1issue_id,file,action,note2"K-20","manuscript/sections/part03_data.tex","fixed","Macros now generated (LinkNeededOaIdsSecondPassArxivDoi = 0); prose says the residual needed list after the second pass is 1,605 DBLP / 0 arXiv, and reports the pass-2 count via PrismaIdentifiedOpenalexPassTwoDblpArxivLinked."3"K-21","manuscript/sections/part03_data.tex","fixed","Counts paragraph and figure caption now report the three-way partition core + penumbra + neither (PrismaNeitherCoreNorPenumbraAfterExclusions, 4,192 under A-006), explain the residual class from the construction of the pass-2 identifier list (hedged: not verified record by record) and state the assert in define_corpus.py."4"K-22","manuscript/sections/part03_data.tex","fixed","First pass = PrismaIdentifiedOpenalexPassOneCsTopicFilter (15,490,159), second pass = PrismaIdentifiedOpenalexPassTwoDblpArxivLinked (1,102,807), total loaded = PrismaIdentifiedOpenalexTotalRecordsLoaded; also corrected the OpenAlex subsection (l.59) which used LinkOaCsRecords for the first-pass output."5"K-23","manuscript/sections/part03_data.tex","fixed","Prose now states that 03_citation_impact.py takes the yearly counts of the surviving node as the union with its merged preprint's counts (CTE CY), exact only for pairs the pairing found."6"K-24","manuscript/sections/part03_data.tex","fixed","Sensitivity windows now March 2026 and August 2026 (run_structural_change.py --sensitivity default 2026-03,2026-08)."7"K-25","manuscript/sections/part03_data.tex","fixed","Reports the realised 450-pair sample: DOI 235/250 (0.94), title-year 200/200 (1.00); describes the 15 DOI failures from the CSV (truncated titles, author name order/diacritics, 1-2 year gaps, a few substantively different titles under one DOI) and states the DOI stratum is not error-free; PI verdicts still empty, H-1 unsigned."8"K-26","manuscript/sections/part03_data.tex","fixed","180 PI-review pairs (two in five of 450)."9"K-27","manuscript/sections/part03_data.tex","fixed","\pending markers replaced by PrismaExcludedSequentialESevenGenericDeposit (+ independent PrismaExcludedESevenGenericDeposit), PrismaEligibleDatePrecisionMonth/Year."10"K-28","manuscript/sections/part03_data.tex","fixed","Paragraph now says A-005 records the E7 redefinition."11"K-29","manuscript/sections/part03_data.tex","fixed","Log now has seven entries (A-000 to A-006, A-006 added after the critique); A-005 and A-006 described. App H's 'All six amendments' is now stale too (not my file)."12"K-30","manuscript/sections/part03_data.tex","fixed","ACL URL step stated to have contributed no link (link_acl_oa has doi and title_year only)."13"K-31","manuscript/sections/part03_data.tex","fixed","Pairing rule now gives both routes (title+year within 2; shared arXiv id) and the published-twin conditions (in window, non-XPAC, titled, kept type or DBLP-linked); outcome paragraph cites PrismaVersionRelationshipTitleYear / ArxivId."14"K-32","manuscript/sections/part03_data.tex","fixed","First-author surname condition (when both present) added to the DBLP title step."15"K-33","manuscript/sections/part03_data.tex","fixed","\AclParsedEntries used."16"K-34","manuscript/sections/part03_data.tex","fixed","E1 now also described as removing out-of-window second-pass records loaded by identifier (also stated in the second-pass subsection)."17"K-35","manuscript/sections/part03_data.tex","fixed","date_precision = year only when YYYY-01-01 and no preprint/arXiv date; first-date override of YYYY-01-01 dates stated in sec:data-dedup and sec:data-dates."18"K-36","manuscript/sections/part03_data.tex","fixed","Switched every duplicated work to the key of references.bib: martinmartin2021coverage, radev2013aclanthology, kinney2023s2ag, fortunato2018scienceofscience, culbert2025openalexcoverage, scheidsteger2023magopenalex, page2021prismaexplanation, wang2013citationwindow, lin2020arxivcs; deleted the nine duplicate entries from references_part03.bib (9 entries remain, all unique DOIs); merge_bibs rerun (735 entries, 1 DOI conflict = matsakis2014rust in part02, not mine). Part II should cite culbert2025openalexcoverage (journal version) per K-05."19K-01,manuscript/sections/part02_evolution.tex,fixed,"Bornmann & Mutz 2015 re-verified via Crossref abstract (10.1002/asi.23329): three phases <1 % / 2-3 % / 8-9 % to 2010; sentence now reports all three and a modern doubling time of about nine years."20K-02,manuscript/sections/part02_evolution.tex,fixed,"Lin et al. 2020 verified via the arXiv version's abstract (2308.01899; Crossref/OpenAlex carry no abstract): 66 % published under unchanged titles + 11 % under changed titles for arXiv CS preprints 2008-2017. 