hiplab/data-transport
hiplab
/
data-transport
mirror of https://github.com/lnyemba/data-transport
1
1
Fork 0
Code Issues Packages Projects Releases Wiki Activity

refactor: factory, etl, fixes: session

This commit is contained in:
Steve Nyemba 2023-09-29 20:27:53 -05:00
parent 324d81bd16
commit 3f7f3d7306
10 changed files with 605 additions and 355 deletions
Show Stats Download Patch File Download Diff File Expand all files Collapse all files

174
bin/transport
View File

@ -14,19 +14,27 @@ THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR IMPLI
Usage :
transport --config <path-to-file.json> --procs <number-procs>
@TODO: Create tables if they don't exist for relational databases
example of configuration :
transport help -- will print this page
1. Move data from a folder to a data-store
transport [--folder <path> ] --config <config.json> #-- assuming the configuration doesn't have folder
transport --folder <path> --provider <postgresql|mongo|sqlite> --<database|db> <name> --table|doc <document_name>
In this case the configuration should look like :
{folder:..., target:{}}
2. Move data from one source to another
transport --config <file.json>
{source:{..},target:{..}} or [{source:{..},target:{..}},{source:{..},target:{..}}]
transport move <path> [index]
<path> path to the configuration file
<index> optional index within the configuration file
e.g: configuration file (JSON formatted)
- single source to a single target
{"source":{"provider":"http","url":"https://cdn.wsform.com/wp-content/uploads/2020/06/agreement.csv"}
"target":{"provider":"sqlite3","path":"transport-demo.sqlite","table":"agreement"}
}
- single source to multiple targets
{
"source":{"provider":"http","url":"https://cdn.wsform.com/wp-content/uploads/2020/06/agreement.csv"},
"target":[
{"provider":"sqlite3","path":"transport-demo.sqlite","table":"agreement},
{"provider":"mongodb","db":"transport-demo","collection":"agreement"}
]
}
"""
import pandas as pd
@ -36,51 +44,111 @@ import sys
import transport
import time
from multiprocessing import Process
SYS_ARGS = {}
if len(sys.argv) > 1:
import typer
import os
from transport import etl
from transport import providers
# SYS_ARGS = {}
# if len(sys.argv) > 1:
N = len(sys.argv)
for i in range(1,N):
value = None
if sys.argv[i].startswith('--'):
key = sys.argv[i][2:] #.replace('-','')
SYS_ARGS[key] = 1
if i + 1 < N:
value = sys.argv[i + 1] = sys.argv[i+1].strip()
if key and value and not value.startswith('--'):
SYS_ARGS[key] = value
# N = len(sys.argv)
# for i in range(1,N):
# value = None
# if sys.argv[i].startswith('--'):
# key = sys.argv[i][2:] #.replace('-','')
# SYS_ARGS[key] = 1
# if i + 1 < N:
# value = sys.argv[i + 1] = sys.argv[i+1].strip()
# if key and value and not value.startswith('--'):
# SYS_ARGS[key] = value
i += 2
# i += 2
if __name__ == '__main__' :
#
# Load information from the file ...
if 'help' in SYS_ARGS :
print (__doc__)
else:
try:
_info = json.loads(open(SYS_ARGS['config']).read())
if 'index' in SYS_ARGS :
_index = int(SYS_ARGS['index'])
_info = [_item for _item in _info if _info.index(_item) == _index]
pass
elif 'id' in SYS_ARGS :
_info = [_item for _item in _info if 'id' in _item and _item['id'] == SYS_ARGS['id']]
app = typer.Typer()
# @app.command()
def help() :
print (__doc__)
def wait(jobs):
while jobs :
jobs = [thread for thread in jobs if thread.is_alive()]
time.sleep(1)
@app.command()
def move (path,index=None):
_proxy = lambda _object: _object.write(_object.read())
if os.path.exists(path):
file = open(path)
_config = json.loads (file.read() )
file.close()
if index :
_config = _config[ int(index)]
etl.instance(**_config)
else:
etl.instance(_config)
#
# if type(_config) == dict :
# _object = transport.etl.instance(**_config)
# _proxy(_object)
# else:
# #
# # here we are dealing with a list of objects (long ass etl job)
# jobs = []
# failed = []
# for _args in _config :
# if index and _config.index(_args) != index :
# continue
# _object=transport.etl.instance(**_args)
# thread = Process(target=_proxy,args=(_object,))
# thread.start()
# jobs.append(thread())
# if _config.index(_args) == 0 :
# thread.join()
wait(jobs)
@app.command()
def generate (path:str):
__doc__="""
"""
_config = [{"source":{"provider":"http","url":"https://cdn.wsform.com/wp-content/uploads/2020/06/agreement.csv"},"target":{"provider":"file","path":"addresses.csv","delimiter":"csv"}}]
file = open(path,'w')
file.write(json.dumps(_config))
file.close()
