| `feedback` | A suggestion addressed to the authors. |
+| `resource` | Data, code or a related paper. |
+
+A producer that supports categories SHOULD set one on every comment, caveat and question; the property is optional only so that layers written before it stay valid.
+The category is independent of the kind, so a caveat may be a `correction` and a question a `critique`.
+A `correction` category says that a reader found an error in the paper; correcting the document's reading of it is a correction of [11](11-corrections.md).
+The store's `annotations` table keeps the category beside the body's kind ([13.4](13-database.md#134-the-store-tables)).
 Nothing a model writes is ever stored as source text.
 A model may propose a `description`, and like any annotation it stays `proposed` until a person confirms it; an accessible export uses confirmed descriptions only, and a figure with none has no description.
 Other text a model writes about a span, such as a summary, is a `generated` annotation, which names its `generator`.
-`fixtures/records/layer/` holds a layer with one annotation of each common kind and the receipt that confirms some of them.
+`fixtures/records/layer/` holds a layer with one annotation of each common kind, each comment, caveat and question with its category, and the receipt that confirms some of them.
@@ -128,7 +128,7 @@ CREATE TABLE corrections (
  doc_key VARCHAR(128) NOT NULL,
  idx INTEGER NOT NULL CHECK (idx >= 1),
  id VARCHAR(32) NOT NULL,
-  op VARCHAR(16) NOT NULL CHECK (op IN ('replace', 'insert', 'delete', 'split', 'merge', 'move', 'reclassify', 'relabel', 'set')),
+  op VARCHAR(16) NOT NULL CHECK (op IN ('replace', 'insert', 'delete', 'split', 'merge', 'move', 'reclassify', 'relabel', 'set', 'emend', 'relink', 'resolve')),
  target VARCHAR(16),
  evidence TEXT NOT NULL,
  author TEXT NOT NULL,
@@ -69,6 +69,7 @@ CREATE TABLE annotations (
  id VARCHAR(256) NOT NULL,
  layer VARCHAR(256) NOT NULL,
  body_kind VARCHAR(24) NOT NULL CHECK (body_kind IN ('gloss', 'claim-link', 'symbol', 'comment', 'caveat', 'question', 'exercise', 'citation-context', 'prerequisite', 'crosslink', 'translation', 'description', 'generated')),
+  category VARCHAR(12) CHECK (category IN ('comment', 'context', 'critique', 'question', 'correction', 'feedback', 'resource')),
  status VARCHAR(10) NOT NULL CHECK (status IN ('proposed', 'confirmed', 'rejected', 'withdrawn')),
  receipt VARCHAR(32),
  creator VARCHAR(256) NOT NULL,
@@ -448,7 +448,7 @@ def build_document(src, used=None, extra_files=None):
    nodes, side = establish(key, spec, names, used)
    aliases = [{"id": a, "kind": "alias", "successor": names.ids[t]}
               for a, t in sorted(src.get("legacy_aliases", {}).items())]
-    state = CO.State(key, nodes, aliases)
+    state = CO.State(key, nodes, aliases, references=reference_records(Doc(key, nodes), side, names))
    states = {0: state}
    records = []
    for c in src.get("corrections", []):
@@ -478,11 +478,12 @@ def build_document(src, used=None, extra_files=None):
            names.ids[new_name] = rec["created"][0]
        records.append(rec)
        states[state.rev] = state
-    # A corrected leaf was checked against the page image: it is F1 at most until corroborated again.
+    # A corrected leaf was checked against the page image: it is F1 at most until corroborated again. An emend,
+    # relink or resolve leaves what the witness read as it was, so it keeps the leaf's level (spec/08 §8.1).
    final = state
    touched = set()
    for rec in records:
-        if any(e["kind"] == "crop" for e in rec["evidence"]):
+        if any(e["kind"] == "crop" for e in rec["evidence"]) and rec["op"] not in CO.KEEPS_LEVEL:
            touched |= set(rec["touched"]) | set(rec.get("created", []))
    for n in final.nodes:
        if n["id"] in touched and n["kind"] in LEAVES:
@@ -504,6 +505,22 @@ def _strip_private(spec, names):
    return out


