Compare commits
4 Commits
| Author | SHA1 | Date | |
|---|---|---|---|
| 88c2819edd | |||
| 866aeaf068 | |||
| c05b979b01 | |||
| 3f81734e69 |
@@ -49,6 +49,7 @@ jobs:
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subprocess.run([str(venv/'bin/paper-atlas'),'--help'],cwd=outside,check=True)
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subprocess.run([python,'-I','-B','-m','paper_atlas','collect','cvf','--help'],cwd=outside,check=True)
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subprocess.run([python,'-I','-B','-m','paper_atlas','maintain','postgres','--help'],cwd=outside,check=True)
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subprocess.run([python,'-I','-B','-m','paper_atlas','maintain','joint-editions','--help'],cwd=outside,check=True)
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subprocess.run([python,'-I','-B','-m','paper_atlas','import','records','--help'],cwd=outside,check=True)
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subprocess.run([python,'-I','-B','-m','paper_atlas','import','arxiv','--help'],cwd=outside,check=True)
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subprocess.run([python,'-I','-B','-m','paper_atlas','maintain','backfill','--help'],cwd=outside,check=True)
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@@ -86,3 +86,5 @@ paper-atlas collect colm --cache /data/paper-index/raw/http-cache \
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CI 在已授权的远程 runner 上运行测试、构建 wheel,并从源码目录外验证安装后的命令及随包资源。数据库全量去重和覆盖率是独立的数据验收步骤,不因代码测试通过而自动完成。
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开发通过工作分支和 PR 交付,由用户手动合并。
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历史联合会议的既有届次归属可通过 [`maintain joint-editions`](docs/joint-editions.md) 先只读规划,再按计划哈希执行;保留论文与投稿决定来源,不重导入。
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@@ -178,10 +178,6 @@ paper-atlas collect dblp \
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输出按会议/年份/track 分文件,附 manifest、`dblp-normalization.json` 范围审查统计和带哈希的 `dblp-import-queue.json`。不能识别的书目、年份或归属会逐类登记,不默认算作主会。DBLP 不含摘要,因此输出摘要为空、清单为 partial;需要通过有证据的跨来源关联补齐论文实体摘要。书目发表证据与原始审稿决定分别保留,不依据书目缺席推断拒稿。已存在其他出版来源的届次,还须先回填其权威身份并核验镜像记录,不能直接累加投稿数。
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早期 AISTATS 1995/1997/1999/2001/2003/2005 和 COLT 1988–1991 的主系列名称本身含 Workshop,不能当作附属 workshop 漏掉。识别要求已核对的完整 proceedings key、会议书目名、原始标题前缀、届数和事件年一致;轨道名为 `main` 表示主系列,保留原始 Workshop 名称及官方目录证据,不改造其历史名称或出版形式。参见 [AISTATS 官方历史目录](https://aistats.org/other.html)、[COLT 协会目录](https://www.learningtheory.org/)。1995 AISTATS 的会议年与1996图书出版年分开;[PMLR R0](https://proceedings.mlr.press/r0/) 是后来重发的 pre-proceedings,不与 DBLP 图书条目盲目逐篇等同。
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真正附属的 AISTATS 2010 Active Learning and Experimental Design workshop 仍单列。COLT 2003 与 Kernel Workshop 的 [混合论文集](https://doi.org/10.1007/b12006) 缺少逐篇章节信息,使用 `proceedings_unspecified`,不能整卷改成 main 或附属 workshop。输出保存 `track_scope_note` 与 `track_scope_evidence_url`,导入后仍可追查分类理由;这些出版证据不是真实拒稿或原始决定签名,也不自动修正既有主库记录。
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部分早期 SIGIR、CIKM、IJCAI 出版卷使用两位年份键;只有论文集标题明确给出唯一完整年份且与短键相符时才采用,不推测世纪。WWW 特殊兴趣、Alternate track 单列;同卷混合 Applied Data Science、Demo、Industrial 且不能逐篇区分时使用 `proceedings_unspecified`,不把整卷归为某一个具体 track。
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书目中的前后页、目录组合和明确会务标题不产生论文录用记录;缺作者的赞助、委员会、活动汇总等标题单独排除。WWW 2019 companion 的匿名合成活动条目归入待核查材料,原始快照仍保留。范围报告分别统计这些原因;单纯缺作者并不排除真实研究论文,也不补造作者。
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@@ -0,0 +1,67 @@
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# Repairing joint conference membership
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EURAI's [official history](https://www.eurai.org/ecai/history) identifies ECAI 2018
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and 2022 as joint IJCAI/ECAI conferences. The pinned DBLP volumes
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`conf/ijcai/2018` and `conf/ijcai/2022` use `IJCAI` as their booktitle and title.
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Existing records can therefore already be present under IJCAI while an ECAI query
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shows a missing year. Adding ECAI as a global alias to the ordinary IJCAI venue
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would incorrectly include all other IJCAI years.
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The existing canonical `ECAI+IJCAI` venue has both member aliases. This maintenance
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command changes only the venue reference of the two existing `main` edition rows.
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Edition IDs, submission IDs, decisions, source text, authors, identifiers, tags,
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source links and coverage records stay intact. It does not merge or create papers
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or submissions, resolve per-paper tracks, or turn reviews into negative decisions.
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The DBLP collector applies the joint mapping only to these two exact main volume
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keys; original booktitle/title remain in source metadata with the membership evidence.
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The shared ingestion entry point also resolves these exact pinned source volumes before
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creating an edition, so refreshing an older normalized file cannot recreate a separate
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IJCAI edition. Other sources, years, workshop volumes and additional tracks retain their existing rules.
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## Review a read-only plan
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Use a runtime containing this repair command. The configured PostgreSQL writer lock
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is used only for the apply operation; do not replace a newer ingestion runtime with
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an older main-based feature branch.
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```sh
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PGSERVICEFILE=/etc/paper-atlas/pg_service.conf paper-atlas maintain joint-editions \
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--pg-service foundry-research --pg-schema research --out joint-plan.json
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```
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The preflight requires the existing joint venue and exactly its two member aliases,
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one nonempty unambiguous edition per year, and matching pinned DBLP volume evidence
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for every existing submission. A colliding target edition, missing provenance or
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unexpected source scope fails closed. The plan binds current database/schema, IDs,
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counts and full fingerprints of affected papers, identifiers, source records, tags,
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submissions, decisions and their provenance, and coverage rows. Observation time is
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recorded separately from conference year. These are scoped checks, not a final global
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identity or conference completeness audit.