'Majority unmatched' reversed to 'about a quarter unmatched' at l.55 and l.151, flagged as abstract-based; unsupported 'median delay' claim removed."21K-03,manuscript/sections/part02_evolution.tex,fixed,"Seasonality now described as a single set of eleven month dummies common to both periods (as _design() fits it); amplitude change stated as absorbed by residuals, a limitation."22K-04,manuscript/sections/part02_evolution.tex,fixed,"\LinkOaCsRecords replaced by \PrismaIdentifiedOpenalexPassOneCsTopicFilter (pass 1) + \PrismaIdentifiedOpenalexPassTwoDblpArxivLinked (pass 2) = \PrismaIdentifiedOpenalexTotalRecordsLoaded; linkage counts described as after both passes."23K-05,manuscript/sections/part02_evolution.tex,fixed,"Parenthesis repaired; cites journal version culbert2025openalex (entry copied into references_part02.bib, culbert2024openalex deleted); also switched openalex2025topics->openalex2024topics, kinney2023s2->kinney2023s2ag (main-bib keys), fortunato2018sos->fortunato2018science; duplicate ott2022benchmarks @misc deleted from part02 bib (main bib Nature Comms entry wins)."24K-06,manuscript/sections/part02_evolution.tex,fixed,"Superlative 'faster than any previous software product' deleted; sentence keeps only the caveat on analyst figures."25K-07,manuscript/sections/part02_evolution.tex,fixed,"'the first systems language' -> 'one of the first systems languages'."26K-08,manuscript/sections/part02_evolution.tex,fixed,"Flyspeck dated: begun 2003, completed 2014, published 2017."27K-09,manuscript/sections/part02_evolution.tex,fixed,"Added competing explanations (indexing lag, linkage failure, right truncation) with reference to Part III sec:data-dates."28K-10,manuscript/sections/part02_evolution.tex,fixed,"'In a preprint' removed for Ott et al. 2022 (Nature Communications)."29K-11,manuscript/sections/part02_evolution.tex,fixed,"Venue-only re-estimation now described as a planned Appendix D check not yet offered by classify.py."30K-70,manuscript/appendices/appA_taxonomy.tex,fixed,"Paragraph now labels the DBLP coverage counts as ontology-build statistics from the generated section of taxonomy/ONTOLOGY.md, not corpus macros."31K-71,manuscript/appendices/appA_taxonomy.tex,fixed,"'was validated' -> 'is to be validated'; closing sentence states the validation had not been run when written."32K-80,manuscript/appendices/appB_search_and_sources.tex,fixed,"Macro \LinkNeededOaIdsSecondPassArxivDoi now emitted (0) by regenerated numbers.tex; text reworded to say the id list is re-derived at each linkage run and the quoted figures are the residue after the union run."33K-81,manuscript/appendices/appB_search_and_sources.tex,fixed,"Paragraph rewritten with pass-1 and pass-2 macros summing to \PrismaIdentifiedOpenalexTotalRecordsLoaded; stale \pending removed; PRISMA item 15 row updated likewise; core rule row updated to A-006 and the core+penumbra+neither assertion (\PrismaNeitherCoreNorPenumbraAfterExclusions) added."34K-82,manuscript/appendices/appB_search_and_sources.tex,fixed,"20 GB figure now attached to \PrismaIdentifiedOpenalexPassOneCsTopicFilter."35K-83,manuscript/appendices/appB_search_and_sources.tex,fixed,"Increment totals reported from macros (\IncrementApiCalls, \IncrementRecordsRetrieved, \IncrementCostUsd, \IncrementSlicesDone of 66, \IncrementTruncatedSlices); truncated slice identified (2026-10-16 cs_secondary, count nearly 4x the 10,000 cap, about a quarter retrieved) without