+def reference_records(doc, side, names, resolved=None):
+    """The records of references.jsonl: each reference node in document order, with its label, its parsed CSL and
+    its resolution, which is the source's unless a resolve correction set it (`resolved`, by node)."""
+    refs = []
+    for nid in doc.preorder():
+        s = side.get(nid, {})
+        if doc.nodes[nid]["kind"] == "reference":
+            r = {"node": nid, "label": doc.nodes[nid].get("label")}
+            if "_csl" in s:
+                r["csl"] = s["_csl"]
+            res = s.get("_resolution", {"type": "none"})
+            r["resolution"] = (resolved or {}).get(nid) or {k: names.resolve(v) for k, v in res.items()}
+            refs.append({k: v for k, v in r.items() if v is not None})
+    return refs
+
+
 def package_files(src, key, names, side, final, records, receipts=None, roster_rec=None, witnesses=None,
                  pages=None, boxes=None, extra=None, absent=()):
    doc = final.doc()
@@ -523,16 +540,7 @@ def package_files(src, key, names, side, final, records, receipts=None, roster_r
        locs.sort(key=lambda l: (pos[l["node"]], l["page"], l["page_fp"]))
        if locs:
            files["locations.jsonl"] = jsonl(locs)
-    refs = []
-    for nid in doc.preorder():
-        s = side.get(nid, {})
-        if doc.nodes[nid]["kind"] == "reference":
-            r = {"node": nid, "label": doc.nodes[nid].get("label")}
-            if "_csl" in s:
-                r["csl"] = s["_csl"]
-            res = s.get("_resolution", {"type": "none"})
-            r["resolution"] = {k: names.resolve(v) for k, v in res.items()}
-            refs.append({k: v for k, v in r.items() if v is not None})
+    refs = reference_records(doc, side, names, {r["node"]: r["resolution"] for r in final.references})
    if refs:
        files["references.jsonl"] = jsonl(refs)
    if records:
@@ -551,7 +559,7 @@ def package_files(src, key, names, side, final, records, receipts=None, roster_r
        "tools": [{"name": "paperspec tools/build.py", "version": VERSION}],
        "stages": [{"stage": "hand", "processor": "local", "tool": "paperspec tools/build.py"}],
        "note": "Built by hand for the conformance suite; every reading is synthetic."}) + "\n").encode()
-    levels = RC.effective_levels(nodes, vals, receipts or [], ROSTER_BY_ID if roster_rec else {})
+    levels = RC.effective_levels(nodes, vals, receipts or [], ROSTER_BY_ID if roster_rec else {}, records or [])
    d = dict(src["document"])
    d = {"format": "scienting-doc/1", **d}
    d.update({"hashing": {"scheme": "plain", "algorithm": "sha-256"}, "root": vals[doc.root]["node_hash"], "rev": final.rev,
@@ -786,6 +794,9 @@ def projection_case(cid, runs, note=None):
    plain = hashing.plain(doc, s)
    c = {"id": cid, "runs": runs, "plain": plain, "normalized": norm(plain), "strict": strict, "lossy": lossy,
         "complex": cx, "text_hash": H(norm(plain)), "match_hash": H(strict), "align_key": H(lossy)}
+    printed = hashing.printed(doc, s)
+    if printed != plain:  # runs an emend touched: the projection as printed, which the strict one is made from
+        c["printed"] = printed
    if note:
        c["note"] = note
    return c
@@ -878,6 +889,11 @@ def vectors(out, hale, tiny):
        projection_case("hyphen-before-digit", [T("pages 10-20 and CT\u2013CT with 6-31G*")]),
        projection_case("en-dash-before-digit", [T("pages 10\u201320 and CT-CT with 6\u201331G*")]),
        projection_case("astral", [T("Let "), M("\U0001d465"), T(" vary.")]),
+        # An emend keeps what was printed (spec/03 §3.5): the plain projection reads the emended text, the strict
+        # and lossy ones the printed text, so the emended sentence still agrees with a witness that prints the slip.
+        projection_case("emended", [T("The "), dict(T("bond", style=["em"]), printed="bnod"), T(" was rigid.")],
+                        "The authors printed 'bnod'; an emend reads 'bond'."),
+        projection_case("as-printed", [T("The "), T("bnod", style=["em"]), T(" was rigid.")]),
    ]
    groups = [
        {"id": "h2o", "same": "match_hash",
@@ -893,6 +909,8 @@ def vectors(out, hale, tiny):
        {"id": "cite-structure", "differ": "match_hash", "cases": ["cite-mark", "cite-as-text"]},
        {"id": "dashes-align", "same": "align_key", "cases": ["hyphen-before-digit", "en-dash-before-digit"]},
        {"id": "dashes-text", "differ": "text_hash", "cases": ["hyphen-before-digit", "en-dash-before-digit"]},
+        {"id": "emended-match", "same": "match_hash", "cases": ["emended", "as-printed"]},
+        {"id": "emended-text", "differ": "text_hash", "cases": ["emended", "as-printed"]},
    ]
    byid = {c["id"]: c for c in pc}
    for g in groups:
@@ -1197,23 +1215,73 @@ def corrections_vectors():
        # A model proposed this one, so its author names the model, by weights and prompt, and the run.
        ("replace-by-model", {"op": "replace", "target": nm["@c"], "find": "second", "replace": "later", "evidence": person,
                              "author": {"model": MODEL, "run": "illustrative-run-7"}}),
+        # Emend (spec/11 §11.1): the authors' own slips. The found text becomes a run that keeps what was printed, so
+        # the match_hash and align_key stay those of the printed text, and the expectation adds the leaf as printed.
+        ("emend", {"op": "emend", "target": nm["@b"], "find": "the note", "replace": "the notes", "kind": "grammar",
+                   "note": "The sentence points at two notes below the table.", "evidence": person}),
+        ("emend-xref", {"op": "emend", "target": nm["@b"], "find": "Table 1", "replace": "Tab. 1", "kind": "wording",
+                        "evidence": person}),
+        ("emend-digit", {"op": "emend", "target": nm["@a"], "find": "42.0", "replace": "42,0", "kind": "punctuation",
+                         "evidence": crop}),
+        ("emend-across-runs", {"op": "emend", "target": nm["@b"], "find": "1 and", "replace": "1, and",
+                               "kind": "punctuation", "evidence": person}),
+        ("emend-not-runs", {"op": "emend", "target": nm["@t"], "find": "x", "replace": "X", "kind": "typo",
+                            "evidence": person}),
+        # Relink (spec/11 §11.1): the cite run becomes text with the same text, which joins the text before it.
+        ("relink-unlink", {"op": "relink", "target": nm["@b"], "run": 3, "refs": None, "evidence": person}),
+        ("relink-xref", {"op": "relink", "target": nm["@b"], "run": 1, "refs": [nm["@r"]], "evidence": person}),
+        ("relink-not-reference", {"op": "relink", "target": nm["@b"], "run": 3, "refs": [nm["@a"]], "evidence": person}),
+        # Resolve (spec/11 §11.1): the reference's record in references.jsonl, which the state before and after holds.
+        ("resolve-doi", {"op": "resolve", "target": nm["@r"], "resolution": {"type": "doi", "doi": "10.5555/example.ref.2020"},
+                         "evidence": [{"kind": "person", "by": "ana", "note": "Matched by title and year."}]}),
+        ("resolve-not-reference", {"op": "resolve", "target": nm["@a"], "resolution": {"type": "none"},
+                                   "evidence": person}),
    ]
+    # Cases on other states: a math run, a citation read as a superscript, and a run already emended.
+    st_math, _ = CO.apply(st0, dict(base, **dict(cases)["replace-runs"]), store=SCHEMAS)
+    st_emended, _ = CO.apply(st0, dict(base, **dict(cases)["emend"]), store=SCHEMAS)
+    sup = [dict(n, content=[T("The value is 42.0 at 300 K."), T("1", style=["sup"])]) if n["id"] == nm["@a"] else n
+           for n in st0.nodes]
+    others = {
+        "emend-math": (CO.State(st0.key, st_math.nodes), {"op": "emend", "target": nm["@a"], "find": "mathrm",
+                                                           "replace": "mathup", "kind": "typo", "evidence": person}),
+        "relink-superscript": (CO.State(st0.key, sup), {"op": "relink", "target": nm["@a"], "run": 1, "refs": [nm["@r"]],
+                                                        "evidence": person}),
+        "replace-emended": (CO.State(st0.key, st_emended.nodes), {"op": "replace", "target": nm["@b"], "find": "notes",
+                                                                  "replace": "note", "evidence": crop}),
+    }
    out = []
-    vals0 = hashing.compute(st0.doc())
-    before = [dict(n, **vals0[n["id"]]) for n in st0.nodes]
-    for cid, c in cases:
+    for cid, c in cases + [(cid, c) for cid, (_, c) in others.items()]:
+        st = others[cid][0] if cid in others else st0
+        vals0 = hashing.compute(st.doc())
        c = dict(base, **c)
-        case = {"id": cid, "doc": st0.key, "before": {"nodes": before, "ids": [], "rev": 0}, "correction": c}
+        before = {"nodes": [dict(n, **vals0[n["id"]]) for n in st.nodes], "ids": [], "rev": 0}
+        if c["op"] == "resolve":
+            st = CO.State(st.key, st.nodes, references=st0.references)
+            before["references"] = st.references
+        case = {"id": cid, "doc": st0.key, "before": before, "correction": c}
        try:
-            st1, rec = CO.apply(st0, c, store=SCHEMAS)
-            v1 = hashing.compute(st1.doc())
-            case["expect"] = {"record": rec, "nodes": [dict(n, **v1[n["id"]]) for n in st1.nodes], "ids": st1.ids}
+            st1, rec = CO.apply(st, c, store=SCHEMAS)
+            case["expect"] = correction_expect(st1, rec, "references" in before)
        except Refusal as e:
            case["expect"] = {"refusal": e.rule}
        out.append(case)
    return out


