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| * | datacite: mitigate sentry #44035Martin Czygan2020-07-101-0/+4
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | According to sentry, running `c.get('nameIdentifiers', []) or []` on a c with value: ``` {'affiliation': [], 'familyName': 'Guidon', 'givenName': 'Manuel', 'nameIdentifiers': {'nameIdentifier': 'https://orcid.org/0000-0003-3543-6683', 'nameIdentifierScheme': 'ORCID', 'schemeUri': 'https://orcid.org'}, 'nameType': 'Personal'} ``` results in a string, which I cannot reproduce. The document in question at: https://api.datacite.org/dois/10.26275/kuw1-fdls seems fine, too.
* | | Merge branch 'martin-arxiv-fix-http-503' into 'master'bnewbold2020-07-101-1/+1
|\ \ \ | | | | | | | | | | | | | | | | arxiv: address 503, "Retry after specified interval" error See merge request webgroup/fatcat!64
| * | | arxiv: do retry five times of HTTP 503Martin Czygan2020-07-101-1/+1
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* | | | get mediawiki username creation working with spacesBryan Newbold2020-07-091-1/+2
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* | | datacite: fix attribute errorMartin Czygan2020-07-071-1/+1
|/ / | | | | | | refs: #44035
* | tweak flake8 paramsBryan Newbold2020-07-011-2/+8
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* | lint (flake8) python test filesBryan Newbold2020-07-0145-168/+71
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* | lint (flake8) tool python filesBryan Newbold2020-07-0133-130/+46
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* | lint (flake8) web interface python filesBryan Newbold2020-07-017-26/+16
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* | lint (flake8) top-level python filesBryan Newbold2020-07-018-25/+11
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* | updates to MakefileBryan Newbold2020-07-012-5/+32
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* | reviewer: fix bugs in common code found by mypyBryan Newbold2020-07-011-2/+3
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* | update TODO with some old examplesBryan Newbold2020-07-011-0/+10
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* add new license mappingsBryan Newbold2020-06-302-0/+27
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* datacite: improve license mappingMartin Czygan2020-06-302-9/+29
| | | | via "missed potential license", refs #58
* datacite: hard cast possible date value to stringMartin Czygan2020-06-292-1/+2
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* disallow a specific unicode character from DOIsBryan Newbold2020-06-261-0/+6
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* make fulltext-only label clickableMartin Czygan2020-06-161-2/+2
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* Merge branch 'bnewbold-better-button-links' into 'master'Martin Czygan2020-06-054-4/+18
|\ | | | | | | | | better download button links See merge request webgroup/fatcat!57
| * use ES 'best_url' in file download pagesBryan Newbold2020-06-042-2/+4
| | | | | | | | Similar to recent change for release download pages.
| * ES schema: add best_url to file schemaBryan Newbold2020-06-041-0/+12
| | | | | | | | | | | | | | | | | | This will increase index size (URLs are often long in our corpus, and we have many file entities), but seems worth it. Initially added `ia_url` as a second field, guaranteed to always be an *.archive.org URL, but `best_url` defaults to that anyways so didn't seem worthwhile.
| * re-use 'best pdf url' for release green buttonBryan Newbold2020-06-041-2/+2
| | | | | | | | | | | | | | I thought this was the existing behavior, but it looks like we were just taking the first link from the first file. In the future may refactor this out even further.
* | fix 'dev' target in python makefileBryan Newbold2020-06-041-1/+1
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* Merge remote-tracking branch 'origin/martin-harvest-fail-on-400'Bryan Newbold2020-05-291-4/+0
|\ | | | | | | | | | | Manually resolved conflicts: python/fatcat_tools/harvest/doi_registrars.py
| * harvest: fail on HTTP 400Martin Czygan2020-05-291-4/+0
| | | | | | | | | | | | | | | | | | In the past harvest of datacite resulted in occasional HTTP 400. Meanwhile, various API bugs have been fixed (most recently: https://github.com/datacite/lupo/pull/537, https://github.com/datacite/datacite/issues/1038). Downside of ignoring this error was that state lives in kafka, which has limited support for deletion of arbitrary messages from a topic.
