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* pdfextract: fix pdf_extra key namesBryan Newbold2020-06-251-2/+2
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* ensure pdf_meta isn't passed an empty dict()Bryan Newbold2020-06-251-1/+4
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* args.kafka_env refactor didn't happen (yet)Bryan Newbold2020-06-251-2/+2
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* s3-only mode persist workers use different consumer groupBryan Newbold2020-06-251-2/+8
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* changes from prodBryan Newbold2020-06-252-4/+18
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* sandcrawler_worker: remove duplicate run_pdf_extract()Bryan Newbold2020-06-251-29/+0
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* pdfextract workerBryan Newbold2020-06-251-1/+34
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* pdfextract: don't compress thumbnail outputBryan Newbold2020-06-251-1/+1
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* pipenv: python-poppler 0.2.1Bryan Newbold2020-06-252-49/+51
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* fixes and tweaks from testing locallyBryan Newbold2020-06-176-18/+134
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* fixes to pdfextract_toolBryan Newbold2020-06-171-12/+8
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* tweak kafka topic names and seaweedfs layoutBryan Newbold2020-06-172-10/+12
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* make process_pdf() more robust to parse errorsBryan Newbold2020-06-171-5/+29
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* note about text layout with pdf extractionBryan Newbold2020-06-171-0/+8
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* lint fixesBryan Newbold2020-06-174-7/+9
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* rename pdf tools to pdfextractBryan Newbold2020-06-173-0/+0
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* coverage-html makefile targetBryan Newbold2020-06-171-0/+3
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* ignore PIL deprecation warningsBryan Newbold2020-06-171-0/+1
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* partial test coverage of pdf extract workerBryan Newbold2020-06-172-6/+70
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* fix coverage commandBryan Newbold2020-06-172-2/+4
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* update grobid2json with type annotationsBryan Newbold2020-06-171-94/+110
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* remove unused common.pyBryan Newbold2020-06-172-139/+0
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* better DeprecationWarning filtersBryan Newbold2020-06-171-3/+4
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* update Makefile from fatcat-scholar tweaks/commandsBryan Newbold2020-06-171-3/+21
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* WIP on pdf_tool.pyBryan Newbold2020-06-171-0/+137
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* add new pdf workers/persistersBryan Newbold2020-06-174-2/+214
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* pdf: mypy and typo fixesBryan Newbold2020-06-172-15/+22
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* workers: refactor to pass key to process()Bryan Newbold2020-06-176-20/+28
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* pipenv: correct poppler; update lockfileBryan Newbold2020-06-162-76/+255
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* pipenv: flake8, pytype, blackBryan Newbold2020-06-161-0/+7
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* pipenv: pillow and poppler (for PDF extraction)Bryan Newbold2020-06-161-0/+2
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* initial work on PDF extraction workerBryan Newbold2020-06-162-1/+158
| | | | | This worker fetches full PDFs, then extracts thumbnails, raw text, and PDF metadata. Similar to GROBID worker.
* pdf_thumbnail script: demonstrate PDF thumbnail generationBryan Newbold2020-06-161-0/+35
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* refactor worker fetch code into wrapper classBryan Newbold2020-06-163-141/+111
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* rename KafkaGrobidSink -> KafkaCompressSinkBryan Newbold2020-06-163-3/+3
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* remove deprecated kafka_grobid.py workerBryan Newbold2020-05-261-331/+0
| | | | | | All use of pykafka was refactored to use the confluent library some time ago. And all kafka workers have been using the newer sandcrawler style worker for some time.
* pipenv: remove old python3.5 cruft; add mypyBryan Newbold2020-05-262-185/+196
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* start a python MakefileBryan Newbold2020-05-191-0/+15
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* handle UnboundLocalError in HTML parsingBryan Newbold2020-05-191-1/+4
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* first iteration of oai2ingestrequest scriptBryan Newbold2020-05-051-0/+137
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* hotfix for html meta extract codepathBryan Newbold2020-05-031-1/+1
| | | | Didn't test last commit before pushing; bad Bryan!
* ingest: handle partial citation_pdf_url tagBryan Newbold2020-05-031-0/+3
| | | | | | | | Eg: https://www.cureus.com/articles/29935-a-nomogram-for-the-rapid-prediction-of-hematocrit-following-blood-loss-and-fluid-shifts-in-neonates-infants-and-adults Has: <meta name="citation_pdf_url"/>
* workers: add missing want() dataflow pathBryan Newbold2020-04-301-0/+9
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* ingest: don't 'want' non-PDF ingestBryan Newbold2020-04-301-0/+5
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* timeouts: don't push through None error messagesBryan Newbold2020-04-291-2/+2
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* timeout message implementation for GROBID and ingest workersBryan Newbold2020-04-272-0/+18
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* worker timeout wrapper, and use for kafkaBryan Newbold2020-04-271-2/+40
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* fix KeyError in HTML PDF URL extractionBryan Newbold2020-04-171-1/+1
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* persist: only GROBID updates file_meta, not file-resultBryan Newbold2020-04-161-1/+1
| | | | | | | | | The hope here is to reduce deadlocks in production (on aitio). As context, we are only doing "updates" until the entire file_meta table is filled in with full metadata anyways; updates are wasteful of resources, and most inserts we have seen the file before, so should be doing "DO NOTHING" if the SHA1 is already in the table.
* batch/multiprocess for ZipfilePusherBryan Newbold2020-04-162-5/+26
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