+def correction_expect(st1, rec, references=False):
+    """What a correction vector expects: the record, the nodes with their values and the ID table; the reference
+    records too when the case gives them; and for an emend, its leaf as printed (spec/03 §3.6)."""
+    d1 = st1.doc()
+    v1 = hashing.compute(d1)
+    out = {"record": rec, "nodes": [dict(n, **v1[n["id"]]) for n in st1.nodes], "ids": st1.ids}
+    if references:
+        out["references"] = st1.references
+    if rec["op"] == "emend":
+        out["printed"] = {nid: hashing.printed(d1, nid) for nid in rec["touched"]}
+    return out
+
+
 def resolve_vectors(hale):
    src, names, states, final = hale["src"], hale["names"], hale["states"], hale["final"]
    s0 = states[0]
@@ -1411,9 +1479,12 @@ def records(out, hale):
            target(anchor("@s2", "bond force constant")), "describing", "confirmed"),
        ann({"type": "SpecificResource", "kind": "claim-link", "source": "lode:amber/k-bond", "pin": "illustrative-pin",
             "role": "states"}, target(anchor("@s2")), "linking", "confirmed"),
-        ann({"type": "TextualBody", "kind": "comment", "value": "The step size matters more than the text admits."},
+        # Comments, caveats and questions carry the category a producer that supports categories always sets
+        # (spec/18 §18.4).
+        ann({"type": "TextualBody", "kind": "comment", "category": "critique",
+             "value": "The step size matters more than the text admits."},
            target(anchor("@s6a", "steps of 0.01")), "commenting"),
-        ann({"type": "TextualBody", "kind": "question", "for": "group",
+        ann({"type": "TextualBody", "kind": "question", "category": "question", "for": "group",
             "value": "Why fit to a scan first and to frequencies second?"},
            target(AN.make_anchor(doc, vals, I["@sec2"], rev, store=STORE)), "questioning"),
        ann({"type": "TextualBody", "kind": "citation-context", "reference": I["@r2"], "verdict": "cannot-tell",
@@ -1431,8 +1502,12 @@ def records(out, hale):
             "value": "Energy along the C–C bond stretch (panel a) and the fit residual (panel b)."},
            target(AN.make_anchor(doc, vals, I["@fig1"], rev, store=STORE)), "describing", "confirmed"),
    ]
-    anns.append(ann({"type": "TextualBody", "kind": "comment", "value": "Agreed; see the residual panel."},
+    anns.append(ann({"type": "TextualBody", "kind": "comment", "category": "comment",
+                     "value": "Agreed; see the residual panel."},
                    {"type": "SpecificResource", "source": anns[2]["id"]}, "replying", created="2026-10-11T19:05:00Z"))
+    anns.append(ann({"type": "TextualBody", "kind": "caveat", "category": "context",
+                     "value": "The band position is cited, not measured here; reference 2 is not in the library."},
+                    target(anchor("@s3", "1595")), "commenting", created="2026-10-11T19:10:00Z"))
    confirmed = [a for a in anns if a["status"] == "confirmed"]
    lr = RC.seal({"format": "scienting-receipt/1", "doc": HALE, "rev": rev, "level": "F3",
                  "scope": "targeted:layer", "nodes": [],
@@ -222,6 +222,9 @@ def check_records():
       % sorted(figures - described))
    ok("records", any(a["body"]["kind"] == "generated" and a["status"] == "proposed" for a in anns),
       "the layer has no proposed generated annotation to contrast with the confirmed description")
+    # The fixtures' producer supports categories, so it sets one on every comment, caveat and question (spec/18 §18.4).
+    ok("records", all("category" in a["body"] for a in anns if a["body"]["kind"] in ("comment", "caveat", "question")),
+       "a comment, caveat or question of the layer has no category")


