data-maker/finalize.py

#!/usr/bin/env python3
"""
This file will perform basic tasks to finalize the GAN process by performing the following :
    - basic stats & analytics
    - rebuild io to another dataset
"""
import pandas as pd
import numpy as np
from google.oauth2 import service_account
from google.cloud import bigquery as bq
from data.params import SYS_ARGS 
import json
class Analytics :
    """
    This class will compile basic analytics about a given dataset i.e compare original/synthetic
    """
    @staticmethod
    def distribution(**args):
        context = args['context']
        df = args['data']
        #
        #-- This data frame counts unique values for each feature (space)
        df_counts = pd.DataFrame(df.apply(lambda col: col.unique().size),columns=['counts']).T  # unique counts
        #
        #-- Get the distributions for common values
        #
        names   = [name for name in df_counts.columns.tolist() if name.endswith('_io') == False]
        ddf     = df.apply(lambda col: pd.DataFrame(col.values,columns=[col.name]).groupby([col.name]).size() ).fillna(0)
        ddf[context] = ddf.index
          
        pass
    def distance(**args):
        """
        This function will measure the distance between 
        """
        df      = args['data']
        names   = [name for name in df_counts.columns.tolist() if name.endswith('_io') == False]
class Utils :
    class get :
        @staticmethod
        def config(**args) :
            contexts    = args['contexts'].split(',') if type(args['contexts']) == str else args['contexts']
            pipeline    = args['pipeline']
            return [ item for item in pipeline if item['context'] in contexts]
        @staticmethod
        def sql(**args) :
            """
            This function is intended to build SQL query for the remainder of the table that was not synthesized
            :config configuration entries
            :from   source of the table name
            :dataset    name of the source dataset
            
            """
            SQL = ["SELECT * FROM :from "]
            SQL_FILTER = []
            NO_FILTERS_FOUND = True
            pipeline = Utils.get.config(**args)
            REVERSE_QUALIFIER = {'IN':'NOT IN','NOT IN':'IN','=':'<>','<>':'='}
            for item in pipeline :
                

                if 'filter' in item :
                    if NO_FILTERS_FOUND :
                        NO_FILTERS_FOUND = False
                        SQL  += ['WHERE']
                    #
                    # Let us load the filter in the SQL Query
                    FILTER = item['filter']
                    QUALIFIER = REVERSE_QUALIFIER[FILTER['qualifier'].upper()]
                    SQL_FILTER += [" ".join([FILTER['field'], QUALIFIER,'(',FILTER['value'],')']).replace(":dataset",args['dataset'])]
            src = ".".join([args['dataset'],args['from']])
            SQL += [" AND ".join(SQL_FILTER)]
            #
            # let's pull the field schemas out of the table definition
            #

            return " ".join(SQL).replace(":from",src)

        
def mk(**args) :
    dataset  = args['dataset']
    client  = args['client'] if 'client' in args else bq.Client.from_service_account_file(args['private_key'])
    #
    # let us see if we have a dataset handy here 
    #
    datasets = list(client.list_datasets())
    found = [item for item in datasets if item.dataset_id == dataset]
    
    if not found :

        return client.create_dataset(dataset)
    return found[0] 
        
def move (**args):
    """
    This function will move a table from the synthetic dataset into a designated location
    This is the simplest case for finalizing a synthetic data set
    :private_key        
    """
    private_key = args['private_key']
    client      = bq.Client.from_service_account_json(private_key)
    config      = Utils.get.config(**args)
    dataset     = args['dataset']
    if 'contexts' in args :
        SQL         = [ ''.join(["SELECT * FROM io.",item['context'],'_full_io']) for item in config]
        SQL         += [Utils.get.sql(**args)]
        SQL         =  ('\n UNION ALL \n'.join(SQL).replace(':dataset','io'))
    else:
        #
        # moving a table to a designated location
        tablename = args['from']
        SQL = "SELECT * FROM :dataset.:table".replace(":dataset",dataset).replace(":table",tablename)

    #
    # At this point we have gathered all the tables in the io folder and we should now see if we need to merge with the remainder from the original table
    #
    
    

    odataset    = mk(dataset=dataset+'_io',client=client)
    # SQL =       "SELECT * FROM io.:context_full_io".replace(':context',context)
    config = bq.QueryJobConfig()
    config.destination = client.dataset(odataset.dataset_id).table(args['from'])
    config.use_query_cache = True
    config.allow_large_results = True
    config.priority = 'INTERACTIVE'
    #
    #

    schema = client.get_table(client.dataset(args['dataset']).table(args['from'])).schema
    fields = [" ".join(["CAST (",item.name,"AS",item.field_type.replace("INTEGER","INT64").replace("FLOAT","FLOAT64"),") ",item.name]) for item in schema]
    SQL = SQL.replace("*"," , ".join(fields))
    # print (SQL)
    out = client.query(SQL,location='US',job_config=config)
    print ()
    return (out.job_id)
    
    


import pandas as pd
import numpy as np
from google.oauth2 import service_account
import json

# path = '../curation-prod.json'
# credentials = service_account.Credentials.from_service_account_file(path)
# df = pd.read_gbq("SELECT * FROM io.icd10_partial_io",credentials=credentials,dialect='standard')
filename = 'config.json' if 'config' not in SYS_ARGS else SYS_ARGS['config']
f = open(filename)
config = json.loads(f.read())
args = config['pipeline']
f.close()


if __name__ == '__main__' :
    """
    Usage :
        finalize --<move|stats> --contexts <c1,c2,...c3> --from <table>
    """
    if 'move' in SYS_ARGS :
        # table = SYS_ARGS['from']
        # args = dict(config,**{"private_key":"../curation-prod.json"})
        args = dict(args,**SYS_ARGS)        
        contexts = [item['context'] for item in config['pipeline'] if item['from'] == SYS_ARGS['from']]
        log = []
        if contexts :
            args['contexts'] = contexts
            log = move(**args)
            
        else:
            tables = args['from'].split(',')
            for name in tables :
                name = name.strip()
                args['from'] = name
                log += [move(**args)]
        print ("\n".join(log))
        
        
        
    else:
        print ("NOT YET READY !")