Commit message (Collapse) | Author | Age | Files | Lines | ||
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* | | update front-page stats | Bryan Newbold | 2020-03-17 | 1 | -3/+3 | |
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* | | Merge branch 'martin-kafka-bs4-import' into 'master' | Martin Czygan | 2020-03-10 | 10 | -43/+428 | |
|\ \ | | | | | | | | | | | | | pubmed and arxiv harvest preparations See merge request webgroup/fatcat!28 | |||||
| * | | common: use smaller batch size since XML parsing may be slow | Martin Czygan | 2020-03-10 | 1 | -1/+1 | |
| | | | | | | | | | | | | | | | | | | | | | | | | Address kafka tradeoff between long and short time-outs. Shorter time-outs would facilitate > consumer group re-balances and other consumer group state changes [...] in a reasonable human time-frame. | |||||
| * | | pubmed: log to stderr | Martin Czygan | 2020-03-10 | 1 | -1/+1 | |
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| * | | pubmed: move mapping generation out of fetch_date | Martin Czygan | 2020-03-10 | 2 | -7/+10 | |
| | | | | | | | | | | | | | | | * fetch_date will fail on missing mapping * adjust tests (test will require access to pubmed ftp) | |||||
| * | | harvest: fix imports from HarvestPubmedWorker cleanup | Martin Czygan | 2020-03-10 | 2 | -4/+4 | |
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| * | | pubmed: citations is a bit more precise | Martin Czygan | 2020-03-09 | 1 | -1/+1 | |
| | | | | | | | | | | | | | | | > Each day, NLM produces update files that include new, revised and deleted citations. -- ftp://ftp.ncbi.nlm.nih.gov/pubmed/updatefiles/README.txt | |||||
| * | | pubmed: we sync from FTP | Martin Czygan | 2020-03-09 | 1 | -1/+1 | |
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| * | | oaipmh: HarvestPubmedWorker obsoleted by PubmedFTPWorker | Martin Czygan | 2020-03-09 | 1 | -34/+0 | |
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| * | | fatcat_import: address potential hanging, if stdin is empty | Martin Czygan | 2020-03-09 | 1 | -0/+2 | |
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| * | | more pubmed adjustments | Martin Czygan | 2020-02-22 | 6 | -71/+197 | |
| | | | | | | | | | | | | | | | * regenerate map in continuous mode * add tests | |||||
| * | | pubmed ftp: fix url | Martin Czygan | 2020-02-19 | 1 | -4/+6 | |
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| * | | pubmed ftp harvest and KafkaBs4XmlPusher | Martin Czygan | 2020-02-19 | 6 | -21/+307 | |
| | | | | | | | | | | | | | | | | | | | | | * add PubmedFTPWorker * utils are currently stored alongside pubmed (e.g. ftpretr, xmlstream) but may live elsewhere, as they are more generic * add KafkaBs4XmlPusher | |||||
* | | | add --force-crawl flag to ingest tool | Bryan Newbold | 2020-03-02 | 1 | -0/+5 | |
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* | | pipenv: lock authlib to less than v0.13; rebuild lock file | Bryan Newbold | 2020-02-28 | 2 | -112/+109 | |
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* | | Merge branch 'bnewbold-elastic-v03b' | Bryan Newbold | 2020-02-26 | 10 | -190/+465 | |
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| * | | improve is_oa flag accuracy | Bryan Newbold | 2020-02-26 | 1 | -8/+4 | |
| | | | | | | | | | | | | | | | | | | Particularly, the ezb=green match seems mostly incorrect. Note that pmcid being assigned could still be in an embargo window? | |||||
| * | | fix fatcat_transform state filters | Bryan Newbold | 2020-02-26 | 1 | -4/+4 | |
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| * | | bulk ES transform: skip non-active entities | Bryan Newbold | 2020-02-26 | 1 | -0/+8 | |
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| * | | ES container last tweaks | Bryan Newbold | 2020-02-26 | 1 | -0/+3 | |
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| * | | ES release: last minor tweaks | Bryan Newbold | 2020-02-26 | 1 | -2/+2 | |
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| * | | ES updates: fix tests to accept archive.org in host/domain | Bryan Newbold | 2020-02-14 | 1 | -2/+3 | |
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| * | | ES files: don't remove archive.org domains/hosts | Bryan Newbold | 2020-02-07 | 1 | -5/+0 | |
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| * | | ES releases: host/domain fixes | Bryan Newbold | 2020-01-31 | 2 | -2/+5 | |
