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coverage.py
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import logging
import os
import json
import csv
from search_OA_CR import *
def calculate_coverage(logger, cand_dict):
cov = dict()
cov["total_CV"] = len(cand_dict["pubbs"])
cov["mag"] = 0
cov["oa"] = 0
cov["cr"] = 0
cov["combined"] = 0
for pub in cand_dict["pubbs"]:
if "PId" in pub.keys() or "doi" in pub.keys():
cov["combined"] += 1
if "PId" in pub.keys():
cov["mag"] += 1
if "doi" in pub.keys():
cov["oa"] += search_doi_oa(logger, pub["doi"])
cov["cr"] += search_doi_cr(logger, pub["doi"])
elif "title" in pub.keys():
cov["oa"] += search_title_oa(logger, cand_dict["fullname"], pub["title"], pub["year"])
cov["cr"] += search_title_cr(logger, cand_dict["fullname"], pub["title"], pub["year"])
cov["extra_found"] = cov["combined"] + len(cand_dict["pubbs_mag"])
if cov["extra_found"] >= (cov["total_CV"] * 0.7) or cov["extra_found"] > 15:
if cov["combined"] >= (cov["total_CV"] * 0.7) or cov["combined"] > 15:
cov["cov_sect"] = "A"
else:
cov["cov_sect"] = "B"
else:
cov["cov_sect"] = "C"
return cov
def build_cands_data(complete_folder):
data = dict()
with os.scandir(complete_folder) as complete_files:
for file in complete_files:
file_path = os.path.join(complete_folder, file.name)
file_name = file.name[:-5]
name_parts = file_name.split("_")
type_file = name_parts[5]
if type_file == "complete":
asn_year = name_parts[0]
term = name_parts[1]
role = name_parts[2]
field = name_parts[3]
cand_id = name_parts[4]
if asn_year not in data.keys():
data[asn_year] = dict()
if term not in data[asn_year].keys():
data[asn_year][term] = dict()
if role not in data[asn_year][term].keys():
data[asn_year][term][role] = dict()
if field not in data[asn_year][term][role].keys():
data[asn_year][term][role][field] = dict()
with open(file_path, 'r') as json_file:
data[asn_year][term][role][field][cand_id] = json.load(json_file)
return data
def saving_coverage(complete_folder, path):
logging.basicConfig(filename='coverage.log', level=logging.ERROR,
format='%(asctime)s %(levelname)s %(name)s %(message)s')
logger = logging.getLogger(__name__)
logger.error("____COVERAGE____")
cands_dict = build_cands_data(complete_folder)
cov_folder = os.path.join(os.getcwd(), "cov_data")
if os.path.exists(cov_folder) is False:
os.mkdir(cov_folder)
cov_dict = dict()
for asn_year, terms in cands_dict.items():
cov_dict[asn_year] = dict()
for term, roles in terms.items():
cov_dict[asn_year][term] = dict()
for role, fields in roles.items():
cov_dict[asn_year][term][role] = dict()
for field, candidates in fields.items():
cov_dict[asn_year][term][role][field] = dict()
for cand_id, cand_dict in candidates.items():
cand_file = os.path.join(cov_folder, f"{asn_year}_{term}_{role}_{field}_{cand_id}_cov.json")
if os.path.exists(cand_file) is False:
cov_dict[asn_year][term][role][field][cand_id] = calculate_coverage(logger, cand_dict)
cand_cov_dict = cov_dict[asn_year][term][role][field][cand_id]
with open(cand_file, 'w') as cov_file:
json.dump(cand_cov_dict, cov_file, sort_keys=True, indent=4)
else:
with open(cand_file) as cov_file:
cand_cov_dict = json.load(cov_file)
cov_dict[asn_year][term][role][field][cand_id] = cand_cov_dict
with open(path, 'w', encoding='utf-8', newline='') as cov_csv:
writer = csv.writer(cov_csv)
writer.writerow(("cov_sect", "term", "role", "field", "id",
"MAG", "OA", "CR", "combined",
"MAG%", "OA%", "CR%", "combined", "total_CV"))
for asn_year, terms in cov_dict.items():
for term, roles in terms.items():
for role, fields in roles.items():
for field, names in fields.items():
for name, info in names.items():
cand_id = name.split("_")[0]
mag = info["mag"] / info["total_CV"]
oa = info["oa"] / info["total_CV"]
cr = info["cr"] / info["total_CV"]
comb = info["combined"] / info["total_CV"]
writer.writerow(
(info["cov_sect"], term, role, field, cand_id,
info["mag"], info["oa"], info["cr"], info["combined"],
mag, oa, cr, comb, info["total_CV"]))
complete_data_folder = os.path.join(os.getcwd(), "complete_data")
saving_coverage(complete_data_folder, "coverage.csv")