| Commit message (Collapse) | Author | Age | Files | Lines | |
|---|---|---|---|---|---|
| * | codespell fixes in python code (comments) | Bryan Newbold | 2021-11-24 | 1 | -2/+2 |
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| * | Merge branch 'bnewbold-import-refactors' into 'master' | bnewbold | 2021-11-11 | 1 | -65/+4 |
| |\ | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | import refactors and deprecations Some of these are from old stale branches (the datacite subject metadata patch), but most are from yesterday and today. Sort of a hodge-podge, but the general theme is getting around to deferred cleanups and refactors specific to importer code before making some behavioral changes. The Datacite-specific stuff could use review here. Remove unused/deprecated/dead code: - cdl_dash_dat and wayback_static importers, which were for specific early example entities and have been superseded by other importers - "extid map" sqlite3 feature from several importers, was only used for initial bulk imports (and maybe should not have been used) Refactors: - moved a number of large datastructures out of importer code and into a dedicated static file (`biblio_lookup_tables.py`). Didn't move all, just the ones that were either generic or very large (making it hard to read code) - shuffled around relative imports and some function names ("clean_str" vs. "clean") Some actual behavioral changes: - remove some Datacite-specific license slugs - stop trying to fix double-slashes in DOIs, that was causing more harm than help (some DOIs do actually have double-slashes!) - remove some excess metadata from datacite 'extra' fields | ||||
| | * | refactor importer metadata tables into separate file; move some helpers around | Bryan Newbold | 2021-11-10 | 1 | -59/+2 |
| | | | | | | | | | | | | | | | - 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 helpers | Bryan Newbold | 2021-11-10 | 1 | -4/+1 |
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| | * | importers: use clean_doi() in many more (all?) importers | Bryan Newbold | 2021-11-09 | 1 | -3/+2 |
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| * | | imports: generic file cleanup removes exact duplicate URLs | Bryan Newbold | 2021-11-09 | 1 | -0/+9 |
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| * | typing: initial annotations on importers | Bryan Newbold | 2021-11-03 | 1 | -47/+99 |
| | | | | | | This commit just adds the type annotations, doesn't do fixes to code to make type checking pass. | ||||
| * | re-fix some lint issues after big 'fmt' | Bryan Newbold | 2021-11-02 | 1 | -2/+2 |
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| * | fmt (black): fatcat_tools/ | Bryan Newbold | 2021-11-02 | 1 | -92/+106 |
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| * | python: isort everything | Bryan Newbold | 2021-11-02 | 1 | -12/+12 |
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| * | small python tweaks for annotations, imports | Bryan Newbold | 2021-11-02 | 1 | -1/+1 |
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| * | try some type annotations | Bryan Newbold | 2021-11-02 | 1 | -33/+34 |
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| * | generic fileset importer class, with test coverage | Bryan Newbold | 2021-10-14 | 1 | -0/+4 |
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| * | kafka import: optional 'force-flush' mode for some importers | Bryan Newbold | 2021-10-01 | 1 | -0/+13 |
| | | | | | Behavior and motivation described in the kafka json import comment. | ||||
| * | importer common: more verbose logging (with counts) | Bryan Newbold | 2021-10-01 | 1 | -4/+4 |
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| * | small python lint fixes (no behavior change) | Bryan Newbold | 2021-05-25 | 1 | -2/+0 |
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| * | fuzzy: set 120 second timeout on ES lookups | Bryan Newbold | 2020-12-23 | 1 | -1/+1 |
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| * | add 'lxml' mode for large XML file import, and multi-tags | Bryan Newbold | 2020-12-17 | 1 | -15/+28 |
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| * | update fuzzy helper to pass 'reason' through to import code | Bryan Newbold | 2020-12-17 | 1 | -3/+3 |
| | | | | | | The motivation for this change is to enable passing the 'reason' through to edit extra metadata, in cases where we merge or cluster releases. | ||||
| * | add fuzzy matching helper to importer base class | Bryan Newbold | 2020-12-16 | 1 | -2/+62 |
| | | | | | Using fuzzycat. Add basic test coverage. | ||||
| * | more python normalizers, and move from importer common | Bryan Newbold | 2020-11-19 | 1 | -154/+4 |
| | | | | | | | | | | | | | Moved several normalizer helpers out of fatcat_tools.importers.common to fatcat_tools.normal. Copied language name and country name parser helpers from chocula repository (built on existing pycountry helper library). Have not gone through and refactored other importers to point to these helpers yet; that should be a separate PR when this branch is merged. Current changes are backwards compatible via re-imports. | ||||