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## Apply the exact reviewed plan
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Compute the file's SHA256 after review and pass it explicitly:
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```sh
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PGSERVICEFILE=/etc/paper-atlas/pg_service.conf paper-atlas maintain joint-editions \
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--pg-service foundry-research --pg-schema research --plan joint-plan.json \
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--plan-sha256 "$PLAN_SHA256" --out joint-applied.json
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```
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The plan hash is checked before opening a writer. Current evidence is checked again
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under the dataset writer lock; both edition updates and an audit marker commit in one
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transaction. Protected row hashes are checked again before commit. Changed evidence
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requires a fresh reviewed plan. Existing output reports are preserved; choose a new
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path for another run. SQLite samples use `--db sample.sqlite`; the frozen production
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backup remains protected.
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If a response is lost after commit, rerun with the same plan and a new output path.
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When protected evidence is unchanged and both editions already point to the joint
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venue, the result is `already_joint` with zero updates. It does not replay imports or
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regenerate source records. Keep the plan, apply report and independent postcheck
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alongside collection evidence. The audit marker is `joint_ijcai_ecai_2018_2022_v1`.
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Publication counts can differ between the DBLP volume and the current publisher
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page. This membership repair preserves all existing rows rather than deleting entries
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to force an aggregate match; section-level main/invited/other classification and
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publication completeness require separate per-paper evidence.
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@@ -25,6 +25,7 @@ COMMANDS = {
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('catalogue','dblp'): ('paper_atlas.collectors.dblp', {}, '盘点 DBLP 历史会议目录'),
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('import','arxiv'): ('paper_atlas.ingestion.arxiv', {}, '导入 arXiv 元数据 ZIP'),
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('import','records'): ('paper_atlas.ingestion.records', {}, '导入核验过的会议文件'),
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('maintain','joint-editions'): ('paper_atlas.ingestion.joint_editions', {}, '按已核验计划修正既有联合会议届次归属'),
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('maintain','merge'): ('paper_atlas.ingestion.maintenance', {}, '协调单写入合并与恢复'),
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('maintain','backfill'): ('paper_atlas.ingestion.backfill', {}, '回填既有投稿的来源身份'),
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('maintain','arxiv-tags'): ('paper_atlas.ingestion.arxiv_tags', {}, '恢复逐来源记录的 arXiv 类别证据'),
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@@ -88,10 +88,10 @@ def normalize_row(row,volumes,targets,include_workshops=False,through_year=2026)
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'scope_rule':edition['rule'],'author_names_raw':fields.get('author',[]),'publtype':row.get('publtype'),
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'bibliography':{key:value for key,value in fields.items() if key in ('booktitle','year','ee','url','pages','volume','number','publisher','series','isbn')},
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'ambiguous_identifiers':ambiguous,'publication_evidence':'inproceedings bibliography; not an original decision note'}
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if edition.get('joint_edition_evidence'):
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metadata['joint_edition_evidence'] = edition['joint_edition_evidence']
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if edition.get('track_scope_note'):
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metadata['track_scope_note']=edition['track_scope_note']
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if edition.get('track_scope_evidence_url'):
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metadata['track_scope_evidence_url']=edition['track_scope_evidence_url']
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flagged=bool(re.search(r'\b(?:withdrawn|retracted)\b',row.get('publtype') or '',re.I))
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result={'source':'dblp','external_id':row['key'],'url':'https://dblp.org/rec/'+row['key']+'.html',
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'title':title,'abstract':None,'authors':authors,'identifiers':own,
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@@ -38,39 +38,6 @@ BOOKS = {
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}
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# These are the historical primary series themselves, not co-located workshops.
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# Exact proceedings keys, original names, ordinals and event years must agree.
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HISTORICAL_WORKSHOP_TITLES = {
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**{('aistats', year): prefix + ordinal + ' International Workshop on Artificial Intelligence and Statistics'
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for year, ordinal, prefix in [
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(1995, 'Fifth', 'Learning from Data - '),
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(1997, 'Sixth', 'Proceedings of the '),
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(1999, 'Seventh', 'Proceedings of the '),
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(2001, 'Eighth', 'Proceedings of the '),
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(2003, 'Ninth', 'Proceedings of the '),
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(2005, 'Tenth', 'Proceedings of the ')]},
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**{('colt', year): 'Proceedings of the ' + ordinal + ' Annual Workshop on Computational Learning Theory'
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for year, ordinal in [(1988, 'First'), (1989, 'Second'), (1990, 'Third'), (1991, 'Fourth')]},
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}
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def historical_track(family, base, suffix, volume_key, year, title):
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if suffix or base.casefold() != family or volume_key != f'conf/{family}/{year}':
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return None
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prefix = HISTORICAL_WORKSHOP_TITLES.get((family, year))
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if (prefix and title.casefold().startswith(prefix.casefold() + ',')
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and re.search(r'\b' + str(year) + r'\b', title)):
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url = 'https://aistats.org/other.html' if family == 'aistats' else 'https://www.learningtheory.org/'
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return ('main', 'Historical primary series named Workshop; exact proceedings key, ordinal, title and event year verified.', url)
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if (family == 'colt' and year == 2003
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and title.startswith('Computational Learning Theory and Kernel Machines, 16th Annual Conference on Computational Learning Theory and 7th Kernel Workshop, COLT/Kernel 2003,')
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and title.endswith('Proceedings')):
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return ('proceedings_unspecified',
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'Combined COLT 2003 and Kernel Workshop volume; per-paper section absent from DBLP XML. Do not infer a main or workshop track.',
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'https://doi.org/10.1007/b12006')
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return None
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def scope(row,volume,through_year=2026):
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fields=row['fields'];books=fields.get('booktitle',[])
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if len(books)!=1:return None,'ambiguous_booktitle'
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@@ -108,9 +75,7 @@ def scope(row,volume,through_year=2026):
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if len(bibliographic)!=1 or not re.fullmatch(r'\d{4}',bibliographic[0]):return None,'ambiguous_bibliographic_year'
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if int(bibliographic[0])!=year and not re.search(r'\b'+str(year)+r'\b',title):return None,'unverified_year_difference'
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text=(suffix+' '+title).casefold();track='main'
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historical = historical_track(family, base, suffix, volume['key'], year, title)
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if historical:track=historical[0]
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elif 'findings' in text:track='findings'
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if 'findings' in text:track='findings'
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elif 'shared task' in text:track='shared_task'
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elif 'student research' in text or 'workshop' in text or 'wokshop' in text or base in ('ICCVW','EWSL'):track='workshop'
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elif ('demo track' in text and ('industrial track' in text or 'applied data science track' in text)):track='proceedings_unspecified'
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@@ -131,11 +96,15 @@ def scope(row,volume,through_year=2026):