# if __name__ == '__main__' :
# #
# # Load information from the file ...
# if 'help' in SYS_ARGS :
# print (__doc__)
# else:
# try:
# _info = json.loads(open(SYS_ARGS['config']).read())
# if 'index' in SYS_ARGS :
# _index = int(SYS_ARGS['index'])
# _info = [_item for _item in _info if _info.index(_item) == _index]
# pass
# elif 'id' in SYS_ARGS :
# _info = [_item for _item in _info if 'id' in _item and _item['id'] == SYS_ARGS['id']]
procs = 1 if 'procs' not in SYS_ARGS else int(SYS_ARGS['procs'])
jobs = transport.factory.instance(provider='etl',info=_info,procs=procs)
print ([len(jobs),' Jobs are running'])
N = len(jobs)
while jobs :
x = len(jobs)
jobs = [_job for _job in jobs if _job.is_alive()]
if x != len(jobs) :
print ([len(jobs),'... jobs still running'])
time.sleep(1)
print ([N,' Finished running'])
except Exception as e:
# procs = 1 if 'procs' not in SYS_ARGS else int(SYS_ARGS['procs'])
# jobs = transport.factory.instance(provider='etl',info=_info,procs=procs)
# print ([len(jobs),' Jobs are running'])
# N = len(jobs)
# while jobs :
# x = len(jobs)
# jobs = [_job for _job in jobs if _job.is_alive()]
# if x != len(jobs) :
# print ([len(jobs),'... jobs still running'])
# time.sleep(1)
# print ([N,' Finished running'])
# except Exception as e:
print (e)
# print (e)

2
setup.py
View File

@ -17,7 +17,7 @@ args = {
"license":"MIT",
"packages":["transport"]}
args["keywords"]=['mongodb','couchdb','rabbitmq','file','read','write','s3','sqlite']
args["install_requires"] = ['pymongo','sqlalchemy<2.0.0','pandas','pandas-gbq','numpy','cloudant','pika','nzpy','boto3','boto','pyarrow','google-cloud-bigquery','google-cloud-bigquery-storage','flask-session','smart_open','botocore','psycopg2-binary','mysql-connector-python']
args["install_requires"] = ['pymongo','sqlalchemy<2.0.0','pandas','typer','pandas-gbq','numpy','cloudant','pika','nzpy','boto3','boto','pyarrow','google-cloud-bigquery','google-cloud-bigquery-storage','flask-session','smart_open','botocore','psycopg2-binary','mysql-connector-python']
args["url"] = "https://healthcareio.the-phi.com/git/code/transport.git"
args['scripts'] = ['bin/transport']
if sys.version_info[0] == 2 :

113
transport/__init__.py
View File

@ -28,7 +28,7 @@ import importlib
import sys
import sqlalchemy
if sys.version_info[0] > 2 :
from transport.common import Reader, Writer,Console #, factory
# from transport.common import Reader, Writer,Console #, factory
from transport import disk
from transport import s3 as s3
@ -97,7 +97,7 @@ class factory :
TYPE = {"sql":{"providers":["postgresql","mysql","neteeza","bigquery","mariadb","redshift"]}}
PROVIDERS = {
"etl":{"class":{"read":etl.instance,"write":etl.instance}},
"console":{"class":{"write":Console,"read":Console}},
# "console":{"class":{"write":Console,"read":Console}},
"file":{"class":{"read":disk.DiskReader,"write":disk.DiskWriter}},
"sqlite":{"class":{"read":disk.SQLiteReader,"write":disk.SQLiteWriter}},
"postgresql":{"port":5432,"host":"localhost","database":None,"driver":pg,"default":{"type":"VARCHAR"},"class":{"read":sql.SQLReader,"write":sql.SQLWriter}},
@ -124,6 +124,9 @@ class factory :
#
# Legacy code being returned
return factory._instance(**_args);
else:
return instance(**_args)
@staticmethod
@ -175,22 +178,31 @@ def instance(**_pargs):
file.close()
_provider = _args['provider']
_group = None
_context = list( set(['read','write','listen']) & set(_args.keys()) )
if _context :
_context = _context[0]
else:
_context = _args['context'] if 'context' in _args else 'read'
# _group = None
for _id in providers.CATEGORIES :
if _provider in providers.CATEGORIES[_id] :
_group = _id
break
