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| author | Bryan Newbold <bnewbold@archive.org> | 2021-07-25 15:30:07 -0700 |
|---|---|---|
| committer | Bryan Newbold <bnewbold@archive.org> | 2021-07-25 15:30:07 -0700 |
| commit | dead6d1bdb9df57a425a094b616de98f1147505e (patch) | |
| tree | 7acc2306fec430da226dd86bf500230378fdc633 /fatcat_scholar/transform.py | |
| parent | c613297265f101e31fe915ac74bc80b43f6ffe00 (diff) | |
| download | fatcat-scholar-dead6d1bdb9df57a425a094b616de98f1147505e.tar.gz fatcat-scholar-dead6d1bdb9df57a425a094b616de98f1147505e.zip | |
refs transform: consolidate clean_ref_key() hacks
Diffstat (limited to 'fatcat_scholar/transform.py')
| -rw-r--r-- | fatcat_scholar/transform.py | 52 |
1 files changed, 35 insertions, 17 deletions
diff --git a/fatcat_scholar/transform.py b/fatcat_scholar/transform.py index 508b898..2aef2f9 100644 --- a/fatcat_scholar/transform.py +++ b/fatcat_scholar/transform.py @@ -603,6 +603,38 @@ def transform_heavy(heavy: IntermediateBundle) -> Optional[ScholarDoc]: ) +def clean_ref_key(key: Optional[str], doi: Optional[str] = None) -> Optional[str]: + if not key: + return None + key = key.strip() + if key and doi and key.startswith(doi): + key = key.replace(doi + "-", "") + key = key.replace(doi, "") + if key.startswith("10.") and 'SICI' in key and '-' in key: + key = key.split('-')[-1] + if key.startswith("10.") and '_' in key: + key = key.split('_')[-1] + if len(key) > 10 and "#" in key: + key = key.split('#')[-1] + if len(key) > 10 and "_" in key: + key = key.split('_')[-1] + if key and key.startswith("ref-"): + key = key[4:] + if key[0] in ['/', '_']: + key = key[1:] + return key + +def test_clean_ref_key() -> None: + test_pairs = [ + ("ref-23", None, "23"), + ("_bib0040", None, "bib0040"), + (" 20170224012016_R15", None, "R15"), + ("10.1002/(SICI)1099-1026(199905/06)14:3<195::AID-FFJ807>3.0.CO;2-C-BIB1", None, "BIB1"), + ("BFnrcardio201557_CR175", None, "CR175"), + ] + for raw, doi, expected in test_pairs: + assert clean_ref_key(raw, doi=doi) == expected + def refs_from_grobid(release: ReleaseEntity, tei_dict: dict) -> List[RefStructured]: output = [] for ref in tei_dict.get("citations") or []: @@ -648,7 +680,7 @@ def refs_from_grobid(release: ReleaseEntity, tei_dict: dict) -> List[RefStructur release_stage=release.release_stage, release_year=release.release_year, index=ref_index, - key=ref.get("id"), + key=clean_ref_key(ref.get("id")), locator=None, # target_release_id ref_source="grobid", @@ -662,14 +694,6 @@ def refs_from_release_refs(release: ReleaseEntity) -> List[RefStructured]: for ref in release.refs: ref_source = "fatcat" - key = ref.key - if key and release.ext_ids.doi and key.startswith(release.ext_ids.doi): - key = key.replace(release.ext_ids.doi, "") - if key and key.startswith("ref-"): - key = key[4:] - if key and key.startswith("b"): - key = key[1:] - if release.extra and release.extra.get("pubmed"): ref_source = "fatcat-pubmed" elif release.extra and release.extra.get("crossref"): @@ -709,7 +733,7 @@ def refs_from_release_refs(release: ReleaseEntity) -> List[RefStructured]: release_stage=release.release_stage, release_year=release.release_year, index=ref_index, - key=key or None, + key=clean_ref_key(ref.key, doi=release.ext_ids.doi), locator=ref.locator, target_release_id=ref.target_release_id, ref_source=ref_source, @@ -733,12 +757,6 @@ def refs_from_crossref( authors = [ ref["author"], ] - key = ref.get("key") - if key and key.startswith(record["DOI"]): - key = key.replace(record["DOI"] + "-", "") - key = key.replace(record["DOI"], "") - if key and key.startswith("ref-"): - key = key[4:] ref_title = ref.get("article-title") ref_container_name = ref.get("journal-title") if not ref_container_name: @@ -791,7 +809,7 @@ def refs_from_crossref( release_stage=release.release_stage, release_year=release.release_year, index=i + 1, # 1-indexed - key=key or None, + key=clean_ref_key(ref.get("key"), doi=record.get("DOI")), #locator, target_release_id=None, ref_source=ref_source, |