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elif suffix.casefold() in ('poster','posters') and venue not in ('ICLR','ACL','EMNLP','NAACL','EACL','COLING','CoNLL'):track='poster'
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if venue=='AAAI+IAAI':track='proceedings_unspecified'
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if venue=='AAMAS' and year<2002:return None,'predecessor_not_aamas'
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joint_evidence = None
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if (family == 'ijcai' and base == 'IJCAI' and track == 'main'
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and year in (2018, 2022) and volume['key'] == 'conf/ijcai/' + str(year)):
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venue, aliases = 'ECAI+IJCAI', ['ECAI', 'IJCAI']
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joint_evidence = 'https://www.eurai.org/ecai/history'
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result = {'venue':venue,'venue_aliases':aliases,'year':year,'track':track,'bibliographic_year':int(bibliographic[0]),
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'rule':family+':'+base,'proceedings_title':title,'edition_year_basis':year_basis}
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if historical:
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result['track_scope_note'] = historical[1]
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result['track_scope_evidence_url'] = historical[2]
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if joint_evidence:
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result['joint_edition_evidence'] = joint_evidence
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if venue=='MM' and track=='main':
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# A main MM volume also includes doctoral, tutorials, companion papers
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# and other sections. DBLP XML omits the per-paper TOC section.
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@@ -144,6 +144,20 @@ class Store:
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def decision(self,paper,record,venue,year,track,external_id,url,status,raw_value,aliases=None,identities=None,observed_at=None,decision_date=None,source_decision_id='',submitted_at=None,guard_status=False):
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c = self.conn
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# An already collected file may still call these exact pinned volumes
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# IJCAI. Resolve membership before finding/creating an edition so a
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# later refresh cannot split the repaired joint event again.
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if venue == 'IJCAI' and year in (2018,2022) and track == 'main':
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from paper_atlas.collectors.dblp import XML_SHA
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evidence=c.execute('SELECT src.name,r.metadata_json FROM source_records r JOIN sources src ON src.id=r.source_id WHERE r.id=?',(record,)).fetchone()
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if evidence and evidence[0] == 'dblp':
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metadata=json.loads(evidence[1])
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if (metadata.get('snapshot_sha256') == XML_SHA
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and metadata.get('proceedings_key') == 'conf/ijcai/'+str(year)
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and metadata.get('bibliographic_year') == year
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and (metadata.get('bibliography') or {}).get('booktitle') in (['IJCAI'],['IJCAI/ECAI'])):
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venue='ECAI+IJCAI'
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aliases=sorted(set(aliases or []) | {'ECAI','IJCAI'})
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existing=c.execute('SELECT id FROM venues WHERE lower(acronym)=lower(?)',(venue,)).fetchone()
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if existing:venue_id=existing[0]
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else:venue_id=inserted_id(c,"INSERT INTO venues(acronym,name,field,venue_type) VALUES(?,?,?,'conference')",(venue,venue,'unclassified'))
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@@ -0,0 +1,204 @@
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"""Evidence-bound repair of two existing IJCAI/ECAI edition memberships."""
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import argparse
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from contextlib import closing
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import hashlib
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import json
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from pathlib import Path
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from paper_atlas.db.backend import database_arguments, open_read_connection, open_store
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from paper_atlas.db.submissions import timestamp
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from paper_atlas.collectors.dblp import XML_SHA
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YEARS = (2018, 2022)
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TARGET = 'ECAI+IJCAI'
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MEMBERS = {'ECAI', 'IJCAI'}
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EVIDENCE = 'https://www.eurai.org/ecai/history'
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MARKER = 'joint_ijcai_ecai_2018_2022_v1'
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def _digest(c, sql, params=()):
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sha = hashlib.sha256(); count = 0
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for row in c.execute(sql, params):
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sha.update((json.dumps([row[i] for i in range(len(row))], ensure_ascii=False,
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separators=(',', ':')) + '\n').encode())
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count += 1
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if count > 100000:
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raise ValueError('Joint repair evidence scope exceeded bounded row limit')
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return {'rows': count, 'sha256': sha.hexdigest()}
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def fingerprints(c, ids):
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marks = ','.join('?' for _ in ids)
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submissions = 'SELECT id FROM submissions WHERE edition_id IN (' + marks + ')'
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papers = 'SELECT paper_id FROM submissions WHERE edition_id IN (' + marks + ')'
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decisions = 'SELECT id FROM decisions WHERE submission_id IN (' + submissions + ')'
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checks = {
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'papers': ('id IN (' + papers + ')', 'id'),
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'identifiers': ('paper_id IN (' + papers + ')', 'scheme,value'),
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'source_records': ('paper_id IN (' + papers + ')', 'id'),
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'paper_tags': ('paper_id IN (' + papers + ')', 'paper_id,tag_id,evidence_key'),
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'submissions': ('edition_id IN (' + marks + ')', 'id'),
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'decisions': ('submission_id IN (' + submissions + ')', 'id'),
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'submission_sources': ('submission_id IN (' + submissions + ')', 'submission_id,source_record_id,source_submission_id'),
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'submission_identifiers': ('edition_id IN (' + marks + ')', 'edition_id,scheme,value'),
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'decision_sources': ('decision_id IN (' + decisions + ')', 'decision_id,source_record_id,source_decision_id'),
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'edition_sources': ('edition_id IN (' + marks + ')', 'edition_id,source_id,list_url'),
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}
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return {table: _digest(c, 'SELECT * FROM ' + table + ' WHERE ' + where + ' ORDER BY ' + order, ids)
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for table, (where, order) in checks.items()}
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def inspect(c):
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target = c.execute('SELECT id FROM venues WHERE acronym=?', (TARGET,)).fetchall()
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if len(target) != 1:
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raise ValueError('Exactly one existing canonical joint venue required')
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target = target[0][0]
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aliases = {r[0] for r in c.execute('SELECT alias FROM venue_aliases WHERE venue_id=?', (target,))}
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if aliases != MEMBERS:
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raise ValueError('Joint target must already have exactly ECAI and IJCAI aliases')
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editions = []
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for year in YEARS:
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rows = c.execute('''SELECT e.id,e.venue_id,v.acronym FROM editions e JOIN venues v ON v.id=e.venue_id
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WHERE v.acronym IN ('IJCAI','ECAI+IJCAI') AND e.year=? AND e.track='main' ''', (year,)).fetchall()
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if len(rows) != 1:
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raise ValueError('Expected one existing edition per year; missing or colliding editions require separate review')
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edition, venue, acronym = (rows[0][i] for i in range(3))
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count = c.execute('SELECT count(*) FROM submissions WHERE edition_id=?', (edition,)).fetchone()[0]
|
||||
if not 0 < count <= 5000:
|
||||
raise ValueError('Existing edition must have a nonempty bounded submission scope')