typing the ledger count (no macro); \pending{IncrementNewWorks} kept as the critic allows."36K-84,manuscript/appendices/appB_search_and_sources.tex,fixed,"Three \pending replaced by \DblpParsedRecords, \AclParsedEntries, \PrismaExcludedESevenGenericDeposit."37K-85,manuscript/appendices/appB_search_and_sources.tex,fixed,"110 -> 108 MB/s."38K-86,manuscript/appendices/appB_search_and_sources.tex,fixed,"App B already cites the main-bib keys (openalex2024topics, radev2013aclanthology, kinney2023s2ag); duplicates removed on the Part II side (see K-05); Part III's copies are the Part III fixer's."39K-90,manuscript/appendices/appC_derivations.tex,fixed,"metrics_h12/h24.json absent, so the rule is stated (every third month from January 2018; training Dec 2019..Dec 2021 for h=12, ..Dec 2020 for h=24) with realised cutoffs Jan 2020-Oct 2021 / Oct 2020, T_max+h = Oct 2022, test Jan 2023-Oct 2024, and the metrics keys that will record the lists."40K-91,manuscript/appendices/appC_derivations.tex,fixed,"Remark documenting the Part IV contradiction deleted; now states Part IV describes the same rule (Part IV fixer handles K-54)."41K-92,manuscript/appendices/appC_derivations.tex,fixed,"'at least two post-event months' with the identification reason."42K-93,manuscript/appendices/appC_derivations.tex,fixed,"'fifteen columns in X, the constant included'."43K-100,manuscript/appendices/appE_data_dictionary.tex,fixed,"created_date caveat added (2025 re-ingestion; unusable for the lag profile; ref Part III sec:data-dates)."44K-101,manuscript/appendices/appE_data_dictionary.tex,fixed,"Record type 'data' added."45K-110,manuscript/appendices/appH_reproducibility.tex,fixed,"'28 cores' removed from the capture claim; text records that the capture has no core count, runbook says 28, inventory says 32 (cannot edit the capture file under this brief)."46K-111,manuscript/appendices/appH_reproducibility.tex,fixed,"Typed provenance counts replaced by macros (\PrismaIdentifiedOpenalexPassOneCsTopicFilter, \LinkSlimTotal, \DblpParsedRecords, \LinkArxivCsRecords, \AclParsedEntries) in the steps table, prose and raw-sources table."47K-112,manuscript/appendices/appH_reproducibility.tex,fixed,"Same-environment statement for M5M36/M4M64c/M3U96a now declared an assumption (no capture under reproducibility/)."48K-113,manuscript/appendices/appH_reproducibility.tex,fixed,"arXiv licence wording harmonised with Part III ('arXiv metadata terms', CC0 for the metadata) in prose and in tab:appH-raw."49K-40,manuscript/sections/part04_methodology.tex,fixed,macro \LinkNeededOaIdsSecondPassArxivDoi now emitted by make_numbers.py (regenerated 617 macros); usage kept50K-41,manuscript/sections/part04_methodology.tex,fixed,"garbled diversity paragraph rewritten from 04_diversity_cagr.py: category mix per year <= 2025, delta = 1 - centroid cosine (post then baseline) else 1 - co-classification Jaccard, RS percentile CI from B=500 multinomial resamples seed 44, LC q=2 without CI, similarity source recorded"51K-42,manuscript/sections/part04_methodology.tex,fixed,eq:first-date rewritten as the two-branch rule of define_corpus.py (1-January date dropped when a preprint/arXiv date exists); consequence stated (year-only 2022 record with 2023 arXiv date -> post period)52K-43,manuscript/sections/part04_methodology.tex,fixed,prec = year only when no preprint/arXiv date; 'cannot manufacture a break' removed; period-dependence of the rescue stated as a maintained caveat with macros \PrismaEligibleDatePrecisionMonth/Year; sensitivity redistributing year-only records declared not implemented53K-44,manuscript/sections/part04_methodology.tex,fixed,"eq:duppair now has both routes (title+year within 2 years, shared arXiv id), the admissible-twin set B (in window, non-XPAC, titled, kept type or DBLP), length test on normalised titles, macros \PrismaVersionRelationshipTitleYear/ArxivId"54K-45,manuscript/sections/part04_methodology.tex,fixed,period cases pre/future added; pre = \PrismaEligibleByPeriodPre works outside both periods and monthly series; future empty (prisma_counts eligible_by_period has no such key)55K-46,manuscript/sections/part04_methodology.tex,fixed,first-author surname condition of link_sources.py added to step 3 of the DBLP cascade56K-47,manuscript/sections/part04_methodology.tex,fixed,membership rule rewritten per A-006 (in_dblp OR cs_primary OR arxiv_cs_primary); old clause and its unreachability explained; third class reported with \PrismaNeitherCoreNorPenumbraAfterExclusions57K-48,manuscript/sections/part04_methodology.tex,fixed,"weighting sentence replaced: DOI stratum dominates p-hat; automatic check passes all title pairs and fails some DOI pairs (book-level DOIs = error, retitled versions = correct link); PI verdicts settle precision"58K-49,manuscript/sections/part04_methodology.tex,fixed,"linkage_sample.py normalisation (NFKD ASCII fold, lower-case, non-alphanumerics collapsed to a space) and surname normalisation (DBLP 4-digit suffix stripped) described"59K-50,manuscript/sections/part04_methodology.tex,fixed,"donut specification described from run_structural_change.py (--donut 3: event month + 3 months each side, 7 months removed) and reported with \ItsSeriesTotalItsChatgptDonutN/LevelChange/LevelP"60K-51,manuscript/sections/part04_methodology.tex,fixed,"1,000-replication bootstrap claim removed; only bootstrap stated = 04_diversity_cagr.py (B=500 multinomial, RS and category shares); Gini, cross-area shares, modularity carry no interval"61K-52,manuscript/sections/part04_methodology.tex,fixed,"CAGR attributed to 04_diversity_cagr.py (2018->2022 and 2023->2025 on primary counts, shares 2018/2022/2025, undefined if start count 0); script added to the list"62K-53,manuscript/sections/part04_methodology.tex,fixed,"'with and without the preprint type' removed; venue_hhi_yearly.csv is all-types only, top-1 share is the only preprint gauge"63K-54,manuscript/sections/part04_methodology.tex,fixed,"cutoff rule stated (index = 0 mod 3 from 2018-01; train 2020-01..2021-10 for h=12, 2020-01..2020-10 for h=24, last label closes 2022-10; test 2023-01..2024-10 for h=12, 2023-01..2024-04 for h=24 with last month 2026-06); metrics JSON absent so the rule is described; Appendix C (K-90/K-91) is for its own fixer"64K-55,manuscript/sections/part04_methodology.tex,fixed,--last-month default corrected to June 202665K-56,manuscript/sections/part04_methodology.tex,fixed,overlap sentence deleted; non-overlap of (T-2..T) and (T-27..T-3) stated66K-57,manuscript/sections/part04_methodology.tex,fixed,"known_set.py described as a separate preregistered-concept lead-time check (keyword regexes, z>3 and doubling with >=30 works, ex-post peak month), explicitly not the H8 test; numbers left as \pending (no macro for known_set_lead_times.csv in make_numbers.py)"67K-58,manuscript/sections/part04_methodology.tex,fixed,"six checkpoints H-0 to H-5, H-0 described"68K-59,manuscript/sections/part04_methodology.tex,fixed,"created_date qualified (2025 re-ingestion, not used as an indexing date) consistent with Part III"69K-60,manuscript/sections/part04_methodology.tex,fixed,"seasonality remark replaced by the driver's baseline-month-mean seasonal adjustment of the log series, also the input of PELT and BOCPD"70K-61,manuscript/sections/part04_methodology.tex,fixed,"Gini and NCS populations = eligible, non-retracted works; retracted exclusion and preprint-citation CY union (B4) now owned by the citation-windows subsection"71K-62,manuscript/sections/part04_methodology.tex,fixed,"baseline-only placebo rank described (excludes the true event, can be 0) next to the full-range rank"72K-63,manuscript/sections/part04_methodology.tex,fixed,"'immaterial' removed; driver gives no reason for --first 2018-02, omission stated as one baseline month (\ItsSeriesTotalNMonths months)"73bib-part04,manuscript/references_part04.bib,fixed,"duplicate-DOI keys removed from references_part04.bib (waltman2019fieldnorm, wang2013window, uzzi2013atypical, bernal2018controls, bai2003computation) and replaced in part04 \cite by the references.bib keys; merge_bibs.py re-run (741 entries)"74