 def state_of(pkg):
@@ -610,18 +613,27 @@ def check_vectors():
       "zero errors in 300 bounds the rate below 1%")
    for c in V("alignment.jsonl"):
        ok("vectors", AL.align(c["a"], c["b"]) == c["expect"], "alignment " + c["id"])
+    from paperspec.cli.build import correction_expect
    for c in V("corrections.jsonl"):
        st = CO.State(c["doc"], [{k: v for k, v in n.items() if k not in (
-            "text_hash", "match_hash", "align_key", "own_hash", "node_hash")} for n in c["before"]["nodes"]])
+            "text_hash", "match_hash", "align_key", "own_hash", "node_hash")} for n in c["before"]["nodes"]],
+            references=c["before"].get("references"))
        try:
            st1, rec = CO.apply(st, c["correction"], store=STORE)
-            v1 = hashing.compute(st1.doc())
            ok("vectors", st1.index().values == reference_values(st1.doc()),
               "correction %s: incremental values differ from the full computation" % c["id"])
-            got = {"record": rec, "nodes": [dict(n, **v1[n["id"]]) for n in st1.nodes], "ids": st1.ids}
+            got = correction_expect(st1, rec, "references" in c["before"])
        except Refusal as e:
            got = {"refusal": e.rule}
        ok("vectors", got == c["expect"], "correction " + c["id"])
+        if c["correction"]["op"] == "emend" and "record" in c["expect"]:
+            # An emend leaves the leaf as printed, and so its match_hash and align_key, as they were (spec/11 §11.3).
+            nid = c["correction"]["target"]
+            before = {n["id"]: n for n in c["before"]["nodes"]}[nid]
+            after = {n["id"]: n for n in c["expect"]["nodes"]}[nid]
+            ok("vectors", c["expect"]["printed"][nid] == hashing.plain(st.doc(), nid)
+               and all(before[k] == after[k] for k in ("match_hash", "align_key")) and before["text_hash"] != after["text_hash"],
+               "correction %s: the emend changed the leaf as printed" % c["id"])
    states = {}
    for c in V("resolve.jsonl"):
        st = states.setdefault(c["package"], state_of(p(c["package"])))
@@ -798,9 +810,9 @@ def check_sql():
                     (lay["id"], lay.get("project"), lay["label"], lay["purpose"], lay.get("audience"),
                      lay["visibility"], jcs.dumps(lay["license"]), jcs.dumps(lay)))
        for a in jl(os.path.join(R, "layer", "annotations.jsonl")):
-            conn.execute("INSERT INTO annotations VALUES (?,?,?,?,?,?,?,?)",
-                         (a["id"], a["layer"], a["body"]["kind"], a["status"], a.get("receipt"), a["creator"]["id"],
-                          a["created"], jcs.dumps(a)))
+            conn.execute("INSERT INTO annotations VALUES (?,?,?,?,?,?,?,?,?)",
+                         (a["id"], a["layer"], a["body"]["kind"], a["body"].get("category"), a["status"], a.get("receipt"),
+                          a["creator"]["id"], a["created"], jcs.dumps(a)))
        prj = js(os.path.join(R, "project.json"))
        conn.execute("INSERT INTO projects VALUES (?,?,?,?,?,?,?)",
                     (prj["key"], prj.get("store"), prj["name"], prj.get("description"), jcs.dumps(prj.get("claims")),
@@ -5,7 +5,8 @@ Usage: paperspec stress [--seed N] [--rounds N]
 The vectors pin values; this program checks the invariants the chapters state, over inputs drawn from a seeded
 random generator, so a failure is reproducible from the seed it prints. Canonical JSON round-trips and sorts keys
 by UTF-16 units; normalization is idempotent; notation folding never raises; random corrections keep the five
-values equal to a full recomputation, never reuse an ID and apply deterministically; anchors made before those
+values equal to a full recomputation, never reuse an ID and apply deterministically, and an emend, relink or
+resolve leaves what a witness read, and the receipts on it, as they were; anchors made before those
 corrections always resolve to one of the five outcomes; Merkle roots agree with a second implementation;
 spot-check samples do not depend on input order; error bounds are the least six-decimal value with the stated tail;
 differently stamped pages share a fingerprint; the zip reader and the package validator refuse or accept mutated
@@ -154,7 +155,7 @@ def random_correction(rng, st, doc):
    sentences = _leaf_ids(doc, {"sentence"})
    cells = _leaf_ids(doc, {"cell"})
    op = rng.choice(["replace", "replace", "split", "merge", "move", "relabel", "set", "delete", "reclassify",
-                     "insert-text", "insert-node"])
+                     "insert-text", "insert-node", "emend", "emend", "relink", "resolve"])
    evidence = [{"kind": "crop", "sha256": "0" * 64}] if rng.random() < 0.8 else [{"kind": "person", "by": "ana"}]
    c = {"op": op.split("-")[0], "evidence": evidence}
    if op == "replace" and (sentences or cells):
@@ -205,6 +206,25 @@ def random_correction(rng, st, doc):
        if rng.random() < 0.2:
            node["foo"] = 1
        c.update(parent=parent, place_after=rng.choice(kids + [None]), node=node)
+    elif op == "emend" and (sentences or cells):
+        nid = rng.choice(sentences + cells)
+        texts = [r.get("text") or r.get("source", "") for r in doc.nodes[nid]["content"]]
+        text = rng.choice(texts + [hashing.plain(doc, nid)])
+        if not text:
+            return None
+        i = rng.randrange(len(text))
+        j = min(len(text), i + rng.randint(1, 6))
+        c.update(target=nid, find=text[i:j], replace=rand_text(rng, 1, 8),
+                 kind=rng.choice(["typo", "spelling", "grammar", "punctuation", "wording", "other"]))
+    elif op == "relink" and sentences:
+        nid = rng.choice(sentences)
+        refs = _leaf_ids(doc, {"reference"})
+        c.update(target=nid, run=rng.randint(0, len(doc.nodes[nid]["content"])),
+                 refs=rng.choice([None, refs[:1] or None, [rng.choice(doc.order)]]))
+    elif op == "resolve":
+        c.update(target=rng.choice(_leaf_ids(doc, {"reference"}) + [rng.choice(doc.order)]),
+                 resolution=rng.choice([{"type": "none"}, {"type": "doi", "doi": "10.5555/stress.%d" % rng.randint(0, 9)},
+                                        {"type": "document", "doc": "smithlab/" + TINY_KEY}]))
    else:
        return None
    return c
@@ -247,6 +267,24 @@ def stress_corrections(rng, rounds):
        ok("corrections", rec["id"] == record_id(sha256_hex(jcs.dumpb({k: v for k, v in rec.items() if k != "id"}))),
           "the record's id does not derive from its content")
        ok("corrections", rec["index"] == st.rev + 1 == st1.rev, "the record's index is not the next revision")
+        # Emend, relink and resolve leave what a witness read as it was (spec/11 §11.3): an emend keeps the leaf as
+        # printed, and so its match_hash and align_key; a relink keeps its plain projection; a resolve its node_hash.
+        t = c.get("target")
+        d0, d1 = st.doc(), st1.doc()
+        if c["op"] == "emend":
+            v0, v1 = st.index().values[t], st1.index().values[t]
+            ok("corrections", hashing.printed(d0, t) == hashing.printed(d1, t) and v0["match_hash"] == v1["match_hash"]
+               and v0["align_key"] == v1["align_key"], "an emend changed the leaf as printed: %s" % json.dumps(c)[:160])
+        elif c["op"] == "relink":
+            ok("corrections", hashing.plain(d0, t) == hashing.plain(d1, t), "a relink changed the text")
+        elif c["op"] == "resolve":
+            ok("corrections", st.index().values == st1.index().values
+               and {r["node"]: r["resolution"] for r in st1.references}.get(t) == c["resolution"],
+               "a resolve changed a node or did not record its resolution")
+        if c["op"] in CO.KEEPS_LEVEL:
+            carried = RC.carried_hashes(st1.index().values, st1.corrections)
+            ok("corrections", st.index().values[t]["node_hash"] in carried[t],
+               "a receipt at the hash before an %s would no longer count" % c["op"])
        st2, rec2 = CO.apply(st, copy.deepcopy(c), store=SCHEMAS)
        ok("corrections", rec2 == rec and st2.nodes == st1.nodes and st2.ids == st1.ids, "apply is not deterministic")
        try:
@@ -23,17 +23,23 @@ SETTABLE = {
    "theorem": {"variant"},
 }
 EDITABLE_RUN_FIELD = {"text": "text", "link": "text", "cite": "text", "xref": "text", "fnmark": "text", "math": "source"}
+# The runs an emend searches: prose, never a math or equation source (spec/11 §11.1).
+PROSE_RUNS = frozenset(["text", "link", "cite", "xref", "fnmark"])
+# The operations that never lower a leaf's level: what a witness read stays what it was (spec/08 §8.1-8.2).
+KEEPS_LEVEL = frozenset(["emend", "relink", "resolve"])


 class State:
-    """The current state of a document: nodes, the ID table and the corrections applied."""
+    """The current state of a document: nodes, the ID table, the corrections applied and the reference records."""

-    def __init__(self, key, nodes, ids=None, corrections=None, indexes=None):
+    def __init__(self, key, nodes, ids=None, corrections=None, indexes=None, references=None):
        self.key = key
        self.nodes = [dict(n) for n in nodes]
        self.ids = [dict(e) for e in (ids or [])]
        self.corrections = [dict(c) for c in (corrections or [])]
        self._indexes = dict(indexes or {})
+        # The records of references.jsonl, which a resolve rewrites (spec/10, spec/11 §11.1).
+        self.references = [dict(r) for r in (references or [])]

    @property
    def rev(self):
@@ -85,6 +91,34 @@ def _has_crop(c):
    return any(e.get("kind") == "crop" for e in c.get("evidence", []))


+def _carries_printed(v):
+    """Whether runs, or a subtree to insert, carry `printed`, which only an emend writes (spec/11 §11.4)."""
+    if isinstance(v, list):
+        return any(_carries_printed(x) for x in v)
+    if isinstance(v, dict):
+        return "printed" in v or any(_carries_printed(x) for x in v.values())
+    return False
+
+
+def _edits_by_digit(old, new):
+    """Whether turning `old` into `new` changes, adds or removes a digit, or edits beside one (spec/11 §11.4).
+
+    The edit is what is left once the longest common prefix, and then the longest common suffix of the rest, are
+    set aside; its characters in both strings, and the unchanged character on each side of it, are checked.
+    """
+    if old == new:
+        return False
+    p = 0
+    while p < len(old) and p < len(new) and old[p] == new[p]:
+        p += 1
+    s = 0
+    while s < len(old) - p and s < len(new) - p and old[-1 - s] == new[-1 - s]:
+        s += 1
+    edit = old[p:len(old) - s] + new[p:len(new) - s]
+    beside = old[max(p - 1, 0):p] + old[len(old) - s:len(old) - s + 1]
+    return bool(digits(edit + beside))
+
+
 def _rebuild(nodes):
    """Recompute document order and `ord` from parent links, keeping sibling order as listed."""
    by_id = {n["id"]: n for n in nodes}
@@ -181,6 +215,7 @@ def apply(state, c, hasher=hashing.PLAIN, store=None):
    retired, created = [], []
    path = doc.ancestors(target) if target in by_id else None
    touched = []
+    references = state.references

