data-maker/data/maker/__init__.py

"""
(c) 2019 Data Maker, hiplab.mc.vanderbilt.edu
version 1.0.0

This package serves as a proxy to the overall usage of the framework.
This package is designed to generate synthetic data from a dataset from an original dataset using deep learning techniques

@TODO:
    - Make configurable GPU, EPOCHS
"""
import pandas as pd
import numpy as np
import data.gan as gan
import transport
# from data.bridge import Binary
import threading
from data.maker import prepare
import copy
import os
import nujson as json
from multiprocessing import Process, RLock
from datetime import datetime, timedelta
from multiprocessing import Queue

import time


class Learner(Process):

    def __init__(self,**_args):
        
        
        super(Learner, self).__init__() 
        self.ndx = 0
        self._queue = Queue()
        self.lock = RLock()
        if 'gpu' in _args :
            
            os.environ['CUDA_VISIBLE_DEVICES'] = str(_args['gpu'])
            self.gpu = int(_args['gpu'])
        else:
            self.gpu = None
        
        self.info = _args['info']
        self.columns    = self.info['columns'] if 'columns' in self.info else None
        self.store      = _args['store']
        
        if 'network_args' not in _args :
            self.network_args ={
                'context':self.info['context'] ,
                'logs':_args['logpath'] if 'logpath' in _args else 'logs',
                'max_epochs':int(_args['epochs']) if 'epochs' in _args else 2,
                'batch_size':int (_args['batch']) if 'batch' in _args else 2000
            }
        else:
            self.network_args = _args['network_args']
        self._encoder = None
        self._map = None
        self._df = _args['data'] if 'data' in _args else None
        
        self.name   =  self.__class__.__name__
        
        #
        # @TODO: allow for verbose mode so we have a sens of what is going on within the newtork
        #
        
        _log = {'action':'init','gpu':(self.gpu if self.gpu is not None else -1)}
        self.log(**_log)
        self.cache = []
        # self.logpath= _args['logpath'] if 'logpath' in _args else 'logs'
        # sel.max_epoc
        self.logger = None
        if 'logger' in self.store :
            self.logger = transport.factory.instance(**self.store['logger'])
    def log(self,**_args):
        
        try:
            _context = self.info['context']
            _label = self.info['info'] if 'info' in self.info else _context
            # logger = 
            _args = dict({'ndx':self.ndx,'module':self.name,'table':self.info['from'],'context':_context,'info':_label,**_args})
            if 'logger' in self.store :
                logger = transport.factory.instance(**self.store['logger']) if 'logger' in self.store else transport.factory.instance(provider=transport.providers.CONSOLE,context='write',lock=True)
                logger.write(_args)
            self.ndx += 1
            # if hasattr(logger,'close') :
            #     logger.close()
            pass
        except Exception as e:
            # print ()
            # print (_args)
            # print (e)
            pass
        finally:
           
            pass
    def get_schema(self):
        # if self.store['source']['provider'] != 'bigquery' :
        #     return [] #{'name':self._df.dtypes.index.tolist()[i],'type':self._df.dtypes.astype(str).tolist()[i]}for i in range(self._df.dtypes.shape[0])]
        # else:
        #     reader  = transport.factory.instance(**self.store['source'])
        #     return reader.meta(table=self.info['from'])
        reader  = transport.factory.instance(**self.store['source'])
        return reader.meta(table=self.info['from'])

    def initalize(self):
        reader  = transport.factory.instance(**self.store['source'])
        _read_args= self.info
        if self._df is None :
            self._df     = reader.read(**_read_args)
        columns = self.columns if self.columns else self._df.columns
        #
        # Below is a source of inefficiency, unfortunately python's type inference doesn't work well in certain cases
        # - The code below tries to address the issue (Perhaps better suited for the reading components)
        _log = {}
        for name in columns :
            #
            # randomly sampling 5 elements to make sense of data-types
            if self._df[name].size < 5 :
                continue
            _index = np.random.choice(np.arange(self._df[name].size),5,False)
            no_value = [type(value) in [int,float,np.int64,np.int32,np.float32,np.float64] for value in self._df[name].values[_index]]            
            no_value = 0 if np.sum(no_value) > 0 else ''
            try:
                self._df[name] = self._df[name].fillna(no_value)
            finally:
                pass
            
