import json, gzip import pytest from fatcat_tools.importers import CrossrefImporter, JsonLinePusher from fixtures import api @pytest.fixture(scope="function") def crossref_importer(api): with open('tests/files/ISSN-to-ISSN-L.snip.txt', 'r') as issn_file: yield CrossrefImporter(api, issn_file, extid_map_file='tests/files/example_map.sqlite3', bezerk_mode=True) @pytest.fixture(scope="function") def crossref_importer_existing(api): with open('tests/files/ISSN-to-ISSN-L.snip.txt', 'r') as issn_file: yield CrossrefImporter(api, issn_file, extid_map_file='tests/files/example_map.sqlite3', bezerk_mode=False) def test_crossref_importer_huge(crossref_importer): last_index = crossref_importer.api.get_changelog(limit=1)[0].index with gzip.open('tests/files/huge_crossref_doi.json.gz', 'rt') as f: crossref_importer.bezerk_mode = True line = f.readline() mega_blob = [line for i in range(95)] counts = JsonLinePusher(crossref_importer, mega_blob).run() assert counts['insert'] == 95 change = crossref_importer.api.get_changelog_entry(index=last_index+1) release = crossref_importer.api.get_release(change.editgroup.edits.releases[0].ident) assert len(release.contribs) == 1014 def test_crossref_importer(crossref_importer): last_index = crossref_importer.api.get_changelog(limit=1)[0].index with open('tests/files/crossref-works.2018-01-21.badsample.json', 'r') as f: crossref_importer.bezerk_mode = True counts = JsonLinePusher(crossref_importer, f).run() assert counts['insert'] == 14 assert counts['exists'] == 0 assert counts['skip'] == 0 # fetch most recent editgroup change = crossref_importer.api.get_changelog_entry(index=last_index+1) eg = change.editgroup assert eg.description assert "crossref" in eg.description.lower() assert eg.extra['git_rev'] assert "fatcat_tools.CrossrefImporter" in eg.extra['agent'] last_index = crossref_importer.api.get_changelog(limit=1)[0].index with open('tests/files/crossref-works.2018-01-21.badsample.json', 'r') as f: crossref_importer.bezerk_mode = False crossref_importer.reset() counts = JsonLinePusher(crossref_importer, f).run() assert counts['insert'] == 0 assert counts['exists'] == 14 assert counts['skip'] == 0 assert last_index == crossref_importer.api.get_changelog(limit=1)[0].index def test_crossref_mappings(crossref_importer): assert crossref_importer.map_release_type('journal-article') == "article-journal" assert crossref_importer.map_release_type('asdf') is None assert crossref_importer.map_release_type('component') is None assert crossref_importer.map_release_type('standard') == 'standard' def test_crossref_importer_create(crossref_importer): crossref_importer.create_containers = True with open('tests/files/crossref-works.2018-01-21.badsample.json', 'r') as f: JsonLinePusher(crossref_importer, f).run() def test_crossref_dict_parse(crossref_importer): with open('tests/files/crossref-works.single.json', 'r') as f: # not a single line raw = json.loads(f.read()) r = crossref_importer.parse_record(raw) # ensure the API server is ok with format JsonLinePusher(crossref_importer, [json.dumps(raw)]).run() print(r.extra) assert r.title == "Renormalized perturbation theory by the moment method for degenerate states: Anharmonic oscillators" assert r.publisher == "Wiley-Blackwell" assert r.release_type == "article-journal" assert r.release_stage == "published" assert r.license_slug == "CC-BY-NC-ND" assert r.original_title == "Renormalized perturbation theory auf deutsch" assert r.ext_ids.doi == "10.1002/(sici)1097-461x(1998)66:4<261::aid-qua1>3.0.co;2-t" assert r.ext_ids.isbn13 == "978-3-16-148410-0" assert r.language == "fr" assert 'subtitle' not in r.extra assert 'subtitle' not in r.extra['crossref'] assert 'funder' not in r.extra assert 'funder' not in r.extra['crossref'] # matched by ISSN, so shouldn't be in there #assert extra['container_name'] == "International Journal of Quantum Chemistry" assert r.extra['aliases'] == ["some other title"] assert r.extra['crossref']['archive'] == ['Portico', 'LOCKSS'] assert len(r.contribs) == 6 assert r.contribs[0].raw_name == "Marcelo D. Radicioni" assert r.contribs[0].index == 0 assert r.contribs[0].extra['seq'] == "first" assert r.contribs[1].raw_affiliation == "Some University" assert r.contribs[1].extra['more_affiliations'] == ["Some Department"] assert r.contribs[1].role == "author" assert r.contribs[4].role == "editor" assert r.contribs[4].index is None assert r.contribs[4].extra is None assert r.contribs[5].role == "translator" assert r.contribs[5].index is None assert len(r.refs) == 25 assert r.refs[0].key == "BIB1" assert r.refs[0].year == 1972 assert r.refs[0].locator == "1734" assert r.refs[0].container_name == "J. Chem. Phys." assert r.refs[0].extra == {"volume": "57", "authors": ["Swenson"], "doi": "10.1063/1.1678462", "medium": "DVD"} assert r.refs[2].key == 'BIB3' assert r.refs[2].extra.get('author') is None assert r.refs[2].container_name == "Hypervirial Theorem's, Lecture Notes in Chemistry <3" assert r.refs[3].container_name == "Large Order Perturbation Theory and Summation Methods in Quantum Mechanics, Lecture Notes in Chemistry" def test_stateful_checking(crossref_importer_existing): with open('tests/files/crossref-works.single.json', 'r') as f: # not a single line, a whole document raw = f.read() # might not exist yet... crossref_importer_existing.push_record(json.loads(raw)) crossref_importer_existing.finish() # make sure we wouldn't insert again entity = crossref_importer_existing.parse_record(json.loads(raw)) assert crossref_importer_existing.try_update(entity) is False