    if op == "replace":
        node = by_id[target]
@@ -195,6 +230,11 @@ def apply(state, c, hasher=hashing.PLAIN, store=None):
        if len(hits) != 1:
            raise Refusal("correction.find", "find occurs %d times, not exactly once" % len(hits), target)
        pth, s, i = hits[0]
+        # An emended run's text is the editor's, not a reading, so only another emend changes it.
+        if len(pth) == 2 and "printed" in node["content"][pth[0]]:
+            raise Refusal("correction.emend", "the run was emended; only another emend changes its text", target)
+        if _carries_printed(repl):
+            raise Refusal("correction.emend", "only an emend records what was printed", target)
        if isinstance(repl, str):
            _set_string(node, pth, s[:i] + repl + s[i + len(find):])
        else:
@@ -215,6 +255,8 @@ def apply(state, c, hasher=hashing.PLAIN, store=None):
    elif op == "insert" and "node" in c:
        if not _has_crop(c):
            raise Refusal("correction.evidence", "an insert needs crop evidence")
+        if _carries_printed(c["node"]):
+            raise Refusal("correction.emend", "only an emend records what was printed")
        parent = c["parent"]
        if parent not in by_id:
            raise Refusal("correction.target", "no live parent %s" % parent)
@@ -244,6 +286,8 @@ def apply(state, c, hasher=hashing.PLAIN, store=None):
        f = EDITABLE_RUN_FIELD.get(r["kind"])
        if not f or offset > len(r[f]) or not isinstance(c.get("text"), str):
            raise Refusal("correction.insert", "bad run or offset", target)
+        if "printed" in r:
+            raise Refusal("correction.emend", "the run was emended; only another emend changes its text", target)
        node["content"][run] = dict(r, **{f: r[f][:offset] + c["text"] + r[f][offset:]})
        node["content"] = canonical_runs(node["content"])
        touched = [target]
@@ -269,12 +313,13 @@ def apply(state, c, hasher=hashing.PLAIN, store=None):
                first.append(r)
            elif pos >= k:
                second.append(r)
-            elif r["kind"] == "text":
+            elif r["kind"] == "text" and "printed" not in r:
                cut = k - pos
                first.append(dict(r, text=r["text"][:cut]))
                second.append(dict(r, text=r["text"][cut:]))
            else:
-                raise Refusal("correction.split", "the offset falls inside a %s run" % r["kind"], target)
+                where = "an emended run" if "printed" in r else "a %s run" % r["kind"]
+                raise Refusal("correction.split", "the offset falls inside " + where, target)
            pos += ln
        _strip_edge(first, end=True)
        _strip_edge(second, end=False)
@@ -375,6 +420,88 @@ def apply(state, c, hasher=hashing.PLAIN, store=None):
        node["attrs"] = attrs
        touched = [target] if node["kind"] in LEAVES else []

+    elif op == "emend":
+        node = by_id[target]
+        if node["kind"] not in RUN_KINDS:
+            raise Refusal("correction.emend", "emend corrects the prose of runs; a %s is corrected by replace"
+                          % node["kind"], target)
+        find, repl = c.get("find", ""), c["replace"]
+        if not find:
+            raise Refusal("correction.find", "find must not be empty")
+        runs = node["content"]
+        # `run`, when given, narrows the search to one run, as for replace.
+        mine = [i for i in range(len(runs)) if c.get("run", i) == i]
+        hits = [(i, j) for i in mine if runs[i]["kind"] in PROSE_RUNS for j in _occurrences(runs[i]["text"], find)]
+        if not hits:
+            sources = [runs[i]["source"] if runs[i]["kind"] == "math"
+                       else doc.nodes[runs[i]["node"]]["content"]["source"]
+                       for i in mine if runs[i]["kind"] in ("math", "equation")]
+            if any(find in s for s in sources) or ("run" in c and len(mine) == 1 and sources):
+                raise Refusal("correction.emend", "emend corrects prose, not math; a source is corrected by replace",
+                              target)
+            if "run" not in c and find in hashing.plain_runs(runs, doc):
+                raise Refusal("correction.emend", "find crosses a run boundary; an emend stays inside one run", target)
+        if len(hits) != 1:
+            raise Refusal("correction.find", "find occurs %d times, not exactly once" % len(hits), target)
+        i, j = hits[0]
+        r = runs[i]
+        old = r["text"]
+        new = old[:j] + repl + old[j + len(find):]
+        if _edits_by_digit(old, new):
+            raise Refusal("correction.digits", "an emend changes no digit and edits beside none; a number is "
+                                               "corrected by replace, with crop evidence", target)
+        if r["kind"] == "text" and "printed" not in r:
+            # The found text becomes a run of its own, styled as before, that keeps what was printed.
+            style = {"style": r["style"]} if "style" in r else {}
+            mid = [dict({"kind": "text", "text": old[:j]}, **style),
+                   dict({"kind": "text", "text": repl, "printed": find}, **style),
+                   dict({"kind": "text", "text": old[j + len(find):]}, **style)]
+            node["content"] = runs[:i] + mid + runs[i + 1:]
+        else:
+            # Any other run, or one emended before, keeps its whole printed text, from the first emend.
+            node["content"][i] = dict(r, text=new, printed=r.get("printed", old))
+        node["content"] = canonical_runs(node["content"])
+        touched = [target]
+
+    elif op == "relink":
+        node = by_id[target]
+        run, refs = c.get("run"), c.get("refs")
+        if node["kind"] not in RUN_KINDS or not _is_index(run) or run >= len(node["content"]):
+            raise Refusal("correction.relink", "relink names a run of a node with runs", target)
+        r = node["content"][run]
+        if r["kind"] not in ("text", "cite") or (refs is None and r["kind"] != "cite"):
+            raise Refusal("correction.relink", "relink links a text or cite run, and unlinks a cite run", target)
+        if refs is not None and (not isinstance(refs, list) or not refs):
+            raise Refusal("correction.relink", "refs is a non-empty list of references, or null", target)
+        record["from"] = r["refs"] if r["kind"] == "cite" else None
+        # The printed form and anything an emend kept stay; a cite run takes no style (spec/03 §3.5).
+        keep = {"printed": r["printed"]} if "printed" in r else {}
+        if refs is None:
+            new_run = dict({"kind": "text", "text": r["text"]}, **keep)
+        else:
+            new_run = dict({"kind": "cite", "refs": list(refs), "text": r["text"]}, **keep)
+        node["content"] = canonical_runs(node["content"][:run] + [new_run] + node["content"][run + 1:])
+        touched = [target]
+
+    elif op == "resolve":
+        node = by_id[target]
+        if node["kind"] != "reference":
+            raise Refusal("correction.resolve", "resolve names a reference node, not a %s" % node["kind"], target)
+        res = c.get("resolution")
+        if not isinstance(res, dict) or res.get("type") not in ("doi", "document", "none"):
+            raise Refusal("correction.resolve", "the resolution is doi, document or none (spec/10)", target)
+        references = [dict(x) for x in state.references]
+        held = next((x for x in references if x["node"] == target), None)
+        # A reference without a record has not been resolved yet.
+        record["from"] = held["resolution"] if held else {"type": "none"}
+        if held:
+            held["resolution"] = res
+        else:
+            pos = {nid: k for k, nid in enumerate(doc.order)}
+            references.append(dict({"node": target}, **({"label": node["label"]} if "label" in node else {}),
+                                   resolution=res))
+            references.sort(key=lambda x: pos.get(x["node"], len(pos)))
+
    else:
        raise Refusal("correction.op", "unknown operation " + op)