            _log[name] = self._df[name].dtypes.name
        _log = {'action':'structure','input':_log}
        self.log(**_log)
        #
        # convert the data to binary here ...
        _schema = self.get_schema()       
        _args = {"schema":_schema,"data":self._df,"columns":columns}
        if self._map :
            _args['map'] = self._map
        self._encoder = prepare.Input(**_args)  if self._df.shape[0] > 0 else None             
        _log = {'action':'data-prep','input':{'rows':int(self._df.shape[0]),'cols':int(self._df.shape[1]) } }
        self.log(**_log)
    def get(self):
        
        if self.cache :
            return self.cache if len(self.cache) > 0 else(self.cache if not self.cache else self.cache[0])
        else:
            return self._queue.get() if self._queue.qsize() >  0 else []
         
    def listen(self):
        while True :
            _info = self._queue.get()
            self.cache.append(_info)
            self._queue.task_done()
    def publish(self,caller):
        if hasattr(caller,'_queue') :           
            _queue = caller._queue
            _queue.put(self.cache)
            
            # _queue.join()
        pass
class Trainer(Learner):
    """
    This will perform training using a GAN
    """
    def __init__(self,**_args):
        super().__init__(**_args)
        # self.info   = _args['info']
        self.limit  = int(_args['limit']) if 'limit' in _args else None
        
        self.autopilot = _args['autopilot'] if 'autopilot' in _args else False
        self.generate = None
        self.candidates = int(_args['candidates']) if 'candidates' in _args else 1

    def run(self):
        self.initalize()
        if self._encoder is None :
            #
            # @TODO Log that the dataset was empty or not statistically relevant
            return 
        _space,_matrix = self._encoder.convert()
        
        _args   = self.network_args
        if self.gpu :
            _args['gpu'] = self.gpu
        _args['real'] = _matrix
        _args['candidates'] = self.candidates
        if 'logger' in self.store :
            _args['logger'] = transport.factory.instance(**self.store['logger'])
        #
        # At this point we have the binary matrix, we can initiate training
        #
        beg = datetime.now() #.strftime('%Y-%m-%d %H:%M:%S')
        gTrain = gan.Train(**_args)
        gTrain.apply()
       
        writer = transport.factory.instance(provider=transport.providers.FILE,context='write',path=os.sep.join([gTrain.out_dir,'map.json']))
        
        writer.write(self._encoder._map,overwrite=True)
        writer.close()

        #
        # @TODO: At this point we need to generate another some other objects
        #
        _args = {"network_args":self.network_args,"store":self.store,"info":self.info,"candidates":self.candidates,"data":self._df}
        if self.gpu :
            _args['gpu'] = self.gpu
        g = Generator(**_args)
        # g.run() 
        
        end = datetime.now() #.strftime('%Y-%m-%d %H:%M:%S')
        _min = float((end-beg).seconds/ 60)
        _logs = {'action':'train','input':{'start':beg.strftime('%Y-%m-%d %H:%M:%S'),'minutes':_min,"unique_counts":self._encoder._io[0]}}
        self.log(**_logs)
        self._g = g
        if self.autopilot :            
            self._g.run()   
            #
            #@TODO Find a way to have the data in the object ....

   
   
    def generate (self):
        if self.autopilot :
            print( "Autopilot is set ... No need to call this function")
        else:
            raise Exception( "Autopilot has not been, Wait till training is finished. Use is_alive function on process object")

class Generator (Learner):
    def __init__(self,**_args):
        super().__init__(**_args)
        #
        # We need to load the mapping information for the space we are working with ...
        #
        self.network_args['candidates'] = int(_args['candidates']) if 'candidates' in _args else 1
        filename = os.sep.join([self.network_args['logs'],'output',self.network_args['context'],'map.json'])
        self.log(**{'action':'init-map','input':{'filename':filename,'exists':os.path.exists(filename)}})
        if os.path.exists(filename):
            file = open(filename)
            self._map = json.loads(file.read())
            file.close()
        else:
            self._map = {}
    def run(self):
        self.initalize()
        if self._encoder is None :
            #
            # @TODO Log that the dataset was empty or not statistically relevant
            return 
        
        #
        # The values will be returned because we have provided _map information from the constructor
        #

        values,_matrix = self._encoder.convert()
        _args = self.network_args
        _args['map'] = self._map
        _args['values'] = np.array(values)
        _args['row_count'] = self._df.shape[0]
        if self.gpu :
            _args['gpu'] = self.gpu
        if 'logger' in self.store :
            _args['logger'] = transport.factory.instance(**self.store['logger'])        
        gHandler = gan.Predict(**_args)
        gHandler.load_meta(columns=None)
        _iomatrix = gHandler.apply()        
        _candidates= [ self._encoder.revert(matrix=_item) for _item in _iomatrix]
        