|
||||
# Every existing submission must be supported by its own pinned DBLP
|
||||
# volume record. No title/author matching, new attempts or text writes.
|
||||
evidence = c.execute('''SELECT s.id,r.external_id,r.metadata_json FROM submissions s
|
||||
JOIN submission_sources ss ON ss.submission_id=s.id
|
||||
JOIN source_records r ON r.id=ss.source_record_id JOIN sources src ON src.id=r.source_id
|
||||
WHERE s.edition_id=? AND src.name='dblp' ORDER BY s.id,r.id''', (edition,)).fetchall()
|
||||
seen = set()
|
||||
for row in evidence:
|
||||
sid, external, metadata = (row[i] for i in range(3))
|
||||
meta = json.loads(metadata)
|
||||
bibliography = meta.get('bibliography') or {}
|
||||
if (meta.get('snapshot_sha256') != XML_SHA
|
||||
or meta.get('proceedings_key') != 'conf/ijcai/' + str(year)
|
||||
or meta.get('bibliographic_year') != year
|
||||
or bibliography.get('booktitle') not in (['IJCAI'], ['IJCAI/ECAI'])
|
||||
or not external.startswith('conf/ijcai/')):
|
||||
raise ValueError('Source evidence outside the exact verified IJCAI/ECAI volume')
|
||||
seen.add(sid)
|
||||
if len(seen) != count:
|
||||
raise ValueError('Every submission must have matching original volume evidence')
|
||||
editions.append({'id': edition, 'year': year, 'track': 'main', 'from_venue_id': venue,
|
||||
'from_venue': acronym, 'target_venue_id': target, 'submissions': count,
|
||||
'evidence_url': EVIDENCE, 'proceedings_key': 'conf/ijcai/' + str(year)})
|
||||
ids = tuple(e['id'] for e in editions)
|
||||
return {'format_version': 1, 'kind': MARKER, 'checked_at': timestamp(), 'editions': editions,
|
||||
'content_fingerprints': fingerprints(c, ids), 'target_aliases': sorted(aliases),
|
||||
'status': 'already_joint' if all(e['from_venue_id'] == target for e in editions) else 'ready',
|
||||
'scope': 'Only these two existing edition venue references; no source text, paper, submission, decision, track, identifier or tag change.'}
|
||||
|
||||
|
||||
def validate_plan(expected):
|
||||
if not isinstance(expected, dict):
|
||||
raise ValueError('Repair plan must be a JSON object')
|
||||
if set(expected) != {'format_version','kind','checked_at','editions','content_fingerprints','target_aliases','status','scope','database'}:
|
||||
raise ValueError('Unexpected repair plan fields')
|
||||
if (type(expected['format_version']) is not int or expected['format_version'] != 1
|
||||
or expected['kind'] != MARKER or expected['status'] not in ('ready','already_joint')):
|
||||
raise ValueError('Unsupported repair plan')
|
||||
if (not isinstance(expected['database'],dict) or not isinstance(expected['content_fingerprints'],dict)
|
||||
or not isinstance(expected['editions'],list) or len(expected['editions']) != 2
|
||||
or expected['target_aliases'] != sorted(MEMBERS)):
|
||||
raise ValueError('Invalid repair plan structure')
|
||||
for edition, year in zip(expected['editions'], YEARS):
|
||||
if not isinstance(edition,dict) or edition.get('year') != year:
|
||||
raise ValueError('Repair plan must name the two exact ordered years')
|
||||
for key in ('id','year','from_venue_id','target_venue_id','submissions'):
|
||||
if type(edition.get(key)) is not int or edition[key] <= 0:
|
||||
raise ValueError('Repair plan IDs/counts must be positive integers')
|
||||
|
||||
|
||||
def apply_plan(c, expected):
|
||||
validate_plan(expected)
|
||||
actual = inspect(c)
|
||||
if actual['content_fingerprints'] != expected['content_fingerprints'] or actual['target_aliases'] != expected['target_aliases']:
|
||||
raise ValueError('Stale repair plan: protected content or aliases changed')
|
||||
if len(expected['editions']) != 2:
|
||||
raise ValueError('Exactly two editions required')
|
||||
for old, now in zip(expected['editions'], actual['editions']):
|
||||
if set(old) != set(now):
|
||||
raise ValueError('Unexpected edition fields')
|
||||
for key in ('id','year','track','target_venue_id','submissions','evidence_url','proceedings_key'):
|
||||
if old[key] != now[key]:
|
||||
raise ValueError('Stale repair plan: edition differs')
|
||||
if now['from_venue_id'] != old['from_venue_id'] and now['from_venue_id'] != now['target_venue_id']:
|
||||
raise ValueError('Edition membership differs from plan')
|
||||
if actual['status'] == 'already_joint':
|
||||
return {**actual, 'status':'already_joint', 'updated_editions':0}
|
||||
for edition in actual['editions']:
|
||||
if edition['from_venue_id'] == edition['target_venue_id']:
|
||||
continue
|
||||
changed = c.execute('''UPDATE editions SET venue_id=? WHERE id=? AND venue_id=? AND year=? AND track=?''',
|
||||
(edition['target_venue_id'],edition['id'],edition['from_venue_id'],edition['year'],edition['track']))
|
||||
if changed.rowcount != 1:
|
||||
raise ValueError('Concurrent edition change; entire repair must roll back')
|
||||
after = inspect(c)
|
||||
if after['status'] != 'already_joint' or after['content_fingerprints'] != actual['content_fingerprints']:
|
||||
raise ValueError('Postcheck changed protected content; entire repair must roll back')
|
||||
c.execute('INSERT INTO schema_migrations(name) VALUES(?) ON CONFLICT DO NOTHING', (MARKER,))
|
||||