* | Merge branch 'martin-datacite-harvest-log-output' into 'master'Martin Czygan2020-05-291-1/+1
|\ \ | | | | | | | | | | | | harvest: log the failed url See merge request webgroup/fatcat!55
| * | harvest: log the failed urlMartin Czygan2020-05-291-1/+1
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* / datacite: fix test docsMartin Czygan2020-05-291-3/+3
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* Merge branch 'bnewbold-ingest-stage' into 'master'Martin Czygan2020-05-283-7/+46
|\ | | | | | | | | verify release_stage in ingest importer See merge request webgroup/fatcat!52
| * ingest importer: check that stage is consistent with releaseBryan Newbold2020-05-261-0/+5
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| * regression test for release_stage mismatch with ingest requestBryan Newbold2020-05-262-7/+41
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* | rename HarvestState.next() to HarvestState.next_span()Bryan Newbold2020-05-265-7/+7
|/ | | | | | | | | "span" short for "timespan" to harvest; there may be a better name to use. Motivation for this is to work around a pylint erorr that .next() was not callable. This might be a bug with pylint, but .next() is also a very generic name.
* add a work-in-progress python MakefileBryan Newbold2020-05-261-0/+24
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* pylintrc: skip many spurious WTForm no-member errorsBryan Newbold2020-05-261-0/+2
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* HACK: try to squelch pylint in CIBryan Newbold2020-05-261-2/+2
| | | | | | | | | | | | | | | | | Gitlab CI is showing lint errors like: =================================== FAILURES =================================== 6316 _______________________ [pylint] tests/harvest_state.py ________________________ 6317 E: 19,11: hs.next is not callable (not-callable) 6318 E: 33,11: hs.next is not callable (not-callable) 6319 E: 19,11: hs.next is not callable (not-callable) [...] this is confusing as we use pipenv with a lock, so I should see the exact same errors locally. This commit is a hack to try and fix this and unbreak builds until we can debug further.
* HACK: skip pylint errors on lines that seem to be fineBryan Newbold2020-05-223-3/+3
| | | | | It seems to be an inadvertantly ugraded version of pylint saying that these lines are not-callable.
* pipenv: add flake8Bryan Newbold2020-05-222-183/+213
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* Merge remote-tracking branch 'github/master'Bryan Newbold2020-05-222-7/+7
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| * Indentity is not the same this as equality in PythonChristian Clauss2020-05-141-2/+2
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| * Indentity is not the same this as equality in PythonChristian Clauss2020-05-141-5/+5
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* | importers: clarify handling of ApiExceptionBryan Newbold2020-05-223-4/+10
| | | | | | | | | | | | | | | | 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.
* | ingest importer: don't use glutton matchesBryan Newbold2020-05-221-3/+3
| | | | | | | | | | | | | | Until reviewing I didn't realize we were even doing this currently. Hopefluly has not impacted too many imports, as almost all ingests use an external identifer, so only those with identifers not in fatcat for whatever reason.
* | Merge branch 'martin-fix-container-empty-search' into 'master'Martin Czygan2020-04-291-0/+4
|\ \ | | | | | | | | | | | | search: assume * when q is not set or empty See merge request webgroup/fatcat!51
| * | search: assume * when q is not set or emptyMartin Czygan2020-04-291-0/+4
| | | | | | | | | | | | An example would be a blank search from a container details page.
* | | Merge branch 'bnewbold-search-tweaks' into 'master'bnewbold2020-04-273-92/+132
|\ \ \ | |/ / |/| | | | | | | | tweaks to search result pages See merge request webgroup/fatcat!50
| * | web search: tweak release search result styleBryan Newbold2020-04-231-25/+51
| | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | | This is also back-ported from covid19.fatcat.wiki, though with some more tweaks on top. The changes are: - show original title if available (usually non-English) - move release_type label to title line suffix, and only show if not a "paper" - show publication status and withdrawl as text after the journal title, not as a label
| * | web search: improve indentation, fix missing div tagsBryan Newbold2020-04-232-67/+81
| |/ | | | | | | These are back-ported fixes from covid19.fatcat.wiki
* | Merge branch 'bnewbold-non-ident-fix' into 'master'Martin Czygan2020-04-243-6/+10
|\ \ | | | | | | | | | | | | | | | | | | fix ident=None broken links Closes #3 See merge request webgroup/fatcat!49
| * | web: fix ident=None broken linksBryan Newbold2020-04-233-6/+10
| |/ | | | | | | | | | | On web interface views for revisions, we had a bunch of broken links because the ident is "None". This commit fixes these by removing the links.
* | datacite: fix type errorMartin Czygan2020-04-224-2/+80
| | | | | | | | | | | | | | Up to now, we expected the description to be a string or list. Add handling for int as well. First appeared: Apr 22 19:58:39.
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