@@ -407,7 +534,8 @@ def apply(state, c, hasher=hashing.PLAIN, store=None):
                raise Refusal("correction.digits", "an undeclared digit change", nid)

    for k in ("op", "target", "find", "replace", "run", "offset", "text", "parent", "place_after", "node", "with",
-              "joiner", "kind", "label", "attr", "value", "evidence", "author", "reason", "at"):
+              "joiner", "kind", "label", "attr", "value", "refs", "resolution", "note", "evidence", "author", "reason",
+              "at"):
        if k in c:
            record[k] = c[k]
    if op == "insert" and "node" in c:
@@ -429,7 +557,7 @@ def apply(state, c, hasher=hashing.PLAIN, store=None):
                        "rev": record["index"]})
    new_ids.sort(key=id_order)
    new_state = State(state.key, [after_doc.nodes[x] for x in after_doc.preorder()], new_ids,
-                      state.corrections + [record], {hasher.key: after_ix})
+                      state.corrections + [record], {hasher.key: after_ix}, references)
    return new_state, record


@@ -450,5 +578,11 @@ def _strip_edge(runs, end):
                t = t[1:]
        if t:
            runs[i] = dict(r, text=t)
+            # What an emended run printed loses the same edge whitespace, so the parts read as printed split alike.
+            if "printed" in r:
+                p = r["printed"]
+                while p and is_ws(p[-1 if end else 0]):
+                    p = p[:-1] if end else p[1:]
+                runs[i] = dict(runs[i], printed=p) if p else {k: v for k, v in runs[i].items() if k != "printed"}
            return
        del runs[i]
@@ -58,6 +58,28 @@ def plain_runs(runs, doc=None):
    return "".join(out)


+def as_printed(runs):
+    """The runs as the paper prints them (spec/03 §3.6): each run's `printed` in place of its text, and a text run
+    that carried one joined with an adjacent text run of the same style, as the run was before an emend split it.
+
+    Only an emend sets `printed` (spec/11 §11.1), so these are the runs with every emendation undone and every
+    other correction kept; runs without one are returned as they are.
+    """
+    out, last = [], False
+    for r in runs:
+        mark = "printed" in r
+        if mark:
+            r = dict(r)
+            r["text"] = r.pop("printed")
+        if (mark or last) and out and r["kind"] == "text" and out[-1]["kind"] == "text" \
+                and out[-1].get("style") == r.get("style"):
+            out[-1] = dict(out[-1], text=out[-1]["text"] + r["text"])
+        else:
+            out.append(r)
+        last = mark
+    return out
+
+
 def _strict_math(notation, source, complexes):
    folded = fold_math(notation, source)
    if folded is None:
@@ -72,8 +94,9 @@ def _finish_strict(s):


 def strict_runs_raw(runs, doc, complexes):
+    """The strict projection of runs before NFKC and whitespace, over the runs as printed (spec/05 §5.3)."""
    out = []
-    for r in runs:
+    for r in as_printed(runs):
        k = r["kind"]
        if k == "text":
            st = r.get("style", [])
@@ -148,6 +171,18 @@ def plain(doc, nid):
    return " ".join(plain(doc, x) for x in doc.text_leaves(nid))


+def printed(doc, nid):
+    """The plain projection as printed (spec/03 §3.6): the plain projection of the runs as printed, so the text a
+    witness of the paper holds even where an emend corrected the authors. Equal to `plain` for a node no emend
+    touched; equations and verbatim text are never emended."""
+    n = doc.nodes[nid]
+    if n["kind"] in RUN_KINDS:
+        return plain_runs(as_printed(n["content"]), doc)
+    if n["kind"] in MATH_KINDS or n["kind"] in VERBATIM_KINDS:
+        return plain(doc, nid)
+    return " ".join(printed(doc, x) for x in doc.text_leaves(nid))
+
+
 def strict(doc, nid):
    """The strict canonical projection and the node's complex math keys, in order."""
    n = doc.nodes[nid]
@@ -394,6 +394,14 @@ def _validate(root, store, key, rep, limit=SIZE_LIMIT):
    for i, ref in enumerate(data["references.jsonl"], 1):
        if kinds.get(ref["node"]) != "reference":
            rep.add("doc.reference.node", "references.jsonl:%d" % i, "names no reference node")
+    # The last resolve of each live reference ends at its resolution in references.jsonl (spec/11 §11.3), which is
+    # none for a reference without a record.
+    held = {r["node"]: r["resolution"] for r in data["references.jsonl"]}
+    resolved = {c["target"]: c for c in cors if c["op"] == "resolve"}
+    for nid, c in resolved.items():
+        if nid in live and held.get(nid, {"type": "none"}) != c["resolution"]:
+            rep.add("doc.correction.resolution", c["id"], "the last resolve of %s is not its resolution in "
+                    "references.jsonl" % nid)
    rorder = sorted(data["references.jsonl"], key=lambda r: pos.get(r["node"], -1))
    if rorder != data["references.jsonl"]:
        rep.add("doc.order.references", "references.jsonl", "references follow document order")
@@ -470,7 +478,7 @@ def _validate(root, store, key, rep, limit=SIZE_LIMIT):
    if not withheld and (roster or not recs):
        # Without a roster no receipt can be judged valid, so a package that carries receipts but no roster is
        # checked against its store instead; one with neither reports the leaves' own levels.
-        if R.distribution(R.effective_levels(nodes, vals, recs, roster)) != document["fidelity"]:
+        if R.distribution(R.effective_levels(nodes, vals, recs, roster, cors)) != document["fidelity"]:
            rep.add("doc.fidelity.report", "document.json", "the fidelity distribution does not recompute")


@@ -485,7 +493,8 @@ def read_state(root):

    values = ("text_hash", "match_hash", "align_key", "own_hash", "node_hash")
    nodes = [{k: v for k, v in n.items() if k not in values} for n in jl("nodes.jsonl")]
-    return State(read_json(os.path.join(root, "document.json"))["key"], nodes, jl("ids.jsonl"), jl("corrections.jsonl"))
+    return State(read_json(os.path.join(root, "document.json"))["key"], nodes, jl("ids.jsonl"), jl("corrections.jsonl"),
+                 references=jl("references.jsonl"))


 def n_root_hash(nodes, doc):
@@ -256,13 +256,37 @@ def receipt_status(rec, records, roster):
    return statuses(records, roster).get(rec.get("id"), "invalid")


-def effective_levels(nodes, values, records, roster):
-    """Every leaf's level: its recorded level, raised by valid receipts that list it at its current hash.
+def carried_hashes(values, corrections):
+    """For each node, the node_hashes at which a receipt still counts for it (spec/08 §8.2): its current one, and
+    each earlier one that only emend, relink and resolve corrections of the node itself have changed since.
+
+    Walking the corrections back from the last, one that names the node in any way ends its chain, unless it is
+    one of those three, targets the node, and ends at the hash reached so far; then its `before` is reached.
+    """
+    from .corrections import KEEPS_LEVEL
+    out = {nid: {v["node_hash"]} for nid, v in values.items()}
+    reached = {nid: v["node_hash"] for nid, v in values.items()}
+    for c in reversed(corrections):
+        named = ({c.get("target")} | set(c.get("touched", [])) | set(c.get("path") or []) | set(c.get("to_path") or [])
+                 | set(c.get("created", [])) | set(c.get("retired", [])))
+        for nid in named & set(reached):
+            if c["op"] in KEEPS_LEVEL and c.get("target") == nid and c.get("after") == reached[nid] and c.get("before"):
+                reached[nid] = c["before"]
+                out[nid].add(c["before"])
+            else:
+                del reached[nid]
+    return out
+
+
+def effective_levels(nodes, values, records, roster, corrections=()):
+    """Every leaf's level: its recorded level, raised by valid receipts that list it at its current hash, or at a
+    hash only emend, relink and resolve corrections have changed since, given the document's `corrections`.