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| * | | pipenv: lock zipp version to work around python3.6 requirement | Bryan Newbold | 2020-01-30 | 2 | -7/+20 | |
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| * | | fix release es transform missing 'issue' | Bryan Newbold | 2020-01-30 | 1 | -0/+1 | |
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| * | | add upper-case work-around from kibana map join | Bryan Newbold | 2020-01-30 | 1 | -0/+1 | |
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| * | | tweak file ES archive.org domain tracking | Bryan Newbold | 2020-01-30 | 1 | -0/+6 | |
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| * | | implement host+domain parsing for file ES transform | Bryan Newbold | 2020-01-30 | 2 | -13/+8 | |
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| * | | pipenv: add tldextract (url parser) and update deps | Bryan Newbold | 2020-01-30 | 2 | -136/+159 | |
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| * | | fix ES file schema plural field names | Bryan Newbold | 2020-01-29 | 2 | -5/+4 | |
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| * | | new biblio-only general search | Bryan Newbold | 2020-01-29 | 1 | -2/+2 | |
| | | | | | | | | | | | | The other fields are now "copy_to" the merged biblio field. | |||||
| * | | elastic schema fixes | Bryan Newbold | 2020-01-29 | 1 | -0/+5 | |
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| * | | add country to v03b release schema | Bryan Newbold | 2020-01-29 | 1 | -0/+2 | |
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| * | | actually implement changelog transform | Bryan Newbold | 2020-01-29 | 2 | -18/+68 | |
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| * | | fix some transform bugs, add some tests | Bryan Newbold | 2020-01-29 | 6 | -13/+48 | |
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| * | | ES release schema updates | Bryan Newbold | 2020-01-29 | 1 | -5/+76 | |
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| * | | container ES schema changes | Bryan Newbold | 2020-01-29 | 1 | -16/+18 | |
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| * | | first implementation of ES file schema | Bryan Newbold | 2020-01-29 | 3 | -3/+69 | |
| | | | | | | | | | | | | | | | Includes a trivial test and transform, but not any workers or doc updates. | |||||
* | | | Merge branch 'bnewbold-more-ingest' into 'master' | bnewbold | 2020-02-25 | 1 | -1/+37 | |
|\ \ \ | | | | | | | | | | | | | | | | | entity worker: ingest more Datacite releases; filter some out See merge request webgroup/fatcat!29 | |||||
| * | | | entity worker: ingest more releases | Bryan Newbold | 2020-02-22 | 1 | -1/+37 | |
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | If release is a dataset or image, don't do a pdf ingest request. If release is a datacite DOI, and release_type is a "document", crawl regardless of is_oa detection. This is mostly to crawl repositories (institutional or subject). | |||||
* | | | | add some more domain/rel URL mappings | Bryan Newbold | 2020-02-22 | 1 | -0/+9 | |
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* | | | Merge branch 'bnewbold-shadow-import' | Bryan Newbold | 2020-02-19 | 7 | -2/+289 | |
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| * | | | remove arabesque short wayback URL hack | Bryan Newbold | 2020-02-14 | 1 | -6/+0 | |
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| * | | | clarify shadow filter code | Bryan Newbold | 2020-02-13 | 1 | -1/+1 | |
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| * | | | filter out shadows-only files in webface | Bryan Newbold | 2020-02-13 | 2 | -2/+7 | |
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| * | | | improve shadow import file url cleanup path | Bryan Newbold | 2020-02-13 | 1 | -2/+12 | |
| | | | | | | | | | | | | | | | | Should probably be refactored out in to shared cleanup code. | |||||
| * | | | shadow import fixes from QA testing | Bryan Newbold | 2020-02-13 | 2 | -1/+7 | |
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| * | | | shadow import: more filtering of file_meta fields | Bryan Newbold | 2020-02-13 | 3 | -18/+28 | |
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| * | | | basic shadow importer | Bryan Newbold | 2020-02-13 | 5 | -0/+262 | |
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