if _group :
# for _id in providers.CATEGORIES :
# if _provider in providers.CATEGORIES[_id] :
# _group = _id
# break
# if _group :
if _provider in providers.PROVIDERS and _context in providers.PROVIDERS[_provider]:
_classPointer = _getClassInstance(_group,**_args)
# _classPointer = _getClassInstance(_group,**_args)
_classPointer = providers.PROVIDERS[_provider][_context]
#
# Let us reformat the arguments
if 'read' in _args or 'write' in _args :
_args = _args['read'] if 'read' in _args else _args['write']
_args['provider'] = _provider
if _group == 'sql' :
# if 'read' in _args or 'write' in _args :
# _args = _args['read'] if 'read' in _args else _args['write']
# _args['provider'] = _provider
# if _group == 'sql' :
if _provider in providers.CATEGORIES['sql'] :
_info = _get_alchemyEngine(**_args)
_args = dict(_args,**_info)
@ -215,57 +227,68 @@ def _get_alchemyEngine(**_args):
This function returns the SQLAlchemy engine associated with parameters, This is only applicable for SQL _items
:_args arguments passed to the factory {provider and other}
"""
#@TODO: Enable authentication files (private_key)
_username = _args['username'] if 'username' in _args else ''
_password = _args['password'] if 'password' in _args else ''
_account = _args['account'] if 'account' in _args else ''
_database = _args['database']
_provider = _args['provider']
if _username != '':
_account = _username + ':'+_password+'@'
_host = _args['host'] if 'host' in _args else ''
_port = _args['port'] if 'port' in _args else ''
if _provider in providers.DEFAULT :
_default = providers.DEFAULT[_provider]
_host = _host if _host != '' else (_default['host'] if 'host' in _default else '')
_port = _port if _port != '' else (_default['port'] if 'port' in _default else '')
if _port == '':
_port = providers.DEFAULT['port'] if 'port' in providers.DEFAULT else ''
#
if _host != '' and _port != '' :
_fhost = _host+":"+str(_port) #--formatted hostname
_pargs = {}
if _provider == providers.SQLITE3 :
_path = _args['database'] if 'database' in _args else _args['path']
uri = ''.join([_provider,':///',_path])
else:
_fhost = _host
# Let us update the parameters we have thus far
#@TODO: Enable authentication files (private_key)
_username = _args['username'] if 'username' in _args else ''
_password = _args['password'] if 'password' in _args else ''
_account = _args['account'] if 'account' in _args else ''
_database = _args['database'] if 'database' in _args else _args['path']
if _username != '':
_account = _username + ':'+_password+'@'
_host = _args['host'] if 'host' in _args else ''
_port = _args['port'] if 'port' in _args else ''
if _provider in providers.DEFAULT :
_default = providers.DEFAULT[_provider]
_host = _host if _host != '' else (_default['host'] if 'host' in _default else '')
_port = _port if _port != '' else (_default['port'] if 'port' in _default else '')
if _port == '':
_port = providers.DEFAULT['port'] if 'port' in providers.DEFAULT else ''
#
if _host != '' and _port != '' :
_fhost = _host+":"+str(_port) #--formatted hostname
else:
_fhost = _host
# Let us update the parameters we have thus far
#
uri = ''.join([_provider,"://",_account,_fhost,'/',_database])
uri = ''.join([_provider,"://",_account,_fhost,'/',_database])
_pargs = {'host':_host,'port':_port,'username':_username,'password':_password}
_engine = sqlalchemy.create_engine (uri,future=True)
_out = {'sqlalchemy':_engine}
_pargs = {'host':_host,'port':_port,'username':_username,'password':_password}
for key in _pargs :
if _pargs[key] != '' :
_out[key] = _pargs[key]
return _out
@DeprecationWarning
def _getClassInstance(_group,**_args):
"""
