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* improve DB helpersBryan Newbold2020-01-021-26/+81
| | | | | - return insert/update row counts - implement ON CONFLICT ... DO UPDATE on some tables
* be more parsimonious with GROBID metadataBryan Newbold2020-01-022-3/+20
| | | | | Because these are getting persisted in database (as well as kafka), don't write out empty keys.
* start work on DB connector and minio clientBryan Newbold2020-01-022-0/+200
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* have JsonLinePusher continue on JSON decode errors (but count)Bryan Newbold2020-01-021-1/+5
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* start work on persist workers and toolBryan Newbold2020-01-023-5/+336
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* update TODOBryan Newbold2019-12-261-1/+7
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* basic arabesque2ingestrequest scriptBryan Newbold2019-12-241-0/+69
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* commit grobid_tool transform modeBryan Newbold2019-12-221-0/+27
| | | | Had some stale code on aitio with this change I forgot to commit. Oops!
* refactor: use print(..., file=sys.stderr)Bryan Newbold2019-12-185-32/+34
| | | | Should use logging soon, but this seems more idiomatic in the meanwhile.
* refactor: sort keys in JSON outputBryan Newbold2019-12-184-6/+7
| | | | This makes debugging by tailing Kafka topics a lot more readable
* refactor: improve argparse usageBryan Newbold2019-12-185-13/+27
| | | | | use ArgumentDefaultsHelpFormatter and add help messages to all sub-commands
* update ingest proposal source/link namingBryan Newbold2019-12-131-1/+1
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* fixes for large GROBID result skipBryan Newbold2019-12-021-2/+2
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* count empty blobs as 'failed' instead of crashingBryan Newbold2019-12-011-1/+2
| | | | Might be better to record an artificial kafka response instead?
* cleanup unused importBryan Newbold2019-12-011-1/+0
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* filter out very large GROBID XML bodiesBryan Newbold2019-12-011-0/+6
| | | | | | | | | | This is to prevent Kafka MSG_SIZE_TOO_LARGE publish errors. We should probably bump this in the future. Open problems: hand-coding this size number isn't good, need to update in two places. Shouldn't filter out for non-Kafka sinks. Might still exist a corner-case where JSON encoded XML is larger than XML character string, due to encoding (eg, for unicode characters).
* CI: make some jobs manualBryan Newbold2019-11-151-0/+2
| | | | | Scalding test is broken :( But we aren't even using that code much these days.
* handle wayback fetch redirect loop in ingest codeBryan Newbold2019-11-141-2/+5
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* bump kafka max poll interval for consumersBryan Newbold2019-11-141-2/+2
| | | | | The ingest worker keeps timing out at just over 5 minutes, so bump it just a bit.
* handle WaybackError during ingestBryan Newbold2019-11-141-0/+4
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* handle SPNv1 redirect loopBryan Newbold2019-11-141-0/+2
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* handle SPNv2 polling timeoutBryan Newbold2019-11-141-6/+10
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* update ingest-file batch size to 1Bryan Newbold2019-11-142-4/+4
| | | | | | | | Was defaulting to 100, which I think was resulting in lots of consumer group timeouts, resulting in UNKNOWN_MEMBER_ID errors. Will probably switch back to batches of 10 or so, but multi-processing or some other concurrent dispatch/processing.
* start of hrmars.com ingest supportBryan Newbold2019-11-142-2/+7
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* treat failure to get terminal capture as a SavePageNowErrorBryan Newbold2019-11-131-1/+1
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* citation_pdf_url with host-relative URLsBryan Newbold2019-11-131-1/+3
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* status_forcelist is on session, not requestBryan Newbold2019-11-131-2/+2
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* handle SPNv1 remote server HTTP status codes betterBryan Newbold2019-11-131-8/+15
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* grobid2json: make lang detection flexibleBryan Newbold2019-11-131-1/+2
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* handle requests (http) redirect loop from waybackBryan Newbold2019-11-131-1/+4
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* handle wayback client return status correctlyBryan Newbold2019-11-131-2/+2
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* allow way more errors in SPN pathBryan Newbold2019-11-131-2/+11
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* clean up redirect-following CDX API pathBryan Newbold2019-11-131-8/+15
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* fix lint errorsBryan Newbold2019-11-132-6/+11
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* improve ingest worker remote failure behaviorBryan Newbold2019-11-131-5/+12
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* have SPN client differentiate between SPN and remote errorsBryan Newbold2019-11-132-3/+11
| | | | | | | | This is only a partial implementation. The requests client will still make way too many SPN requests trying to figure out if this is a real error or not (eg, if remote was a 502, we'll retry many times). We may just want to switch to SPNv2 for everything.
* correct ingest-file consumer groupBryan Newbold2019-11-131-1/+1
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* add basic sandcrawler worker (kafka)Bryan Newbold2019-11-131-0/+74
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* note that kafka_grobid.py is deprecatedBryan Newbold2019-11-131-0/+3
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* rename FileIngestWorkerBryan Newbold2019-11-133-10/+16
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* refactor consume_topic name out of make_kafka_consumer()Bryan Newbold2019-11-131-5/+5
| | | | Best to do this in wrapping code for full flexibility.
* more progress on file ingestBryan Newbold2019-11-134-17/+75
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* much progress on file ingest pathBryan Newbold2019-10-226-335/+338
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* remove spurious debug print from grobid2jsonBryan Newbold2019-10-221-1/+1
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* we do actually want consolidateHeader=2, not 1Bryan Newbold2019-10-042-4/+4
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* remove any trailing newlineBryan Newbold2019-10-041-2/+2
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* grobid: consolidateHeaders typoBryan Newbold2019-10-041-1/+1
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* grobid_tool: don't wrap multiprocess if we don't need toBryan Newbold2019-10-041-2/+4
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* disable citation consolidation by defaultBryan Newbold2019-10-041-1/+1
| | | | | | | with this consolidation enabled, the glutton_fatcat elasticsearch server was totally pegged over 90% CPU with only 10 PDF worker threads; the glutton load seemed to be the bottleneck even for this low degree of parallelism. Disabled for now, will debug with GROBID/glutton folks.
* grobid-output-pg, not grobid-output-jsonBryan Newbold2019-10-041-4/+2
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