    A spot-check's `qa:` receipt does not raise the nodes it found in error (spec/08 §8.2).
    """
    level = {n["id"]: n.get("fidelity") for n in nodes if "fidelity" in n}
    status = statuses(records, roster)
+    carried = carried_hashes(values, corrections)
    for rec in records:
        if rec["format"] != "scienting-receipt/1":
            continue
@@ -270,7 +294,7 @@ def effective_levels(nodes, values, records, roster):
            continue
        wrong = {e["node"] for e in (rec.get("qa") or {}).get("errors", [])}
        for nid, h in rec.get("nodes", []):
-            if nid in level and nid not in wrong and values[nid]["node_hash"] == h:
+            if nid in level and nid not in wrong and h in carried[nid]:
                if LEVELS.index(rec["level"]) > LEVELS.index(level[nid]):
                    level[nid] = rec["level"]
    return level
@@ -24,10 +24,16 @@ class Refusal(Exception):


 def canonical_runs(runs):
-    """Drop empty text runs and join adjacent text runs with the same styles."""
+    """Drop empty text runs and join adjacent text runs with the same styles.
+
+    A run that keeps what was printed (`printed`, spec/03 §3.5) is never joined, so the emendation stays where it
+    was made; a `printed` equal to the run's text records nothing and is dropped.
+    """
    out = []
    for r in runs:
        r = dict(r)
+        if "printed" in r and r["printed"] == r.get("text"):
+            del r["printed"]
        if r["kind"] == "text":
            if "style" in r:
                r["style"] = sorted(set(r["style"]))
@@ -35,7 +41,8 @@ def canonical_runs(runs):
                    del r["style"]
            if r["text"] == "":
                continue
-            if out and out[-1]["kind"] == "text" and out[-1].get("style") == r.get("style"):
+            if (out and out[-1]["kind"] == "text" and out[-1].get("style") == r.get("style")
+                    and "printed" not in out[-1] and "printed" not in r):
                out[-1] = dict(out[-1], text=out[-1]["text"] + r["text"])
                continue
        out.append(r)
@@ -106,8 +106,8 @@ The table below uses a few terms that the chapters define:
 | `normalize.jsonl` | Normalization for hashing, and the SHA-256 of the result. | [1.4](../spec/01-conventions.md#14-text-normalization-for-hashing) |
 | `ids.jsonl` | Minting payloads and node IDs, and letter-first encodings of digests. | [4](../spec/04-identity.md) |
 | `notation.jsonl` | Each math source's canonical linear form, or null when it is complex. | [5.4](../spec/05-hashes.md#54-simple-notation) |
-| `projections.jsonl` | One-sentence runs: plain, normalized, strict and lossy projections, complex keys and the three text values. | [5.3](../spec/05-hashes.md#53-the-strict-projection) |
-| `projection-groups.jsonl` | Which cases must share, or must differ in, a value: H₂O in six spellings, cm⁻¹, 10⁻³, K_r, ligatures, the micro sign, "103" against 10³. | [5.3](../spec/05-hashes.md#53-the-strict-projection) |
+| `projections.jsonl` | One-sentence runs: plain, normalized, strict and lossy projections, complex keys and the three text values, and the projection as printed (`printed`) of an emended sentence. | [5.3](../spec/05-hashes.md#53-the-strict-projection), [3.6](../spec/03-nodes.md#36-the-plain-projection) |
+| `projection-groups.jsonl` | Which cases must share, or must differ in, a value: H₂O in six spellings, cm⁻¹, 10⁻³, K_r, ligatures, the micro sign, "103" against 10³, and an emended sentence against its printed text. | [5.3](../spec/05-hashes.md#53-the-strict-projection) |
 | `offsets.jsonl` | Code-point spans and their UTF-16 equivalents. | [1.5](../spec/01-conventions.md#15-character-offsets) |
 | `hashes.jsonl` | Every node of a small document, its own content and its five values. | [5.1](../spec/05-hashes.md#51-the-five-values) |
 | `addresses.jsonl` | How addresses parse; null for invalid ones. | [6.1](../spec/06-anchors.md#61-addresses) |
@@ -118,7 +118,7 @@ The table below uses a few terms that the chapters define:
 | `spotcheck.jsonl` | Seed payloads, seeds, sample sizes and samples. | [8.8](../spec/08-fidelity.md#88-spot-checks) |
 | `bounds.jsonl` | Reviewer error bounds as reported. | [8.9](../spec/08-fidelity.md#89-reviewer-error-bounds) |
 | `alignment.jsonl` | Two readings of a document, their pairs and their suspects. | [5.6](../spec/05-hashes.md#56-alignment) |
-| `corrections.jsonl` | Each operation and refusal on a small document: the state before, the correction, and the record and state after, or the rule broken. | [11](../spec/11-corrections.md) |
+| `corrections.jsonl` | Each operation and refusal on a small document: the state before, the correction, and the record and state after, or the rule broken; with the reference records for a `resolve`, and the leaf as printed for an `emend`. | [11](../spec/11-corrections.md) |
 | `resolve.jsonl` | Anchors made on the example paper's first reading, and how each resolves after its corrections. | [6.5](../spec/06-anchors.md#65-resolution) |
 | `rights.jsonl` | Stage checks with policies and expiry, the combining rule, and backend conditions. | [14](../spec/14-rights.md) |
 | `grading.jsonl` | Exercises, submissions and the grades they earn. | [19.4](../spec/19-exercises.md#194-grading) |
@@ -138,7 +138,7 @@ A candidate format changes only with a recorded reason and a new or changed vect

 A passing run shows one thing: for these inputs, your implementation computes the same values as the reference implementation in `src/paperspec/`.
 That code computed the expected outputs, and `pixi run build` regenerates them ([tools/](../tools/README.md)).
-The vectors hold 312 cases in all, some of them small: `hashes.jsonl` has one document, `alignment.jsonl` two pairs of readings, `offsets.jsonl` two cases.
+The vectors hold 329 cases in all, some of them small: `hashes.jsonl` has one document, `alignment.jsonl` two pairs of readings, `offsets.jsonl` two cases.

 The vectors do not show the following.