This function returns the class instance we are attempting to instanciate
:_group items in providers.CATEGORIES.keys()
:_args arguments passed to the factory class
"""
if 'read' in _args or 'write' in _args :
_context = 'read' if 'read' in _args else _args['write']
_info = _args[_context]
else:
_context = _args['context'] if 'context' in _args else 'read'
_class = providers.READ[_group] if _context == 'read' else providers.WRITE[_group]
if type(_class) == dict and _args['provider'] in _class:
_class = _class[_args['provider']]
# if 'read' in _args or 'write' in _args :
# _context = 'read' if 'read' in _args else _args['write']
# _info = _args[_context]
# else:
# _context = _args['context'] if 'context' in _args else 'read'
# _class = providers.READ[_group] if _context == 'read' else providers.WRITE[_group]
# if type(_class) == dict and _args['provider'] in _class:
# _class = _class[_args['provider']]
return _class
# return _class
@DeprecationWarning
def __instance(**_args):
"""

46
transport/common.py
View File

@ -93,29 +93,29 @@ class ReadWriter(Reader,Writer) :
This class implements the read/write functions aggregated
"""
pass
class Console(Writer):
lock = RLock()
def __init__(self,**_args):
self.lock = _args['lock'] if 'lock' in _args else False
self.info = self.write
self.debug = self.write
self.log = self.write
pass
def write (self,logs=None,**_args):
if self.lock :
Console.lock.acquire()
try:
_params = _args if logs is None and _args else logs
if type(_params) == list:
for row in _params :
print (row)
else:
print (_params)
except Exception as e :
print (e)
finally:
if self.lock :
Console.lock.release()
# class Console(Writer):
# lock = RLock()
# def __init__(self,**_args):
# self.lock = _args['lock'] if 'lock' in _args else False
# self.info = self.write
# self.debug = self.write
# self.log = self.write
# pass
# def write (self,logs=None,**_args):
# if self.lock :
# Console.lock.acquire()
# try:
# _params = _args if logs is None and _args else logs
# if type(_params) == list:
# for row in _params :
# print (row)
# else:
# print (_params)
# except Exception as e :
# print (e)
# finally:
# if self.lock :
# Console.lock.release()
"""

463
transport/etl.py
View File

@ -35,6 +35,9 @@ import json
import sys
import transport
import time
import os
from multiprocessing import Process
SYS_ARGS = {}
if len(sys.argv) > 1:
@ -52,199 +55,301 @@ if len(sys.argv) > 1:
i += 2
class Post(Process):
def __init__(self,**args):
super().__init__()
self.store = args['target']
if 'provider' not in args['target'] :
pass
self.PROVIDER = args['target']['type']
# self.writer = transport.factory.instance(**args['target'])
else:
self.PROVIDER = args['target']['provider']
self.store['context'] = 'write'
# self.store = args['target']
self.store['lock'] = True
# self.writer = transport.instance(**args['target'])
#
# If the table doesn't exists maybe create it ?
#
self.rows = args['rows']
# self.rows = args['rows'].fillna('')
def log(self,**_args) :
if ETL.logger :
ETL.logger.info(**_args)
def run(self):
_info = {"values":self.rows} if 'couch' in self.PROVIDER else self.rows
writer = transport.factory.instance(**self.store)
writer.write(_info)
writer.close()
class ETL (Process):
logger = None
class Transporter(Process):
"""
The transporter (Jason Stathem) moves data from one persistant store to another
- callback functions
:onFinish callback function when finished
:onError callback function when an error occurs
:source source data specification
:target destination(s) to move the data to
"""
def __init__(self,**_args):
super().__init__()
self.name = _args['id'] if 'id' in _args else 'UNREGISTERED'