return {**after, 'status':'applied', 'updated_editions':sum(e['from_venue_id'] != e['target_venue_id'] for e in actual['editions'])}
|
||||
|
||||
|
||||
def database_identity(c, db):
|
||||
if getattr(c, 'postgres', False):
|
||||
row = c.execute('SELECT current_database(),current_schema()').fetchone()
|
||||
return {'engine':'postgresql','database':row[0],'schema':row[1]}
|
||||
return {'engine':'sqlite','path':str(Path(db).resolve())}
|
||||
|
||||
|
||||
def run(db, out, *, pg_service=None, pg_schema=None, plan=None, plan_sha256=None):
|
||||
out = Path(out).resolve()
|
||||
if not out.parent.is_dir():
|
||||
raise ValueError('Report parent directory must already exist')
|
||||
if out.exists():
|
||||
raise ValueError('Preserve existing evidence report; choose a new output path')
|
||||
expected = None
|
||||
if plan:
|
||||
raw = Path(plan).read_bytes()
|
||||
if hashlib.sha256(raw).hexdigest() != plan_sha256:
|
||||
raise ValueError('Repair plan hash differs before opening database')
|
||||
expected = json.loads(raw)
|
||||
validate_plan(expected)
|
||||
elif plan_sha256:
|
||||
raise ValueError('Plan hash requires an existing plan')
|
||||
if db and out == Path(db).resolve():
|
||||
raise ValueError('Report must not overwrite database')
|
||||
writer = open_store(db, pg_service=pg_service, pg_schema=pg_schema) if expected is not None else None
|
||||
c = writer.conn if writer else open_read_connection(db, pg_service=pg_service, pg_schema=pg_schema)
|
||||
with closing(c):
|
||||
try:
|
||||
if expected is not None and not getattr(c, 'postgres', False):
|
||||
c.commit(); c.execute('BEGIN IMMEDIATE')
|
||||
identity = database_identity(c, db)
|
||||
if expected is not None and expected['database'] != identity:
|
||||
raise ValueError('Plan belongs to another database/schema')
|
||||
report = apply_plan(c, expected) if expected is not None else inspect(c)
|
||||
report['database'] = identity
|
||||
if expected is not None:
|
||||
report['plan_sha256'] = plan_sha256
|
||||
if expected is not None:
|
||||
c.commit()
|
||||
except BaseException:
|
||||
if expected is not None: c.rollback()
|
||||
raise
|
||||
out.write_text(json.dumps(report,ensure_ascii=False,indent=2)+'\n')
|
||||
print(json.dumps({'status':report['status'],'editions':len(report['editions']),
|
||||
'updated_editions':report.get('updated_editions',0),'report':str(out)}))
|
||||
return report
|
||||
|
||||
|
||||
def main(argv=None, *, prog=None):
|
||||
parser = argparse.ArgumentParser(prog=prog); database_arguments(parser)
|
||||
parser.add_argument('--out', required=True)
|
||||
parser.add_argument('--plan', help='Apply an already reviewed plan; omitted means read-only preflight')
|
||||
parser.add_argument('--plan-sha256', help='Required exact plan SHA256 when applying')
|
||||
args = parser.parse_args(argv)
|
||||
run(args.db,args.out,pg_service=args.pg_service,pg_schema=args.pg_schema,plan=args.plan,plan_sha256=args.plan_sha256)
|
||||
@@ -10,7 +10,7 @@ from unittest.mock import patch
|
||||
|
||||
from paper_atlas.collectors.dblp import XML_SHA
|
||||
from paper_atlas.collectors.dblp_records import collect,identifiers,normalize_row,material_reason
|
||||
from paper_atlas.collectors.dblp_scope import scope, HISTORICAL_WORKSHOP_TITLES
|
||||
from paper_atlas.collectors.dblp_scope import scope
|
||||
from paper_atlas.db.store import Store
|
||||
from paper_atlas.ingestion.records import ingest_file
|
||||
|
||||
@@ -70,69 +70,6 @@ class DblpRecordTests(unittest.TestCase):
|
||||
self.assertEqual(scope(self.row(),self.volume('kdd',2024))[1],'crossref_venue_conflict')
|
||||
self.assertEqual(scope(self.row(year=2027),self.volume('aaai',2027))[1],'future_edition')
|
||||
|
||||
def test_historical_primary_series_workshop_names_require_exact_editions(self):
|
||||
self.assertEqual(set(HISTORICAL_WORKSHOP_TITLES),
|
||||
{('aistats',year) for year in [1995,1997,1999,2001,2003,2005]} |
|
||||
{('colt',year) for year in [1988,1989,1990,1991]})
|
||||
for (family,year),prefix in HISTORICAL_WORKSHOP_TITLES.items():
|
||||
with self.subTest(family=family,year=year):
|
||||
title=prefix+f', {family.upper()} {year}, Proceedings.'
|
||||
volume=self.volume(family,year,title)
|
||||
row=self.row(family,family.upper(),year)
|
||||
if year==1995:
|
||||
row['fields']['year']=['1996'];volume['fields']['year']=['1996']
|
||||
edition,reason=scope(row,volume)
|
||||
self.assertIsNone(reason);self.assertEqual(edition['track'],'main')
|
||||
self.assertEqual(edition['year'],year)
|
||||
self.assertIn('Historical primary series',edition['track_scope_note'])
|
||||
record,reason=normalize_row(row,{volume['key']:volume},{family.upper()})
|
||||
self.assertIsNone(reason);self.assertEqual(record['metadata']['track_scope_evidence_url'],edition['track_scope_evidence_url'])
|
||||
self.assertEqual(record['metadata']['proceedings_title'],title)
|
||||
if year==1995:self.assertEqual(record['metadata']['bibliographic_year'],1996)
|
||||
|
||||
def test_historical_exception_does_not_promote_affiliated_or_wrong_scope_workshops(self):
|
||||
title=HISTORICAL_WORKSHOP_TITLES[('aistats',1995)]+', AISTATS 1995, Proceedings.'
