mesh_descriptors_ascii_file_parser.py

#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
Created on Wed Oct  5 17:06:58 2016
@author: ShebleAdmin

MeSH Descriptor file, 2017 prelim version from:
ftp://nlmpubs.nlm.nih.gov/online/mesh/MESH_FILES/asciimesh/d2017.bin
used in initial version
"""
import simplejson as json
import pandas as pd

rec=[]
record={}
rec_list=[]
key=""
concat=False
records_list = []

#fileName=sys.argv[1]
mesh_plaintext = 'mesh_ascii_d2017.txt'
fp = '/Users/ShebleAdmin/'
mesh_tsv = 'mesh_ascii_d2017.csv'

meshin = fp + mesh_plaintext
tsvout = fp + mesh_tsv

# Read the input file
#with open(sys.argv[1]) as f:
with open (meshin, 'r') as f:
#    with open(tsvout, 'w+') as of:
    i = 0
    for line in f:   
        rec = line.rstrip().split("=", 1)
        key = rec[0].strip()
        if len(rec) > 1:
            value = rec[1].strip()
        if key == "*NEWRECORD":
            continue
        elif key == "":
            records_list.append(record)
            record = {}
        else:
            record[key]=value
print(len(records_list))

'''
may want to use at some point:

append record to list of records before resetting, getting the next record         
print(json.dumps(record,sort_keys=True, indent=4 * ' '))

df = pd.DataFrame(records_list)
df.to_csv(tsvout, index=False, sep='\t', encoding='utf-8')
'''