# if 'provider' not in _args['source'] :
# #@deprecate
# self.reader = transport.factory.instance(**_args['source'])
# else:
# #
# # This is the new interface
# _args['source']['context'] = 'read'
# self.reader = transport.instance(**_args['source'])
#
# do we have an sql query provided or not ....
# self.sql = _args['source']['sql'] if 'sql' in _args['source'] else None
# self.cmd = _args['source']['cmd'] if 'cmd' in _args['source'] else None
# self._oargs = _args['target'] #transport.factory.instance(**_args['target'])
self._source = _args ['source']
# self.onfinish = _args['onFinish']
# self._onerror = _args['onError']
self._source = _args['source']
self._target = _args['target']
self._source['context'] = 'read'
self._target['context'] = 'write'
#
# Let's insure we can support multiple targets
self._target = [self._target] if type(self._target) != list else self._target
self.JOB_COUNT = _args['jobs']
self.jobs = []
# self.logger = transport.factory.instance(**_args['logger'])
def log(self,**_args) :
if ETL.logger :
ETL.logger.info(**_args)
pass
def read(self,**_args):
"""
This function
"""
_reader = transport.factory.instance(**self._source)
#
# If arguments are provided then a query is to be executed (not just a table dump)
return _reader.read() if 'args' not in self._source else _reader.read(**self._source['args'])
def run(self):
# if self.cmd :
# idf = self.reader.read(**self.cmd)
# else:
# idf = self.reader.read()
# idf = pd.DataFrame(idf)
# # idf = idf.replace({np.nan: None}, inplace = True)
def _delegate_write(self,_data,**_args):
"""
This function will write a data-frame to a designated data-store, The function is built around a delegation design pattern
:data data-frame or object to be written
"""
for _target in self._target :
if 'write' not in _target :
_target['context'] = 'write'
_target['lock'] = True
else:
_target['write']['lock'] = True
_writer = transport.factory.instance(**_target)
_writer.write(_data,**_args)
if hasattr(_writer,'close') :
_writer.close()
def write(self,_df,**_args):
"""
"""
SEGMENT_COUNT = 6
MAX_ROWS = 1000000
# _df = self.read()
_segments = np.array_split(np.range(_df.shape[0]),SEGMENT_COUNT) if _df.shape[0] > MAX_ROWS else np.array( [np.arange(_df.shape[0])])
# _index = 0
for _indexes in _segments :
_fwd_args = {} if not _args else _args
self._delegate_write(_df.iloc[_indexes],**_fwd_args)
#
# @TODO: Perhaps consider writing up each segment in a thread/process (speeds things up?)
pass
# idf.columns = [str(name).replace("b'",'').replace("'","").strip() for name in idf.columns.tolist()]
# self.log(rows=idf.shape[0],cols=idf.shape[1],jobs=self.JOB_COUNT)
def instance(**_args):
_proxy = lambda _agent: _agent.write(_agent.read())
if 'source' in _args and 'target' in _args :
_agent = Transporter(**_args)
_proxy(_agent)
else:
_config = _args['config']
_items = [Transporter(**_item) for _item in _config ]
_MAX_JOBS = 5
_items = np.array_split(_items,_MAX_JOBS)
for _batch in _items :
jobs = []
for _item in _batch :
thread = Process(target=_proxy,args = (_item,))
thread.start()
jobs.append(thread)
while jobs :
jobs = [thread for thread in jobs if thread.is_alive()]
time.sleep(1)
