Python, Convert bson output of mongodump to array of json objects (dictionaries)

Question

I have dumped a mongodb collection using the mongodump command. The output is a dump directory which has these files:

dump/
    |___coll.bson
    |___coll.metadata.json

How can I open the exported files to a array of dictionaries that work in python? I tried the following and none worked:

with open('dump/coll.bson', 'rb') as f:
    coll_raw = f.read()
import json
coll = json.loads(coll_raw)

# Using pymongo
from bson.json_util import loads
coll = loads(coll_raw)

ValueError: No JSON object could be decoded

Yash Mehrotra · Accepted Answer · 2015-12-16 19:46:53Z

10

You should try:

from bson import BSON
with open('dump/coll.bson', 'rb') as f:
    coll_raw = f.read()

coll = bson.decode_all(coll_raw)

edited Dec 16, 2015 at 19:46

answered Dec 16, 2015 at 19:15

Yash Mehrotra

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10 Comments

Yash Mehrotra Over a year ago

This probably means that your BSON is incorrect, can you send me a sample BSON object that you are trying to decode ?

CentAu Over a year ago

The bson file is the dump I got with mongodump. The file is huge. Let me see if I can replicate the error with a small database.

Quirk Over a year ago

Did you try running BSON.is_valid(coll_row)?

CentAu Over a year ago

@YashMehrotra here's the file: dropbox.com/s/6yyssja0la0ctln/dump.zip?dl=0 Direct output of mongodump

CentAu Over a year ago

@Quirk object 'BSON' has no attribute 'is_valid'

|

bauman.space · Accepted Answer · 2016-01-20 16:24:58Z

I know this was answered a long time ago, but you could try decoding each document separately and then you'd know which doc is causing the problem.

I use this library: https://github.com/bauman/python-bson-streaming

from bsonstream import KeyValueBSONInput
f = open("restaurants.bson", 'rb')
stream = KeyValueBSONInput(fh=f)
for dict_data in stream:
    print dict_data
f.close()

I see 25359 records which all seem to decode to something like:

{u'_id': ObjectId('5671bb2e111bb7b9a7ce4d9a'),
 u'address': {u'building': u'351',
              u'coord': [-73.98513559999999, 40.7676919],
              u'street': u'West   57 Street',
              u'zipcode': u'10019'},
 u'borough': u'Manhattan',
 u'cuisine': u'Irish',
 u'grades': [{u'date': datetime.datetime(2014, 9, 6, 0, 0),
              u'grade': u'A',
              u'score': 2},
             {u'date': datetime.datetime(2013, 7, 22, 0, 0),
              u'grade': u'A',
              u'score': 11},
             {u'date': datetime.datetime(2012, 7, 31, 0, 0),
              u'grade': u'A',
              u'score': 12},
             {u'date': datetime.datetime(2011, 12, 29, 0, 0),
              u'grade': u'A',
              u'score': 12}],
 u'name': u'Dj Reynolds Pub And Restaurant',
 u'restaurant_id': u'30191841'}

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