@@ -27,3 +27,16 @@
 {"before":{"ids":[],"nodes":[{"align_key":"b3108c22ec836d883e5116f7ed8546fa75390eb4aa960d78f2936115f69b6826","id":"s0fn2fj","kind":"document","match_hash":"b6a4e12f700a6214bf02c9a437559e82fccdbecea7b575fa438a7d2e8c33071a","node_hash":"a05328e6d13edba652599aceb58c018dbccf54abd1f878c9f61623017960e1fe","ord":0,"own_hash":"34444fe0e6bdbf3927a579fe3286859d204ea0882a381b7769ffd4905551d24f","parent":null,"text_hash":"bd2abc746d51cf52d57a18632383245d585e29e265426967894eed99bc937561"},{"align_key":"caf6aee3882b3890996037e35d0ffdfe30b5e66653d45321d7ea0fa9135f1ee9","attrs":{"level":1},"id":"b9wp3tt","kind":"section","label":"1","match_hash":"5a96c01f314c4d8a22fd5e105bebef45df4301886cccbc2538ecefddfcb1d405","node_hash":"ea9a1409bbf0f0f7bd8d508bfdbbf7d14a22ab1e3da011eafbfcd4e14ae7e4fd","ord":0,"own_hash":"65da097b48f8237e8d171bfbd0053ff0e3795c0532d5522d23a92b53430956f4","parent":"s0fn2fj","text_hash":"7a97628fe9643c0fca3614a077e2e631c3fee81d3733ba1564292df65a294573"},{"align_key":"c099142bc3186ded72786ba27e9ea6d2da240fb9fd3fe79b479ecf8e734b2850","id":"vet7k0e","kind":"heading","match_hash":"219c4a6c86a716e99d5dc9611b61e584deb11b57e972d87d4b773387ebc3cadd","node_hash":"a3c82ab1e44bf4cffa1a59507f8bddc39a1ad191321ee803d0d60d96609a44c7","ord":0,"own_hash":"e813ff86a8920cef741e548eb5df545774b520d2fadbdda6e2b872a6729b9d26","parent":"b9wp3tt","text_hash":"219c4a6c86a716e99d5dc9611b61e584deb11b57e972d87d4b773387ebc3cadd"},{"align_key":"c099142bc3186ded72786ba27e9ea6d2da240fb9fd3fe79b479ecf8e734b2850","content":[{"kind":"text","text":"Results"}],"fidelity":"F2","id":"em5pd9v","kind":"sentence","match_hash":"219c4a6c86a716e99d5dc9611b61e584deb11b57e972d87d4b773387ebc3cadd","node_hash":"293fc03ff4e39d7532467e4417ffcdb15f470f0bd3658dc1c021645ad53c9bef","ord":0,"own_hash":"c55f401232b19ff1133d77eac6c72868975064f177fc2d31ab8a181303c30599","parent":"vet7k0e","text_hash":"219c4a6c86a716e99d5dc9611b61e584deb11b57e972d87d4b773387ebc3cadd"},{"align_key":"610c235321e38145abff21e31eaab303d85a6ce0d1b9340a599dc821a04922f6","id":"ytp1e5n","kind":"paragraph","match_hash":"bcb4902ec69f2a7a724384f561ee9aa0e214c824c5882c1ad92777bee680aad4","node_hash":"7667a3a4bc2e8fec1dc7af53e19c414952f9ce926b1e37e8d9adca66dd8f8d1d","ord":1,"own_hash":"494e069be36a18ecaabf5a63be7c31617ade7a5460218ca83a2de3d8d8f964e0","parent":"b9wp3tt","text_hash":"f589ee914c46c4aea7ce2de49d925c433c914121f576b81a3eab692f17f179a3"},{"align_key":"8f21603c39df123eb8680362184274aac9bdf1dbd485b3bba230960179071c95","content":[{"kind":"text","text":"The value is 42.0 at 300 K."}],"fidelity":"F2","id":"jvnys4s","kind":"sentence","match_hash":"3bcf9fa8412dca28be91d6423460233ddedd7add6c324d8a0f2b26038567d3d3","node_hash":"f5761f338b2878dff39a6ee724a75b13626dd625a0df96cf1cc6f9e8258cb7cc","ord":0,"own_hash":"7f0b9190d076cf01b51a8be863a51e9a8eeaab5d3ec8656202ff4d41578d4d82","parent":"ytp1e5n","text_hash":"3bcf9fa8412dca28be91d6423460233ddedd7add6c324d8a0f2b26038567d3d3"},{"align_key":"8e7fe271cd1bab88d86c8900fe3ffae0ce95c55af6659df1fca278d359296e2d","content":[{"kind":"text","text":"See "},{"kind":"xref","target":"tb49qpc","text":"Table 1"},{"kind":"text","text":" and the note."},{"kind":"cite","refs":["r3e21zr"],"text":"1"}],"fidelity":"F2","id":"mzwwhxj","kind":"sentence","match_hash":"9894a48790a8561966e68672fa13da20541d25a5178653720648f62cbc9ad36b","node_hash":"8f3e5338ba3c97efca4cef5c60d849757aed6334ee27ab807fa71d969089e46e","ord":1,"own_hash":"02ed6d50b8ac607b59e3f7b5116ee6143ed7e69af25b19c4037aa799bc330a88","parent":"ytp1e5n","text_hash":"5b1de19c9eb1399e54bde7e96f051cac8b337be1f307fac320292b8db7e39da7"},{"align_key":"282eea00b316a6950fb7179f6289a8b98359019e11cb23a3ff426cdecad90165","id":"exq1ter","kind":"paragraph","match_hash":"da88f35d24faf0099610c720953c4919647a5dfb9003889a15c464cd9c540fb1","node_hash":"062dd26bfb226ca9811d0dfb013df211cb201dfe7b4b25f9aba000f3212298d5","ord":2,"own_hash":"494e069be36a18ecaabf5a63be7c31617ade7a5460218ca83a2de3d8d8f964e0","parent":"b9wp3tt","text_hash":"da88f35d24faf0099610c720953c4919647a5dfb9003889a15c464cd9c540fb1"},{"align_key":"b8074a8bc013aa007023c4cce7334f1e1f22384d57a526ca22fd2f5589d5ab17","content":[{"kind":"text","text":"A second paragraph."}],"fidelity":"F2","id":"j663d4h","kind":"sentence","match_hash":"2e8313b033de5e17878ae778d6293bbd6e197a072f36acf7fe0840a690a7f31e","node_hash":"443539440dca73149ca75276492334ce9a5a6c50070137e8dc7bf414b75a27ab","ord":0,"own_hash":"acee4b6b1399bfde1dc67dea8d8c86b0db961d2af516ae4aaee26f294261456f","parent":"exq1ter","text_hash":"2e8313b033de5e17878ae778d6293bbd6e197a072f36acf7fe0840a690a7f31e"},{"align_key":"437c101749b0481e615fc7eed8dcacb536b65400c7e0695ad4cbb2bf2dae488c","content":[{"kind":"text","text":"It ends here."}],"fidelity":"F2","id":"rsw24qc","kind":"sentence","match_hash":"2888dbfa0c08fd65c58c923b920860c76e13913d9fa93b03eccbbf7bdf53b882","node_hash":"caeb3ae57d0821b8ac961c9507debbcda2b118b16cdc010b83a143a782058d57","ord":1,"own_hash":"705f77e8520c8c5ce3a7a495a20d8a9c55baa9801e49a55c341f5de79eeeLine truncated
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