diff options
| -rw-r--r-- | python/fatcat_tools/transforms/elasticsearch.py | 14 | ||||
| -rwxr-xr-x | python/fatcat_transform.py | 26 | ||||
| -rw-r--r-- | python/tests/files/changelog_3469683.json | 1 | ||||
| -rw-r--r-- | python/tests/files/file_bcah4zp5tvdhjl5bqci2c2lgfa.json | 1 | ||||
| -rw-r--r-- | python/tests/files/release_etodop5banbndg3faecnfm6ozi.json | 1 | ||||
| -rw-r--r-- | python/tests/transform_elasticsearch.py (renamed from python/tests/transform_tests.py) | 18 |
6 files changed, 48 insertions, 13 deletions
diff --git a/python/fatcat_tools/transforms/elasticsearch.py b/python/fatcat_tools/transforms/elasticsearch.py index b997796d..812cd1fd 100644 --- a/python/fatcat_tools/transforms/elasticsearch.py +++ b/python/fatcat_tools/transforms/elasticsearch.py @@ -20,6 +20,7 @@ def test_check_kbart(): assert check_kbart(1950, dict(year_spans=[[1900, 1920], [1990, 2000]])) == False assert check_kbart(1950, dict(year_spans=[[1900, 1920], [1930, 2000]])) == True + def release_to_elasticsearch(entity, force_bool=True): """ Converts from an entity model/schema to elasticsearch oriented schema. @@ -233,8 +234,8 @@ def release_to_elasticsearch(entity, force_bool=True): if release.pages: first = release.pages.split('-')[0] first = first.replace('p', '') - if release.pages.isdigit(): - t['first_page'] = release.pages + if first.isdigit(): + t['first_page'] = first # TODO: non-numerical first pages t['ia_microfilm_url'] = None @@ -243,12 +244,12 @@ def release_to_elasticsearch(entity, force_bool=True): # need extra metadata in the container extra field. # special case as a demo for now. if release.container_id == "hl5g6d5msjcl7hlbyyvcsbhc2u" \ - and release.year in (2011, 2013) \ - and release.volume.isdigit() \ + and release.release_year in (2011, 2013) \ + and release.issue.isdigit() \ and t['first_page']: t['ia_microfilm_url'] = "https://archive.org/details/sim_bjog_{}-{:02d}/page/n{}".format( - release.year, - release.volume - 1, + release.release_year, + int(release.issue) - 1, t['first_page'], ) @@ -299,6 +300,7 @@ def release_to_elasticsearch(entity, force_bool=True): return t + def container_to_elasticsearch(entity, force_bool=True): """ Converts from an entity model/schema to elasticsearch oriented schema. diff --git a/python/fatcat_transform.py b/python/fatcat_transform.py index ccb13871..42d2ea99 100755 --- a/python/fatcat_transform.py +++ b/python/fatcat_transform.py @@ -1,6 +1,8 @@ #!/usr/bin/env python3 """ +Utility script for doing bulk conversion/tranforms of entity JSON schema to +other formats """ import sys @@ -15,10 +17,11 @@ from citeproc_styles import get_style_filepath import fatcat_openapi_client from fatcat_openapi_client.rest import ApiException -from fatcat_openapi_client import ReleaseEntity, ContainerEntity, ChangelogEntry +from fatcat_openapi_client import ReleaseEntity, ContainerEntity, FileEntity, ChangelogEntry from fatcat_tools import uuid2fcid, entity_from_json, entity_to_dict, \ release_to_elasticsearch, container_to_elasticsearch, \ - changelog_to_elasticsearch, public_api, release_to_csl, citeproc_csl + file_to_elasticsearch, changelog_to_elasticsearch, public_api, \ + release_to_csl, citeproc_csl def run_elasticsearch_releases(args): @@ -39,6 +42,15 @@ def run_elasticsearch_containers(args): args.json_output.write( json.dumps(container_to_elasticsearch(entity)) + '\n') +def run_elasticsearch_files(args): + for line in args.json_input: + line = line.strip() + if not line: + continue + entity = entity_from_json(line, FileEntity, api_client=args.api.api_client) + args.json_output.write( + json.dumps(file_to_elasticsearch(entity)) + '\n') + def run_elasticsearch_changelogs(args): for line in args.json_input: line = line.strip() @@ -87,6 +99,16 @@ def main(): help="where to send output", default=sys.stdout, type=argparse.FileType('w')) + sub_elasticsearch_files = subparsers.add_parser('elasticsearch-files', + help="convert fatcat file JSON schema to elasticsearch file schema") + sub_elasticsearch_files.set_defaults(func=run_elasticsearch_files) + sub_elasticsearch_files.add_argument('json_input', + help="JSON-per-line of file entities", + default=sys.stdin, type=argparse.FileType('r')) + sub_elasticsearch_files.add_argument('json_output', + help="where to send output", + default=sys.stdout, type=argparse.FileType('w')) + sub_elasticsearch_changelogs = subparsers.add_parser('elasticsearch-changelogs', help="convert fatcat changelog JSON schema to elasticsearch changelog