| * | remove spurious print statement | Bryan Newbold | 2020-09-03 | 1 | -1/+0 |
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| * | generic file entity clean-ups as part of file_meta importer | Bryan Newbold | 2020-09-02 | 1 | -0/+47 |
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| * | simple lint (flake8) fixes over python codebase | Bryan Newbold | 2020-07-23 | 1 | -1/+0 |
| | | | | | | | These should not have any behavior changes, though a number of exception catches are now more general, and there may be long-tail exceptions getting thrown in these statements. | ||||
| * | lint (flake8) tool python files | Bryan Newbold | 2020-07-01 | 1 | -13/+13 |
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| * | importers: clarify handling of ApiException | Bryan Newbold | 2020-05-22 | 1 | -4/+8 |
| | | | | | | | | | One of these (in ingest importer pipeline) is an actual bug, the others are just changing the syntax to be more explicit/conservative. The ingest importer bug seems to have resulted in some bad file match imports; scale of impact is unknown. | ||||
| * | consistently use raw string prefix for regex | Bryan Newbold | 2020-04-17 | 1 | -1/+1 |
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| * | Merge pull request #53 from EdwardBetts/spelling | bnewbold | 2020-03-27 | 1 | -1/+1 |
| |\ | | | | | Correct spelling mistakes | ||||
| | * | Correct spelling mistakes | Edward Betts | 2020-03-27 | 1 | -1/+1 |
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| * | | Merge branch 'martin-kafka-bs4-import' into 'master' | Martin Czygan | 2020-03-10 | 1 | -0/+65 |
| |\ \ | |/ |/| | | | | | 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 ftp harvest and KafkaBs4XmlPusher | Martin Czygan | 2020-02-19 | 1 | -0/+65 |
| | | | | | | | | | | | | | | | * add PubmedFTPWorker * utils are currently stored alongside pubmed (e.g. ftpretr, xmlstream) but may live elsewhere, as they are more generic * add KafkaBs4XmlPusher | ||||
| * | | add some more domain/rel URL mappings | Bryan Newbold | 2020-02-22 | 1 | -0/+9 |
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| * | fix KafkaError worker reporting for partition errors | Bryan Newbold | 2020-01-29 | 1 | -1/+1 |
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| * | importers: control update behavior with more-standard flag | Bryan Newbold | 2020-01-06 | 1 | -0/+1 |
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| * | write diagnostic messages to stderr | Martin Czygan | 2019-12-16 | 1 | -2/+2 |
| | | | | | | During debugging, it can be helpful to keep stdout (e.g. processing results) and dignostic messages separate. | ||||
| * | Merge branch 'martin-importers-common-doc-fix' into 'master' | Martin Czygan | 2019-12-14 | 1 | -13/+10 |
| |\ | | | | | | | | | Update EntityImporter docstring. See merge request webgroup/fatcat!9 | ||||
| | * | complete parse_record docstring | Martin Czygan | 2019-12-14 | 1 | -0/+6 |
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| | * | Update EntityImporter docstring. | Martin Czygan | 2019-12-13 | 1 | -13/+4 |
| | | | | | | | | | I believe the required method is `parse_record`, not `parse`. | ||||
| * | | revert accidentally commited test timing | Bryan Newbold | 2019-12-13 | 1 | -2/+2 |
| | | | | | | | | | Also fix a spurious typo. | ||||
| * | | ensure importer description arg isn't clobbered | Bryan Newbold | 2019-12-12 | 1 | -1/+3 |
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| * | | flush importer editgroups every few minutes | Bryan Newbold | 2019-12-12 | 1 | -5/+20 |
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| * | | EntityImporter: submit (not accept) mode | Bryan Newbold | 2019-12-12 | 1 | -2/+14 |
| |/ | | | | | For use with bots that don't have admin privileges, or where human follow-up review is desired. | ||||
| * | crude support for 'sandcrawler' kafka topics | Bryan Newbold | 2019-11-15 | 1 | -2/+3 |
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| * | refactor duplicated b32_hex function in importers | Bryan Newbold | 2019-10-08 | 1 | -0/+9 |
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| * | review/fix all confluent-kafka produce code | Bryan Newbold | 2019-09-20 | 1 | -1/+0 |
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| * | small fixes to confluent-kafka importers/workers | Bryan Newbold | 2019-09-20 | 1 | -10/+24 |
| | | | | | | | | | - decrease default changelog pipeline to 5.0sec - fix missing KafkaException harvester imports - more confluent-kafka tweaks - updates to kafka consumer configs - bump elastic updates consumergroup (again) | ||||
| * | small kafka tweaks for robustness | Bryan Newbold | 2019-09-20 | 1 | -0/+3 |
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| * | convert importers to confluent-kafka library | Bryan Newbold | 2019-09-20 | 1 | -19/+71 |
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| * | refactor all python source for client lib name | Bryan Newbold | 2019-09-05 | 1 | -3/+3 |
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