pass
# class Post(Process):
# def __init__(self,**args):
# super().__init__()
# self.store = args['target']
# if 'provider' not in args['target'] :
# pass
# self.PROVIDER = args['target']['type']
# # self.writer = transport.factory.instance(**args['target'])
# else:
# self.PROVIDER = args['target']['provider']
# self.store['context'] = 'write'
# # self.store = args['target']
# self.store['lock'] = True
# # self.writer = transport.instance(**args['target'])
# #
# # If the table doesn't exists maybe create it ?
# #
# self.rows = args['rows']
# # self.rows = args['rows'].fillna('')
# def log(self,**_args) :
# if ETL.logger :
# ETL.logger.info(**_args)
# def run(self):
# _info = {"values":self.rows} if 'couch' in self.PROVIDER else self.rows
# writer = transport.factory.instance(**self.store)
# writer.write(_info)
# writer.close()
#
# writing the data to a designated data source
#
try:
# class ETL (Process):
# logger = None
# def __init__(self,**_args):
# super().__init__()
# self.name = _args['id'] if 'id' in _args else 'UNREGISTERED'
# # if 'provider' not in _args['source'] :
# # #@deprecate
# # self.reader = transport.factory.instance(**_args['source'])
# # else:
# # #
# # # This is the new interface
# # _args['source']['context'] = 'read'
# # self.reader = transport.instance(**_args['source'])
# #
# # do we have an sql query provided or not ....
# # self.sql = _args['source']['sql'] if 'sql' in _args['source'] else None
# # self.cmd = _args['source']['cmd'] if 'cmd' in _args['source'] else None
# # self._oargs = _args['target'] #transport.factory.instance(**_args['target'])
# self._source = _args ['source']
# self._target = _args['target']
# self._source['context'] = 'read'
# self._target['context'] = 'write'
# self.JOB_COUNT = _args['jobs']
# self.jobs = []
# # self.logger = transport.factory.instance(**_args['logger'])
# def log(self,**_args) :
# if ETL.logger :
# ETL.logger.info(**_args)
# def run(self):
# # if self.cmd :
# # idf = self.reader.read(**self.cmd)
# # else:
# # idf = self.reader.read()
# # idf = pd.DataFrame(idf)
# # # idf = idf.replace({np.nan: None}, inplace = True)
# # idf.columns = [str(name).replace("b'",'').replace("'","").strip() for name in idf.columns.tolist()]
# # self.log(rows=idf.shape[0],cols=idf.shape[1],jobs=self.JOB_COUNT)
# #
# # writing the data to a designated data source
# #
# try:
_log = {"name":self.name,"rows":{"input":0,"output":0}}
_reader = transport.factory.instance(**self._source)
if 'table' in self._source :
_df = _reader.read()
else:
_df = _reader.read(**self._source['cmd'])
_log['rows']['input'] = _df.shape[0]
#
# Let's write the input data-frame to the target ...
_writer = transport.factory.instance(**self._target)
_writer.write(_df)
_log['rows']['output'] = _df.shape[0]
# _log = {"name":self.name,"rows":{"input":0,"output":0}}
# _reader = transport.factory.instance(**self._source)
# if 'table' in self._source :
# _df = _reader.read()
# else:
# _df = _reader.read(**self._source['cmd'])
# _log['rows']['input'] = _df.shape[0]
# #
# # Let's write the input data-frame to the target ...
# _writer = transport.factory.instance(**self._target)
# _writer.write(_df)
# _log['rows']['output'] = _df.shape[0]
# self.log(module='write',action='partitioning',jobs=self.JOB_COUNT)
# rows = np.array_split(np.arange(0,idf.shape[0]),self.JOB_COUNT)
# # self.log(module='write',action='partitioning',jobs=self.JOB_COUNT)
# # rows = np.array_split(np.arange(0,idf.shape[0]),self.JOB_COUNT)
# #
# # @TODO: locks
# for i in np.arange(self.JOB_COUNT) :
# # _id = ' '.join([str(i),' table ',self.name])
# indexes = rows[i]
# segment = idf.loc[indexes,:].copy() #.to_dict(orient='records')
# _name = "partition-"+str(i)
# if segment.shape[0] == 0 :
# continue
# # #
# # # @TODO: locks
# # for i in np.arange(self.JOB_COUNT) :
# # # _id = ' '.join([str(i),' table ',self.name])
# # indexes = rows[i]
# # segment = idf.loc[indexes,:].copy() #.to_dict(orient='records')
# # _name = "partition-"+str(i)
# # if segment.shape[0] == 0 :
# # continue
# proc = Post(target = self._oargs,rows = segment,name=_name)
# self.jobs.append(proc)
# proc.start()
# # proc = Post(target = self._oargs,rows = segment,name=_name)
# # self.jobs.append(proc)
# # proc.start()
# self.log(module='write',action='working',segment=str(self.name),table=self.name,rows=segment.shape[0])
# while self.jobs :
# jobs = [job for job in proc if job.is_alive()]
# time.sleep(1)
except Exception as e:
print (e)
self.log(**_log)
def is_done(self):
self.jobs = [proc for proc in self.jobs if proc.is_alive()]
return len(self.jobs) == 0
def instance(**_args):
"""
:path ,index, id
:param _info list of objects with {source,target}`
:param logger
"""
logger = _args['logger'] if 'logger' in _args else None
if 'path' in _args :
_info = json.loads((open(_args['path'])).read())
if 'index' in _args :
_index = int(_args['index'])
_info = _info[_index]
elif 'id' in _args :
_info = [_item for _item in _info if '_id' in _item and _item['id'] == _args['id']]
_info = _info[0] if _info else _info
else:
_info = _args['info']
# # self.log(module='write',action='working',segment=str(self.name),table=self.name,rows=segment.shape[0])
# # while self.jobs :
# # jobs = [job for job in proc if job.is_alive()]
# # time.sleep(1)
# except Exception as e:
# print (e)
# self.log(**_log)
# def is_done(self):
# self.jobs = [proc for proc in self.jobs if proc.is_alive()]
# return len(self.jobs) == 0
# def instance (**_args):
# """
# path to configuration file
# """
# _path = _args['path']
# _config = {}
# jobs = []
# if os.path.exists(_path) :
# file = open(_path)
# _config = json.loads(file.read())
# file.close()
# if _config and type
if logger and type(logger) != str:
ETL.logger = logger
elif logger == 'console':
ETL.logger = transport.factory.instance(provider='console',context='write',lock=True)
if type(_info) in [list,dict] :
_info = _info if type(_info) != dict else [_info]
#
# The assumption here is that the objects within the list are {source,target}
jobs = []
for _item in _info :
_item['jobs'] = 5 if 'procs' not in _args else int(_args['procs'])
_job = ETL(**_item)
_job.start()
jobs.append(_job)
return jobs
# def _instance(**_args):
# """
# :path ,index, id
# :param _info list of objects with {source,target}`
# :param logger
# """
# logger = _args['logger'] if 'logger' in _args else None
# if 'path' in _args :
# _info = json.loads((open(_args['path'])).read())
else:
return None
if __name__ == '__main__' :
_info = json.loads(open (SYS_ARGS['config']).read())
index = int(SYS_ARGS['index']) if 'index' in SYS_ARGS else None
procs = []
for _config in _info :
if 'source' in SYS_ARGS :
_config['source'] = {"type":"disk.DiskReader","args":{"path":SYS_ARGS['source'],"delimiter":","}}
_config['jobs'] = 3 if 'jobs' not in SYS_ARGS else int(SYS_ARGS['jobs'])
etl = ETL (**_config)
if index is None:
# if 'index' in _args :
# _index = int(_args['index'])
# _info = _info[_index]
etl.start()
procs.append(etl)
elif _info.index(_config) == index :
# elif 'id' in _args :
# _info = [_item for _item in _info if '_id' in _item and _item['id'] == _args['id']]
# _info = _info[0] if _info else _info
# else:
# _info = _args['info']
# if logger and type(logger) != str:
# ETL.logger = logger
# elif logger == 'console':
# ETL.logger = transport.factory.instance(provider='console',context='write',lock=True)
# if type(_info) in [list,dict] :
# _info = _info if type(_info) != dict else [_info]
# #
# # The assumption here is that the objects within the list are {source,target}
# jobs = []
# for _item in _info :
# print (_config)
procs = [etl]
etl.start()
break
#
#
N = len(procs)
while procs :
procs = [thread for thread in procs if not thread.is_done()]
if len(procs) < N :
print (["Finished ",(N-len(procs)), " remaining ", len(procs)])
N = len(procs)
time.sleep(1)