schema") sub_elasticsearch_changelogs.set_defaults(func=run_elasticsearch_changelogs) diff --git a/python/tests/files/changelog_3469683.json b/python/tests/files/changelog_3469683.json new file mode 100644 index 00000000..7a847b16 --- /dev/null +++ b/python/tests/files/changelog_3469683.json @@ -0,0 +1 @@ +{"index":3469683,"editgroup_id":"jebmpiqsjja7jozze7hoy3bir4","timestamp":"2020-01-30T05:04:39.738601Z","editgroup":{"editgroup_id":"jebmpiqsjja7jozze7hoy3bir4","editor_id":"scmbogxw25evtcesfcab5qaboa","editor":{"editor_id":"scmbogxw25evtcesfcab5qaboa","username":"crawl-bot","is_admin":true,"is_bot":true,"is_active":true},"changelog_index":3469683,"created":"2020-01-30T05:04:39.738601Z","description":"Files crawled from web using sandcrawler ingest 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\ No newline at end of file diff --git a/python/tests/files/release_etodop5banbndg3faecnfm6ozi.json b/python/tests/files/release_etodop5banbndg3faecnfm6ozi.json new file mode 100644 index 00000000..1204c95d --- /dev/null +++ b/python/tests/files/release_etodop5banbndg3faecnfm6ozi.json @@ -0,0 +1 @@ +{"abstracts":[],"refs":[{"index":0,"extra":{"issue":"Suppl 1","volume":"118"},"key":"10.1111/j.1471-0528.2011.03098.x-BIB1|cit1","year":2011,"container_name":"BJOG","title":"Saving Mothers' Lives: reviewing maternal deaths to make motherhood safer-2006-2008. The Eighth Report of the Confidential Enquiries into Maternal Deaths in the United Kingdom"}],"contribs":[{"index":0,"raw_name":"Philip Steer","role":"author","extra":{"seq":"first"}}],"language":"en","publisher":"Wiley","pages":"1404-1404","issue":"11","volume":"118","ext_ids":{"doi":"10.1111/j.1471-0528.2011.03098.x"},"release_year":2011,"release_date":"2011-09-09","release_stage":"published","release_type":"article-journal","container_id":"hl5g6d5msjcl7hlbyyvcsbhc2u","webcaptures":[],"filesets":[],"files":[],"container":{"wikidata_qid":"Q15724571","issnl":"1470-0328","publisher":"Wiley (Blackwell Publishing)","container_type":"journal","name":"BJOG: an International Journal of Obstetrics and Gynaecology","extra":{"abbrev":"BJOG","country":"gb","ia":{"sim":{"year_spans":[[1902,1915],[1921,2015]]}},"issne":"1471-0528","issnp":"1470-0328","kbart":{"clockss":{"year_spans":[[1989,1989],[1993,1993],[2002,2003],[2009,2017]]},"portico":{"year_spans":[[1902,2019]]}},"languages":["en"],"sherpa_romeo":{"color":"yellow"},"urls":["http://www.bjog.org/view/0/index.html"]},"revision":"ec26766c-c1fe-453b-837d-087cc254fe07","ident":"hl5g6d5msjcl7hlbyyvcsbhc2u","state":"active"},"work_id":"wmwe5wwkzfcs7gyjfgdeanksha","title":"Saving Mothers' Lives. Reviewing maternal deaths to make motherhood safer: 2006-2008","state":"active","ident":"etodop5banbndg3faecnfm6ozi","revision":"deb7e050-6df6-42ed-9704-788a0e30facf","extra":{"crossref":{"type":"journal-article"},"subtitle":["Correpondence"]}}
\ No newline at end of file diff --git a/python/tests/transform_tests.py b/python/tests/transform_elasticsearch.py index 7b583ac4..ab613a0a 100644 --- a/python/tests/transform_tests.py +++ b/python/tests/transform_elasticsearch.py @@ -74,8 +74,18 @@ def test_rich_elasticsearch_convert(): assert es['ref_linked_count'] == 1 def test_elasticsearch_release_from_json(): - r = entity_from_json(open('./tests/files/math_universe.json', 'r').read(), ReleaseEntity) - release_to_elasticsearch(r) + r = entity_from_json(open('./tests/files/release_etodop5banbndg3faecnfm6ozi.json', 'r').read(), ReleaseEntity) + es = release_to_elasticsearch(r) + + assert es['subtitle'] == "Correpondence" + assert es['ident'] == "etodop5banbndg3faecnfm6ozi" + assert es['container_name'] == "BJOG: an International Journal of Obstetrics and Gynaecology" + assert es['first_page'] == "1404" + assert es['issue'] == "11" + assert es['volume'] == "118" + assert es['number'] == None + assert es['in_ia_sim'] == True + assert es['in_kbart'] == True def test_elasticsearch_container_transform(journal_metadata_importer): with open('tests/files/journal_metadata.sample.json', 'r') as f: @@ -86,9 +96,7 @@ def test_elasticsearch_container_transform(journal_metadata_importer): assert es['publisher'] == c.publisher def test_elasticsearch_file_transform(matched_importer): - with open('tests/files/example_matched.json', 'r') as f: - raw = json.loads(f.readline()) - f = matched_importer.parse_record(raw) + f = entity_from_json(open('./tests/files/file_bcah4zp5tvdhjl5bqci2c2lgfa.json', 'r').read(), FileEntity) f.state = 'active' es = file_to_elasticsearch(f) |