data-transport/transport/nosql/mongodb.py

"""
Data Transport - 1.0
Steve L. Nyemba, The Phi Technology LLC

This file is a wrapper around mongodb for reading/writing content against a mongodb server and executing views (mapreduce)
"""
from pymongo        import MongoClient
import bson
from bson.objectid  import ObjectId
from bson.binary    import Binary
# import nujson as json
from datetime import datetime
import pandas as pd
import numpy as np
            self.host = ':'.join([self.host,str(args['port'])])
        return p and q
    def setattr(self,key,value):
        _allowed = ['host','port','db','doc','collection','authSource','mechanism']
        if key in _allowed :
            setattr(self,key,value)
        pass
    def close(self):
        self.client.close()
    def meta(self,**_args):
        return []
class Reader(Mongo):
    """
    This class will read from a mongodb data store and return the content of a document (not a collection)
    """
    def __init__(self,**args):
        Mongo.__init__(self,**args)
    def read(self,**args):
        
        if 'mongo' in args or 'cmd' in args or 'pipeline' in args:
            #
            # @TODO:
            cmd = {}
            if 'aggregate' not in cmd and 'aggregate' not in args:
                cmd['aggregate'] = self.collection
            elif 'aggregate' in args :
                cmd['aggregate'] = args['aggregate']
            if 'pipeline' in args :
                cmd['pipeline']= args['pipeline']

            if 'pipeline' not in args or 'aggregate' not in cmd :
                cmd = args['mongo'] if 'mongo' in args else args['cmd']
            if "aggregate" in cmd :
                if "allowDiskUse" not in cmd :
                    cmd["allowDiskUse"] = True
                if "cursor" not in cmd :
                    cmd["cursor"] = {}
            r =  []
            out = self.db.command(cmd)
            #@TODO: consider using a yield (generator) works wonders
            while True :
                if 'values' in out :
                    r += out['values']
                if 'cursor' in out :
                    key = 'firstBatch' if 'firstBatch' in out['cursor'] else 'nextBatch'
                else:
                    key = 'n'
                if 'cursor' in out and out['cursor'][key] :
                    r += list(out['cursor'][key])
                elif key in out and out[key]:
                    r.append (out[key]) 
                    # yield out['cursor'][key]
                if key not in ['firstBatch','nextBatch'] or ('cursor' in out and out['cursor']['id']  == 0) :
                    break
                else:
                    out = self.db.command({"getMore":out['cursor']['id'],"collection":out['cursor']['ns'].split(".")[-1]}) 
                
                
            return pd.DataFrame(r)
        else:
            
            
            if 'table' in args  or 'collection' in args :
                if 'table' in args:
                    _uid = args['table']
                elif 'collection' in args :
                    _uid = args['collection']
                else:
                    _uid = self.collection 
            else:
                _uid = self.collection
            collection = self.db[_uid]                
            _filter = args['filter'] if 'filter' in args else {}
            _df =  pd.DataFrame(collection.find(_filter))
            columns = _df.columns.tolist()[1:]
            return _df[columns]
    def view(self,**args):
        """
        This function is designed to execute a view (map/reduce) operation
        """
        pass
class Writer(Mongo):
    """
    This class is designed to write to a mongodb collection within a database
    """
    def __init__(self,**args):
        Mongo.__init__(self,**args)
    def upload(self,**args) :
        """
        This function will upload a file to the current database (using GridFS)
        :param  data        binary stream/text to be stored
        :param  filename    filename to be used
        :param  encoding    content_encoding (default utf-8)
        
        """
        if 'encoding' not in args :
            args['encoding'] = 'utf-8'
        gfs = GridFS(self.db)
        gfs.put(**args)

    def archive(self):
        """
        This function will archive documents to the 
        """
        collection = self.db[self.collection]
        rows  = list(collection.find())
        for row in rows :
            if type(row['_id']) == ObjectId :
                row['_id'] = str(row['_id'])
        stream = Binary(json.dumps(collection,cls=IEncoder).encode())
        collection.delete_many({})
        now = "-".join([str(datetime.now().year()),str(datetime.now().month), str(datetime.now().day)])
        name = ".".join([self.collection,'archive',now])+".json"
        description = " ".join([self.collection,'archive',str(len(rows))])
        self.upload(filename=name,data=stream,description=description,content_type='application/json')
        # gfs = GridFS(self.db)
        # gfs.put(filename=name,description=description,data=stream,encoding='utf-8')
        # self.write({{"filename":name,"file":stream,"description":descriptions}})
        
            
        pass
    
    def write(self,info,**_args):
        """
        This function will write to a given collection i.e add a record to a collection (no updates)
        @param info new record in the collection to be added
        """
        # document  = self.db[self.collection].find()
        #collection = self.db[self.collection]
        # if type(info) == list :
        #     self.db[self.collection].insert_many(info)
        # else:
        try:
            if 'table' in _args or 'collection' in _args :
                _uid = _args['table'] if 'table' in _args else _args['collection']
            else:
                _uid = self.collection if 'doc' not in _args else _args['doc']
            if self._lock :
                Mongo.lock.acquire()