mirror of
https://github.com/ilri/csv-metadata-quality.git
synced 2024-11-25 15:18:19 +01:00
Alan Orth
9ce7dc6716
Generally we want people to upload documents in accessible formats like PDF, Word, Excel, and PowerPoint. This check warns if a file is using an uncommon extension.
101 lines
3.5 KiB
Python
101 lines
3.5 KiB
Python
from csv_metadata_quality.version import VERSION
|
|
import argparse
|
|
import csv_metadata_quality.check as check
|
|
import csv_metadata_quality.fix as fix
|
|
import pandas as pd
|
|
import re
|
|
import signal
|
|
import sys
|
|
|
|
|
|
def parse_args(argv):
|
|
parser = argparse.ArgumentParser(description='Metadata quality checker and fixer.')
|
|
parser.add_argument('--agrovoc-fields', '-a', help='Comma-separated list of fields to validate against AGROVOC, for example: dc.subject,cg.coverage.country')
|
|
parser.add_argument('--input-file', '-i', help='Path to input file. Can be UTF-8 CSV or Excel XLSX.', required=True, type=argparse.FileType('r', encoding='UTF-8'))
|
|
parser.add_argument('--output-file', '-o', help='Path to output file (always CSV).', required=True, type=argparse.FileType('w', encoding='UTF-8'))
|
|
parser.add_argument('--unsafe-fixes', '-u', help='Perform unsafe fixes.', action='store_true')
|
|
parser.add_argument('--version', '-V', action='version', version=f'CSV Metadata Quality v{VERSION}')
|
|
args = parser.parse_args()
|
|
|
|
return args
|
|
|
|
|
|
def signal_handler(signal, frame):
|
|
sys.exit(1)
|
|
|
|
|
|
def run(argv):
|
|
args = parse_args(argv)
|
|
|
|
# set the signal handler for SIGINT (^C)
|
|
signal.signal(signal.SIGINT, signal_handler)
|
|
|
|
# Read all fields as strings so dates don't get converted from 1998 to 1998.0
|
|
df = pd.read_csv(args.input_file, dtype=str)
|
|
|
|
for column in df.columns.values.tolist():
|
|
# Fix: whitespace
|
|
df[column] = df[column].apply(fix.whitespace)
|
|
|
|
# Fix: newlines
|
|
if args.unsafe_fixes:
|
|
df[column] = df[column].apply(fix.newlines)
|
|
|
|
# Fix: unnecessary Unicode
|
|
df[column] = df[column].apply(fix.unnecessary_unicode)
|
|
|
|
# Check: invalid multi-value separator
|
|
df[column] = df[column].apply(check.separators)
|
|
|
|
# Check: suspicious characters
|
|
df[column] = df[column].apply(check.suspicious_characters, field_name=column)
|
|
|
|
# Fix: invalid multi-value separator
|
|
if args.unsafe_fixes:
|
|
df[column] = df[column].apply(fix.separators)
|
|
# Run whitespace fix again after fixing invalid separators
|
|
df[column] = df[column].apply(fix.whitespace)
|
|
|
|
# Fix: duplicate metadata values
|
|
df[column] = df[column].apply(fix.duplicates)
|
|
|
|
# Check: invalid AGROVOC subject
|
|
if args.agrovoc_fields:
|
|
# Identify fields the user wants to validate against AGROVOC
|
|
for field in args.agrovoc_fields.split(','):
|
|
if column == field:
|
|
df[column] = df[column].apply(check.agrovoc, field_name=column)
|
|
|
|
# Check: invalid language
|
|
match = re.match(r'^.*?language.*$', column)
|
|
if match is not None:
|
|
df[column] = df[column].apply(check.language)
|
|
|
|
# Check: invalid ISSN
|
|
match = re.match(r'^.*?issn.*$', column)
|
|
if match is not None:
|
|
df[column] = df[column].apply(check.issn)
|
|
|
|
# Check: invalid ISBN
|
|
match = re.match(r'^.*?isbn.*$', column)
|
|
if match is not None:
|
|
df[column] = df[column].apply(check.isbn)
|
|
|
|
# Check: invalid date
|
|
match = re.match(r'^.*?date.*$', column)
|
|
if match is not None:
|
|
df[column] = df[column].apply(check.date)
|
|
|
|
# Check: filename extension
|
|
if column == 'filename':
|
|
df[column] = df[column].apply(check.filename_extension)
|
|
|
|
# Write
|
|
df.to_csv(args.output_file, index=False)
|
|
|
|
# Close the input and output files before exiting
|
|
args.input_file.close()
|
|
args.output_file.close()
|
|
|
|
sys.exit(0)
|