|
||||
for book,key,changed in [
|
||||
('AISTATS','conf/aistats/1995w',title),
|
||||
('AISTATS (Workshops)','conf/aistats/1995',title),
|
||||
('AISTATS','conf/aistats/1995',title.replace('Fifth','Sixth')),
|
||||
('AISTATS','conf/aistats/1995',title.replace('1995','1997'))]:
|
||||
volume=self.volume('aistats',1995,changed);volume['key']=key
|
||||
row=self.row('aistats',book,1995);row['fields']['crossref']=[key]
|
||||
self.assertEqual(scope(row,volume)[0]['track'],'workshop')
|
||||
volume=self.volume('aistats',2010,'Active Learning and Experimental Design workshop, In conjunction with AISTATS 2010')
|
||||
volume['key']='conf/aistats/2010w'
|
||||
row=self.row('aistats','AISTATS',2011);row['fields']['crossref']=[volume['key']]
|
||||
self.assertEqual(scope(row,volume)[0]['track'],'workshop')
|
||||
|
||||
def test_combined_colt_kernel_volume_keeps_unknown_per_paper_track(self):
|
||||
title='Computational Learning Theory and Kernel Machines, 16th Annual Conference on Computational Learning Theory and 7th Kernel Workshop, COLT/Kernel 2003, Washington, DC, USA, August 24-27, 2003, Proceedings'
|
||||
volume=self.volume('colt',2003,title);row=self.row('colt','COLT',2003)
|
||||
record,reason=normalize_row(row,{volume['key']:volume},{'COLT'})
|
||||
self.assertIsNone(reason);self.assertEqual(record['track'],'proceedings_unspecified')
|
||||
self.assertEqual(record['status'],'accepted')
|
||||
self.assertIn('per-paper section absent',record['metadata']['track_scope_note'])
|
||||
self.assertEqual(record['metadata']['track_scope_evidence_url'],'https://doi.org/10.1007/b12006')
|
||||
volume['key']='conf/colt/2003w';row['fields']['crossref']=[volume['key']]
|
||||
self.assertEqual(scope(row,volume)[0]['track'],'workshop')
|
||||
|
||||
def test_historical_scope_provenance_survives_file_ingestion(self):
|
||||
title=HISTORICAL_WORKSHOP_TITLES[('colt',1988)]+', COLT 1988, Proceedings.'
|
||||
row=self.row('colt','COLT',1988);volume=self.volume('colt',1988,title)
|
||||
record,reason=normalize_row(row,{volume['key']:volume},{'COLT'})
|
||||
self.assertIsNone(reason)
|
||||
with tempfile.TemporaryDirectory() as tmp:
|
||||
root=Path(tmp);path=root/'history.jsonl'
|
||||
path.write_text(json.dumps(record)+'\n')
|
||||
path.with_suffix('.manifest.json').write_text(json.dumps({'source':'dblp','count':1,'list_url':'https://doi.org/10.4230/dblp.xml.2026-11-01','file_sha256':hashlib.sha256(path.read_bytes()).hexdigest()}))
|
||||
ingest_file(root/'sample.sqlite',path)
|
||||
with closing(sqlite3.connect(root/'sample.sqlite')) as connection:
|
||||
track=connection.execute('SELECT track FROM editions').fetchone()[0]
|
||||
metadata=json.loads(connection.execute('SELECT metadata_json FROM source_records').fetchone()[0])
|
||||
self.assertEqual(track,'main')
|
||||
self.assertEqual(metadata['track_scope_evidence_url'],'https://www.learningtheory.org/')
|
||||
self.assertEqual(metadata['proceedings_title'],title)
|
||||
|
||||
def test_only_own_identifier_links_are_used_and_ambiguity_is_preserved(self):
|
||||
own,ambiguous=identifiers({'ee':['https://doi.org/10.1234/published','https://doi.org/10.48550/arXiv.2401.00001','https://openreview.net/forum?id=realForum'],
|
||||
'cite':['https://doi.org/10.9999/reference']})
|
||||
|
||||
@@ -0,0 +1,187 @@
|
||||
from contextlib import closing, redirect_stdout
|
||||
import hashlib
|
||||
import io
|
||||
import json
|
||||
import os
|
||||
from pathlib import Path
|
||||
import tempfile
|
||||
import unittest
|
||||
from unittest.mock import patch
|
||||
import uuid
|
||||
|
||||
from paper_atlas.collectors.dblp import XML_SHA
|
||||
from paper_atlas.collectors.dblp_scope import scope
|
||||
from paper_atlas.collectors.dblp_records import normalize_row
|
||||
from paper_atlas.db.store import Store
|
||||
from paper_atlas.db.backend import open_store
|
||||
from paper_atlas.ingestion.joint_editions import (TARGET, MARKER, inspect, apply_plan, run)
|
||||
from paper_atlas.postgres.client import connect
|
||||
from paper_atlas.postgres.migration import migrate
|
||||
from paper_atlas.postgres.schema import quote
|
||||
from paper_atlas import querying
|
||||
|
||||
|
||||
def seed(store):
|
||||
c = store.conn
|
||||
c.execute("INSERT INTO venues(acronym,name,field,venue_type) VALUES(?,?,'reasoning','conference')", (TARGET,TARGET))
|
||||
target = c.execute('SELECT id FROM venues WHERE acronym=?',(TARGET,)).fetchone()[0]
|
||||
for alias in ['ECAI','IJCAI']:
|
||||
c.execute('INSERT INTO venue_aliases VALUES(?,?)',(target,alias))
|
||||
for year in [2018,2019,2022]:
|
||||
metadata = {'snapshot_sha256':XML_SHA,'proceedings_key':'conf/ijcai/'+str(year),
|
||||
'bibliographic_year':year,'bibliography':{'booktitle':['IJCAI']}}
|
||||
p,r=store.record('dblp','conf/ijcai/fixture'+str(year),'https://dblp.org/rec/fixture',
|
||||
'Original publication '+str(year),'Abstract\x00with\x01data',[],
|
||||
{'doi':'10.24963/ijcai.'+str(year)+'/1'}, {})
