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* refactor importer metadata tables into separate file; move some helpers aroundBryan Newbold2021-11-108-621/+25
| | | | | | | - MAX_ABSTRACT_LENGTH set in a single place (importer common) - merge datacite license slug table in to common table, removing some TDM-specific licenses (which do not apply in the context of preserving the full work)
* importers: refactor imports of clean() and other normalization helpersBryan Newbold2021-11-1012-95/+104
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* remove cdl_dash_dat and wayback_static importersBryan Newbold2021-11-103-510/+0
| | | | | | | | Cleaning out dead code. These importers were used to create demonstration fileset and webcapture entities early in development. They have been replaced by the fileset and webcapture ingest importers.
* datacite import: store less subject metadataBryan Newbold2021-11-101-1/+7
| | | | | | | | Many of these 'subject' objects have the equivalent of several lines of text, with complex URLs that don't compress well. I think it is fine we have included these thus far instead of parsing more deeply, but going forward I don't think this nested 'extra' metadata is worth the database space.
* importers: use clean_doi() in many more (all?) importersBryan Newbold2021-11-096-12/+29
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* remove deprecated extid sqlite3 lookup table feature from importersBryan Newbold2021-11-093-160/+0
| | | | | | | | This was used during initial bulk imports, but is no longer used and could create serious metadata problems if used accidentially. In retrospect, it also made metadata provenance less transparent, and may have done more harm than good overall.
* datacite importer: remove unused 'year_only' variableBryan Newbold2021-11-031-2/+3
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* datacite: add comment about potential date parsing bugBryan Newbold2021-11-031-0/+1
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* datacite importer: dateparser.date.DateDataParser()Bryan Newbold2021-11-031-1/+1
| | | | Perhaps this was a change when upgrading 'dateparser'?
* more involved type wrangling and fixes for importersBryan Newbold2021-11-033-12/+14
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* typing: relatively simple type check fixesBryan Newbold2021-11-0314-87/+82
| | | | | | | These mostly add new variable names so that existing variables aren't overwritten with a new type; delay coercing '{}' or '[]' to 'None' until the last minute; adding is-not-None checks to conditional clauses; and similar small changes.
* typing: initial annotations on importersBryan Newbold2021-11-0322-274/+443
| | | | | This commit just adds the type annotations, doesn't do fixes to code to make type checking pass.
* importers: remove unused __main__ routineBryan Newbold2021-11-034-19/+0
| | | | | | These perhaps were used in initial develoment or testing? fatcat_import.py is the correct way to do these imports, even for testing/development.
* lint: resolve existing mypy type errorsBryan Newbold2021-11-023-22/+27
| | | | | | | | | Adds annotations and re-workes dataflow to satisfy existing mypy issues, without adding any additional type annotations to, eg, function signatures. There will probably be many more type errors when annotations are all added.
* re-fix some lint issues after big 'fmt'Bryan Newbold2021-11-021-2/+2
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* fmt (black): fatcat_tools/Bryan Newbold2021-11-0222-2115/+2578
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* python: isort everythingBryan Newbold2021-11-0217-41/+70
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* arabesque import 'hit' field is 1/0, not true/falseBryan Newbold2021-11-021-2/+2
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* lint: simple, safe inline lint fixesBryan Newbold2021-11-0212-22/+21
| | | | '==' vs 'is'; 'not a in b' vs 'a not in b'; etc
* lint/fmt: remove all 'import *'Bryan Newbold2021-11-025-21/+41
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* re-fmt all the fatcat_tools __init__ files for readabilityBryan Newbold2021-11-021-17/+39
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* small python tweaks for annotations, importsBryan Newbold2021-11-022-2/+6
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* try some type annotationsBryan Newbold2021-11-022-55/+63
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* fix missing variable in fileset ingestBryan Newbold2021-11-021-2/+1
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* WIP: more fileset ingestBryan Newbold2021-10-181-13/+21
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* WIP: rel fixesBryan Newbold2021-10-141-6/+6
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* fileset ingest small tweaksBryan Newbold2021-10-141-21/+36
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* initial implementation of fileset ingest importersBryan Newbold2021-10-142-3/+224
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* generic fileset importer class, with test coverageBryan Newbold2021-10-143-0/+88
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* dblp import: basic support for handles as identifiersBryan Newbold2021-10-131-1/+5
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* dblp import: fix typos in identifier parsingBryan Newbold2021-10-131-2/+1
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* python: partial importer utilization of new schema changesBryan Newbold2021-10-133-6/+18
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* Merge branch 'bnewbold-ingest-tweaks' into 'master'bnewbold2021-10-023-39/+106
|\ | | | | | | | | ingest importer behavior tweaks See merge request webgroup/fatcat!120
| * kafka import: optional 'force-flush' mode for some importersBryan Newbold2021-10-011-0/+13
| | | | | | | | Behavior and motivation described in the kafka json import comment.
| * new SPN web (html) importerBryan Newbold2021-10-012-27/+81
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| * ingest importer behavior tweaksBryan Newbold2021-10-011-8/+8
| | | | | | | | | | - change order of 'want()' checks, so that result counts are clearer - don't require GROBID success for file imports with SPN
| * importer common: more verbose logging (with counts)Bryan Newbold2021-10-011-4/+4
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* | datacite: skip empty abstractsMartin Czygan2021-10-011-1/+4
|/ | | | | Do not add abstracts where `clean` results in the empty string - this violates a constraint: `either abstract_sha1 or content is required`
* more consistent and defensive lower-casing of DOIsBryan Newbold2021-06-232-1/+6
| | | | | | | After noticing more upper/lower ambiguity in production. In particular, we have some old ingest requests in sandcrawler DB, which get re-submitted/re-tried, which have capitalized DOIs in the link source id field.
* datacite: more careful title string access; fixes sentry #88350Martin Czygan2021-06-111-1/+1
| | | | | Caused by a partial "title entry without title" coming *first* (e.g. just holding, e.g. a language, like: {'lang': 'da'}
* ingest: swap ingest and file checks, to result in clearer stats/counts of ↵Bryan Newbold2021-06-031-2/+2
| | | | skipping
* ingest: don't accept mag and s2 URLsBryan Newbold2021-06-031-4/+4
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* small python lint fixes (no behavior change)Bryan Newbold2021-05-251-2/+0
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* arabesque importer: ensure full 14-digit timestampsBryan Newbold2021-05-211-1/+3
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* datacite: a missing surname should be None, not the empty stringMartin Czygan2021-04-021-2/+1
| | | | refs sentry #77700
* web ingest: terminal URL mismatch as skip, not assertBryan Newbold2020-12-301-1/+3
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* dblp release import: skip arxiv_id releasesBryan Newbold2020-12-241-0/+9
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* dblp import: fix arxiv_id typoBryan Newbold2020-12-231-1/+1
| | | | Would have been caught by mypy!
* ingest: allow dblp importsBryan Newbold2020-12-231-1/+1
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* fuzzy: set 120 second timeout on ES lookupsBryan Newbold2020-12-231-1/+1
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