"""Test a batch of 2017 YYYY-01-01 records""" import asyncio, httpx, lxml.etree as ET from datetime import date from sqlalchemy import text from sqlalchemy.ext.asyncio import create_async_engine DATABASE_URL = 'postgresql+asyncpg://scilit:scilit_prod_2026@postgres:5432/scilit' MONTH_MAP = {'jan':1,'january':1,'1':1,'feb':2,'february':2,'2':2,'mar':3,'march':3,'3':3,'apr':4,'april':4,'4':4,'may':5,'5':5,'jun':6,'june':6,'6':6,'jul':7,'july':7,'7':7,'aug':8,'august':8,'8':8,'sep':9,'september':9,'9':9,'oct':10,'october':10,'10':10,'nov':11,'november':11,'11':11,'dec':12,'december':12,'12':12,} DAYS = [0,31,29,31,30,31,30,31,31,30,31,30,31] def mn(m): return MONTH_MAP.get(m.strip().lower(), 1) def cd(m,d,y): if d<1: return 1 md=DAYS[m] if m==2 and d==29 and not (y%4==0 and (y%100!=0 or y%400==0)): md=28 return min(d,md) def ppd(elem): pde=elem.find('.//PubDate') if pde is None: return None ye=pde.find('Year'); me=pde.find('Month'); de=pde.find('Day') if ye is not None and ye.text: y=int(ye.text.strip()); hm=me is not None and me.text; hd=de is not None and de.text if not hm and not hd: return None m=mn(me.text.strip()) if hm else 1; d=int(de.text.strip()) if hd else 1; d=cd(m,d,y) return date(y,m,d) return None async def main(): engine = create_async_engine(DATABASE_URL) async with engine.connect() as conn: r = await conn.execute(text("""SELECT id, pmid, pub_date, pub_year FROM global_literature WHERE pub_date IS NOT NULL AND EXTRACT(MONTH FROM pub_date)=1 AND EXTRACT(DAY FROM pub_date)=1 AND pmid IS NOT NULL AND pub_year = 2017 ORDER BY pmid ASC LIMIT 200""")) rows = r.all() await engine.dispose() pmids = [str(r.pmid) for r in rows] print(f'Testing {len(rows)} 2017 PMIDs: {pmids[0]} ~ {pmids[-1]}') async with httpx.AsyncClient(timeout=60) as c: resp = await c.get('https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi',params={'db':'pubmed','id':','.join(pmids),'retmode':'xml'}) root = ET.fromstring(resp.content) arts = root.findall('PubmedArticle') fixed=0; year_only=0; still_jan01=0 efetch_map = {} for art in arts: pmid_e=art.find('MedlineCitation/PMID'); pmid=int(pmid_e.text) if pmid_e is not None else None pd=ppd(art) if pmid: efetch_map[pmid]=pd for row in rows: pd=efetch_map.get(row.pmid) if pd is None: year_only+=1 elif pd.month==1 and pd.day==1: still_jan01+=1 else: fixed+=1 print(f'Can fix: {fixed}, Year-only: {year_only}, Still Jan-01: {still_jan01}') asyncio.run(main())