|
||||
store.record_tags(p,r,'dblp',[{'namespace':'dblp:booktitle','value':'IJCAI'}])
|
||||
store.decision(p,r,'IJCAI',year,'main','fixture'+str(year),'https://example.org/decision','accepted','listed')
|
||||
stored=json.loads(c.execute('SELECT metadata_json FROM source_records WHERE id=?',(r,)).fetchone()[0]);stored.update(metadata)
|
||||
c.execute('UPDATE source_records SET metadata_json=? WHERE id=?',(json.dumps(stored),r))
|
||||
c.commit()
|
||||
|
||||
|
||||
def plan(c):
|
||||
return {**inspect(c),'database':{'engine':'sqlite','path':'fixture'}}
|
||||
|
||||
|
||||
class JointEditionTests(unittest.TestCase):
|
||||
def setUp(self):
|
||||
self.tmp=tempfile.TemporaryDirectory(); self.addCleanup(self.tmp.cleanup)
|
||||
self.db=Path(self.tmp.name)/'sample.sqlite'
|
||||
self.store=Store(self.db); self.addCleanup(self.store.conn.close)
|
||||
seed(self.store); self.c=self.store.conn
|
||||
|
||||
def test_apply_preserves_every_protected_row_and_edition_id(self):
|
||||
before=plan(self.c); ids=[r['id']for r in before['editions']]
|
||||
result=apply_plan(self.c,before);self.c.commit()
|
||||
self.assertEqual(result['updated_editions'],2)
|
||||
self.assertEqual(result['content_fingerprints'],before['content_fingerprints'])
|
||||
self.assertEqual([r['id']for r in result['editions']],ids)
|
||||
untouched=self.c.execute('SELECT v.acronym FROM editions e JOIN venues v ON v.id=e.venue_id WHERE e.year=2019').fetchone()[0]
|
||||
self.assertEqual(untouched,'IJCAI')
|
||||
self.assertEqual(self.c.execute('PRAGMA foreign_key_check').fetchall(),[])
|
||||
self.assertEqual(self.c.execute('SELECT count(*) FROM schema_migrations WHERE name=?',(MARKER,)).fetchone()[0],1)
|
||||
with redirect_stdout(io.StringIO())as out:
|
||||
querying.main(['--db',str(self.db),'--venue','ECAI'])
|
||||
self.assertEqual(len(json.loads(out.getvalue())),2)
|
||||
self.assertEqual(apply_plan(self.c,before)['updated_editions'],0)
|
||||
|
||||
def test_refresh_of_old_normalized_source_does_not_recreate_ordinary_edition(self):
|
||||
before=plan(self.c);apply_plan(self.c,before)
|
||||
for year in [2018,2022]:
|
||||
row=self.c.execute('''SELECT r.paper_id,r.id,d.observed_at FROM source_records r
|
||||
JOIN submissions s ON s.source_record_id=r.id JOIN decisions d ON d.submission_id=s.id
|
||||
WHERE r.external_id=?''',('conf/ijcai/fixture'+str(year),)).fetchone()
|
||||
self.store.decision(row[0],row[1],'IJCAI',year,'main','fixture'+str(year),
|
||||
'https://example.org/decision','accepted','listed',observed_at=row[2])
|
||||
self.assertEqual(inspect(self.c)['content_fingerprints'],before['content_fingerprints'])
|
||||
self.assertEqual(self.c.execute('SELECT count(*) FROM editions').fetchone()[0],3)
|
||||
|
||||
def test_any_changed_source_text_rejects_stale_plan_before_membership_updates(self):
|
||||
before=plan(self.c)
|
||||
self.c.execute("UPDATE source_records SET title='New evidence' WHERE external_id='conf/ijcai/fixture2018'")
|
||||
with self.assertRaisesRegex(ValueError,'Stale repair plan'):
|
||||
apply_plan(self.c,before)
|
||||
self.assertEqual(inspect(self.c)['status'],'ready')
|
||||
|
||||
def test_conflicting_target_edition_is_never_merged_or_deleted(self):
|
||||
target=self.c.execute('SELECT id FROM venues WHERE acronym=?',(TARGET,)).fetchone()[0]
|
||||
self.c.execute("INSERT INTO editions(venue_id,year,track) VALUES(?,2018,'main')",(target,))
|
||||
with self.assertRaisesRegex(ValueError,'colliding'):
|
||||
inspect(self.c)
|
||||
self.assertEqual(self.c.execute('SELECT count(*) FROM editions WHERE year=2018').fetchone()[0],2)
|
||||
|
||||
def test_wrong_source_volume_and_snapshot_fail_closed(self):
|
||||
original=self.c.execute("SELECT metadata_json FROM source_records WHERE external_id='conf/ijcai/fixture2018'").fetchone()[0]
|
||||
for key,value in [('proceedings_key','conf/ijcai/2018w'),('snapshot_sha256','wrong'),('bibliographic_year',2017),('bibliography',{'booktitle':['Other']})]:
|
||||
m=json.loads(original);m[key]=value
|
||||
self.c.execute("UPDATE source_records SET metadata_json=? WHERE external_id='conf/ijcai/fixture2018'",(json.dumps(m),))
|
||||
with self.subTest(key=key),self.assertRaisesRegex(ValueError,'Source evidence'):
|
||||
inspect(self.c)
|
||||
|
||||
def test_missing_source_support_and_wrong_aliases_are_not_guessed(self):
|
||||
self.c.execute("DELETE FROM venue_aliases WHERE alias='ECAI'")
|
||||
with self.assertRaisesRegex(ValueError,'aliases'):
|
||||
inspect(self.c)
|
||||
self.c.rollback()
|
||||
self.c.execute('DELETE FROM submission_sources WHERE source_record_id=(SELECT id FROM source_records WHERE external_id=?)',('conf/ijcai/fixture2022',))
|
||||
with self.assertRaisesRegex(ValueError,'Every submission'):
|
||||
inspect(self.c)
|
||||
|
||||
def test_cli_plan_readonly_hash_binding_identity_and_repeat_apply(self):
|
||||
out=Path(self.tmp.name)/'plan.json'
|
||||
with redirect_stdout(io.StringIO()):run(self.db,out)