        _size = np.sum([len(_item) for _item in _iomatrix])
        _log = {'action':'io-data','input':{'candidates':len(_candidates),'rows':int(_size)}}
        self.log(**_log)
        # self.cache = _candidates
        self.post(_candidates)
    def approximate(self,_df):
        _columns = self.info['approximate']
 
        for name in _columns :
            if _df[name].size > 100 :
                BATCH_SIZE = 10
                
            else:
                BATCH_SIZE = 1
            batches = np.array_split(_df[name].fillna(np.nan).values,BATCH_SIZE)
            _type = np.int64 if 'int' in self.info['approximate'][name]else np.float64
            x = []
            _log = {'action':'approximate','input':{'batch':BATCH_SIZE,'col':name}}
            for values in batches :
               
                index = [ _x not in ['',None,np.nan] for _x in values]
                
                if np.sum(index) == 0:
                    #
                    # Sometimes messy data has unpleasant surprises
                    continue
                
                _values = np.random.rand( len(values[index]))   
                _values += np.std(values[index]) / 4
                
                values[index] = list(values[index] + _values )if np.random.randint(0,2) else list(values[index] - _values)
                values[index] = values[index].astype(_type)
                x += values.tolist()
            
            if x :   
                _log['input']['identical_percentage'] = 100 * (np.divide( (_df[name].dropna() == x).sum(),_df[name].dropna().size))
               
                _df[name] = x  #np.array(x,dtype=np.int64) if 'int' in _type  else np.arry(x,dtype=np.float64)
                self.log(**_log)
        return _df
    def make_date(self,**_args) :
        """
        :param year  initial value        
        """
        if _args['year'] in ['',None,np.nan] :
            return None
        year = int(_args['year'])
        
        offset = _args['offset'] if 'offset' in _args else 0
        month   = np.random.randint(1,13)
        if month == 2:
            _end = 28 if year % 4 != 0 else 29
        else:
            _end = 31 if month in [1,3,5,7,8,10,12] else 30
        day = np.random.randint(1,_end)

        #-- synthetic date
        _date = datetime(year=year,month=month,day=day,minute=0,hour=0,second=0)
        FORMAT =  '%Y-%m-%d'
        _name = _args['field'] if 'field' in _args else None
        if 'format' in self.info and _name in self.info['format']:
            # _name = _args['field']
            FORMAT = self.info['format'][_name]
        

        # print ([_name,FORMAT, _date.strftime(FORMAT)])
        r = []
        if offset :
            r = [_date.strftime(FORMAT)]
            for _delta in offset :
                _date = _date + timedelta(_delta)
                r.append(_date.strptime(FORMAT))
            return r
        else:
            return _date.strftime(FORMAT)

        pass
    def format(self,_df,_schema):
        r = {}
        
        for _item in _schema :
            name = _item['name']
            
            if _item['type'].upper() in ['DATE','DATETIME','TIMESTAMP'] :
                FORMAT = '%Y-%m-%d'
                
                try:
                    #
                    #-- Sometimes data isn't all it's meant to be
                    SIZE = -1
                    if 'format' in self.info and name in self.info['format'] :
                        FORMAT = self.info['format'][name]
                        SIZE = 10
                    elif _item['type'] in ['DATETIME','TIMESTAMP'] :
                            FORMAT = '%Y-%m-%-d %H:%M:%S'
                            SIZE = 19
                    
                    if SIZE > 0 :
                        
                        values = pd.to_datetime(_df[name], format=FORMAT).astype(np.datetime64)
                        # _df[name] = [_date[:SIZE].strip() for _date in values]
                        
                       
                    # _df[name] = _df[name].astype(str)
                    r[name] = FORMAT
                    # _df[name] = pd.to_datetime(_df[name], format=FORMAT) #.astype('datetime64[ns]')
                    if _item['type'] in ['DATETIME','TIMESTAMP']:                   
                        pass #;_df[name] = _df[name].fillna('').astype('datetime64[ns]')
                    
                except Exception as e:
                    pass
                finally:
                    pass
            else:
                
                #
                # Because types are inferred on the basis of the sample being processed they can sometimes be wrong
                #   To help disambiguate we add the schema information
                _type = None
                
                if 'int' in _df[name].dtypes.name or 'int' in _item['type'].lower():                    
                    _type = np.int
                    
                elif 'float' in _df[name].dtypes.name or 'float' in _item['type'].lower():
                    _type = np.float
                if _type :
                    
                    _df[name] = _df[name].fillna(0).replace(' ',0).replace('',0).replace('NA',0).replace('nan',0).astype(_type)
                # else:
                #     _df[name] = _df[name].astype(str)
        # _df = _df.replace('NaT','').replace('NA','')
        
        if r :
            self.log(**{'action':'format','input':r})
        return _df

        pass
    def post(self,_candidates):
        
        if 'target'  in self.store :
            _store = self.store['target'] if 'target' in self.store else {'provider':'console'}
            _store['lock'] = True
            _store['context'] = 'write' #-- Just in case
            if 'table' not in _store :
                _store['table'] = self.info['from']
        else:
            _store = None
        N = 0
        for _iodf in _candidates :
            _df = self._df.copy()
            _df[self.columns] = _iodf[self.columns]
            N += _df.shape[0]
            #
            #@TODO:
            # Improve formatting with better post-processing pipeline
            if 'approximate' in self.info :                
                _df = self.approximate(_df)
            if 'make_date' in self.info :
                for name in self.info['make_date'] :
                    # iname = self.info['make_date']['init_field']
                    iname = self.info['make_date'][name]

                    years = _df[iname]
                    _dates = [self.make_date(year=_year,field=name) for _year in years]
                    if _dates :                         
                        _df[name] = _dates
                        
                        
           
            _schema = self.get_schema()
            # _schema = [{'name':_item.name,'type':_item.field_type} for _item in _schema]
            _df = self.format(_df,_schema)
            _log = [{"name":_schema[i]['name'],"dataframe":_df[_df.columns[i]].dtypes.name,"schema":_schema[i]['type']} for i in np.arange(len(_schema)) ]
            self.log(**{"action":"consolidate","input":_log})

            # w = transport.factory.instance(doc='observation',provider='mongodb',context='write',db='IOV01_LOGS',auth_file='/home/steve/dev/transport/mongo.json')
            # w.write(_df)
            # cols = [name for name in _df.columns if name.endswith('datetime')]
            # print (_df[cols])
            if _store :
                writer = transport.factory.instance(**_store)
                if _store['provider'] == 'bigquery':
                    writer.write(_df,schema=[],table=self.info['from'])
                else:
                    writer.write(_df,table=self.info['from'])
            else:
                self.cache.append(_df)
                
            

           
        
        self.log(**{'action':'write','input':{'rows':N,'candidates':len(_candidates)}})
class Shuffle(Generator):    
    """
    This is a method that will yield data with low utility
    """
    def __init__(self,**_args):
        super().__init__(**_args)
    def run(self):
        
        np.random.seed(1)
        self.initalize()
        _index = np.arange(self._df.shape[0])
        np.random.shuffle(_index)
        np.random.shuffle(_index)
        _iocolumns = self.info['columns']
        _ocolumns = list(set(self._df.columns) - set(_iocolumns) )
        # _iodf = pd.DataFrame(self._df[_ocolumns],self._df.loc[_index][_iocolumns],index=np.arange(_index.size))
        _iodf = pd.DataFrame(self._df[_iocolumns].copy(),index = np.arange(_index.size))
        # self._df = self._df.loc[_index][_ocolumns].join(_iodf)
        self._df = self._df.loc[_index][_ocolumns]
        self._df.index = np.arange(self._df.shape[0])
        self._df = self._df.join(_iodf)
        #
        # The following is a full shuffle 
        self._df = self._df.loc[_index]
        self._df.index = np.arange(self._df.shape[0])
        
        
        _log = {'action':'io-data','input':{'candidates':1,'rows':int(self._df.shape[0])}}
        self.log(**_log)
        try:
            self.post([self._df])
            self.log(**{'action':'completed','input':{'candidates':1,'rows':int(self._df.shape[0])}})
        except Exception as e :
            # print (e)
            self.log(**{'action':'failed','input':{'msg':e,'info':self.info}})
class apply :
    TRAIN,GENERATE,RANDOM = 'train','generate','random'
class factory :
    _infocache = {}
    @staticmethod
    def instance(**_args):
        """
        An instance of an object that trains and generates candidate datasets
        :param gpu (optional)         index of the gpu to be used if using one
        :param store                  {source,target} if no target is provided console will be output
        :param epochs (default 2)     number of epochs to train
        :param candidates(default 1)  number of candidates to generate
        :param info             {columns,sql,from}
        :param autopilot        will generate output automatically
        :param batch (default 2k)           size of the batch
        """
        
        if _args['apply'] in [apply.RANDOM] :
            pthread =  Shuffle(**_args)
        elif _args['apply'] == apply.GENERATE :
            pthread =  Generator(**_args)
        else:
            pthread= Trainer(**_args)
        if 'start' in _args and _args['start'] == True :
            pthread.start()
        return pthread