|
||||
self.assertEqual(inspect(self.c)['status'],'ready')
|
||||
raw=out.read_bytes();sha=hashlib.sha256(raw).hexdigest()
|
||||
with patch('paper_atlas.ingestion.joint_editions.open_store')as writer:
|
||||
with self.assertRaisesRegex(ValueError,'hash differs'):
|
||||
run(self.db,Path(self.tmp.name)/'bad.json',plan=out,plan_sha256='0'*64)
|
||||
writer.assert_not_called()
|
||||
with redirect_stdout(io.StringIO()):
|
||||
result=run(self.db,Path(self.tmp.name)/'applied.json',plan=out,plan_sha256=sha)
|
||||
again=run(self.db,Path(self.tmp.name)/'retry.json',plan=out,plan_sha256=sha)
|
||||
self.assertEqual(result['updated_editions'],2);self.assertEqual(again['updated_editions'],0)
|
||||
self.assertEqual(result['plan_sha256'],sha);self.assertEqual(again['plan_sha256'],sha)
|
||||
altered=json.loads(raw);altered['database']['path']='another.sqlite'
|
||||
bad=Path(self.tmp.name)/'wrong-db.json';bad.write_text(json.dumps(altered))
|
||||
with self.assertRaisesRegex(ValueError,'another database'):
|
||||
run(self.db,Path(self.tmp.name)/'wrong-result.json',plan=bad,plan_sha256=hashlib.sha256(bad.read_bytes()).hexdigest())
|
||||
|
||||
def test_invalid_empty_plan_fails_before_opening_writer(self):
|
||||
f=Path(self.tmp.name)/'empty.json';f.write_text('{}')
|
||||
with patch('paper_atlas.ingestion.joint_editions.open_store')as writer:
|
||||
with self.assertRaises(ValueError):
|
||||
run(self.db,Path(self.tmp.name)/'empty-result.json',plan=f,plan_sha256=hashlib.sha256(f.read_bytes()).hexdigest())
|
||||
writer.assert_not_called()
|
||||
|
||||
def test_collector_only_changes_the_two_exact_main_volume_keys(self):
|
||||
for year in [2018,2019,2022]:
|
||||
volume={'key':'conf/ijcai/'+str(year),'fields':{'title':['IJCAI '+str(year)],'year':[str(year)]}}
|
||||
row={'record_type':'inproceedings','key':'conf/ijcai/One'+str(year),'fields':{'booktitle':['IJCAI'],
|
||||
'year':[str(year)],'crossref':[volume['key']],'title':['Original research title'],
|
||||
'author':['Jane Doe'],'ee':['https://doi.org/10.24963/ijcai.'+str(year)+'/1']}}
|
||||
result,error=normalize_row(row,{volume['key']:volume},{'IJCAI','ECAI'})
|
||||
self.assertIsNone(error)
|
||||
self.assertEqual(result['venue'],TARGET if year in(2018,2022)else'IJCAI')
|
||||
self.assertEqual(result['metadata']['bibliography']['booktitle'],['IJCAI'])
|
||||
self.assertEqual(result['title'],'Original research title')
|
||||
if year in(2018,2022):
|
||||
self.assertIn('joint_edition_evidence',result['metadata'])
|
||||
row['fields']['booktitle']=['IJCAI (Workshop)']
|
||||
scoped,_=scope(row,volume)
|
||||
self.assertEqual(scoped['venue'],'IJCAI')
|
||||
self.assertEqual(scoped['track'],'workshop')
|
||||
|
||||
|
||||
@unittest.skipUnless(os.environ.get('PAPER_ATLAS_TEST_PG_SERVICE'),'Requires approved remote PostgreSQL service')
|
||||
class PostgreSQLJointTests(unittest.TestCase):
|
||||
def setUp(self):
|
||||
self.service=os.environ['PAPER_ATLAS_TEST_PG_SERVICE'];self.target='pa_joint_'+uuid.uuid4().hex[:12]
|
||||
self.tmp=tempfile.TemporaryDirectory();self.addCleanup(self.tmp.cleanup)
|
||||
self.db=Path(self.tmp.name)/'sample.sqlite';s=Store(self.db);seed(s);s.conn.close()
|
||||
self.addCleanup(self.cleanup)
|
||||
with redirect_stdout(io.StringIO()):migrate(self.db,self.service,Path(self.tmp.name)/'migration.json',schema=self.target,min_free_gib=0)
|
||||
|
||||
def cleanup(self):
|
||||
with connect(self.service)as c:
|
||||
for name, in c.execute('SELECT nspname FROM pg_namespace WHERE starts_with(nspname,%s)',(self.target,)).fetchall():
|
||||
c.execute('DROP SCHEMA '+quote(name)+' CASCADE')
|
||||
|
||||
def test_native_repair_is_idempotent_keeps_codec_and_provenance(self):
|
||||
p=Path(self.tmp.name)/'plan.json'
|
||||
with redirect_stdout(io.StringIO()):
|
||||
before=run(None,p,pg_service=self.service,pg_schema=self.target)
|
||||
after=run(None,Path(self.tmp.name)/'applied.json',pg_service=self.service,pg_schema=self.target,plan=p,plan_sha256=hashlib.sha256(p.read_bytes()).hexdigest())
|
||||
self.assertEqual(after['content_fingerprints'],before['content_fingerprints'])
|
||||
with closing(open_store(pg_service=self.service,pg_schema=self.target).conn)as c:
|
||||
self.assertEqual(apply_plan(c,before)['updated_editions'],0)
|
||||
self.assertEqual(c.execute('SELECT abstract FROM papers ORDER BY id LIMIT 1').fetchone()[0],'Abstract\x00with\x01data')
|
||||
|
||||
def test_native_stale_source_plan_preserves_both_original_memberships(self):
|
||||
with closing(open_store(pg_service=self.service,pg_schema=self.target).conn)as c:
|
||||
before=plan(c)
|
||||
c.execute("UPDATE source_records SET title='Changed' WHERE external_id=?",('conf/ijcai/fixture2022',));c.commit()
|
||||
with self.assertRaisesRegex(ValueError,'Stale repair plan'):
|
||||
apply_plan(c,before)
|
||||
c.rollback()
|
||||
self.assertEqual(inspect(c)['status'],'ready')
|
||||
Reference in New Issue
Block a user