# print ("We're done !!")
# _item['jobs'] = 5 if 'procs' not in _args else int(_args['procs'])
# _job = ETL(**_item)
# _job.start()
# jobs.append(_job)
# return jobs
# else:
# return None
# if __name__ == '__main__' :
# _info = json.loads(open (SYS_ARGS['config']).read())
# index = int(SYS_ARGS['index']) if 'index' in SYS_ARGS else None
# procs = []
# for _config in _info :
# if 'source' in SYS_ARGS :
# _config['source'] = {"type":"disk.DiskReader","args":{"path":SYS_ARGS['source'],"delimiter":","}}
# _config['jobs'] = 3 if 'jobs' not in SYS_ARGS else int(SYS_ARGS['jobs'])
# etl = ETL (**_config)
# if index is None:
# etl.start()
# procs.append(etl)
# elif _info.index(_config) == index :
# # print (_config)
# procs = [etl]
# etl.start()
# break
# #
# #
# N = len(procs)
# while procs :
# procs = [thread for thread in procs if not thread.is_done()]
# if len(procs) < N :
# print (["Finished ",(N-len(procs)), " remaining ", len(procs)])
# N = len(procs)
# time.sleep(1)
# # print ("We're done !!")

33
transport/providers.py
View File

@ -1,4 +1,4 @@
from transport.common import Reader, Writer,Console #, factory
# from transport.common import Reader, Writer,Console #, factory
from transport import disk
import sqlite3
from transport import s3 as s3
@ -9,6 +9,7 @@ from transport import sql as sql
from transport import etl as etl
from transport import qlistener
from transport import bricks
from transport import session
import psycopg2 as pg
import mysql.connector as my
from google.cloud import bigquery as bq
@ -33,6 +34,8 @@ MARIADB = 'mariadb'
COUCHDB = 'couch'
CONSOLE = 'console'
ETL = 'etl'
#
# synonyms of the above
BQ = BIGQUERY
@ -54,13 +57,37 @@ CATEGORIES ={'sql':[NETEZZA,PG,MYSQL,REDSHIFT,SQLITE,MARIADB],'nosql':[MONGODB,C
READ = {'sql':sql.SQLReader,'nosql':{MONGODB:mongo.MongoReader,COUCHDB:couch.CouchReader},
'cloud':{BIGQUERY:sql.BigQueryReader,DATABRICKS:bricks.BricksReader},
'file':disk.DiskReader,'queue':{RABBIT:queue.QueueReader,QLISTENER:qlistener.qListener},
'cli':{CONSOLE:Console},'memory':{CONSOLE:Console}
# 'cli':{CONSOLE:Console},'memory':{CONSOLE:Console},'http':session.HttpReader
}
WRITE = {'sql':sql.SQLWriter,'nosql':{MONGODB:mongo.MongoWriter,COUCHDB:couch.CouchWriter},
'cloud':{BIGQUERY:sql.BigQueryWriter,DATABRICKS:bricks.BricksWriter},
'file':disk.DiskWriter,'queue':{RABBIT:queue.QueueWriter,QLISTENER:qlistener.qListener},'cli':{CONSOLE:Console},'memory':{CONSOLE:Console}
'file':disk.DiskWriter,'queue':{RABBIT:queue.QueueWriter,QLISTENER:qlistener.qListener},
# 'cli':{CONSOLE:Console},
# 'memory':{CONSOLE:Console}, 'http':session.HttpReader
}
# SQL_PROVIDERS = [POSTGRESQL,MYSQL,NETEZZA,MARIADB,SQLITE]
PROVIDERS = {
FILE:{'read':disk.DiskReader,'write':disk.DiskWriter},
SQLITE:{'read':disk.SQLiteReader,'write':disk.SQLiteWriter,'driver':sqlite3},
POSTGRESQL:{'read':sql.SQLReader,'write':sql.SQLWriter,'driver':pg,'default':{'host':'localhost','port':5432}},
NETEZZA:{'read':sql.SQLReader,'write':sql.SQLWriter,'driver':nz,'default':{'port':5480}},
REDSHIFT:{'read':sql.SQLReader,'write':sql.SQLWriter,'driver':pg,'default':{'host':'localhost','port':5432}},
RABBITMQ:{'read':queue.QueueReader,'writer':queue.QueueWriter,'context':queue.QueueListener,'default':{'host':'localhost','port':5432}},
MYSQL:{'read':sql.SQLReader,'write':sql.SQLWriter,'driver':my,'default':{'host':'localhost','port':3306}},
MARIADB:{'read':sql.SQLReader,'write':sql.SQLWriter,'driver':my,'default':{'host':'localhost','port':3306}},
S3:{'read':s3.s3Reader,'write':s3.s3Writer},
BIGQUERY:{'read':sql.BigQueryReader,'write':sql.BigQueryWriter},
QLISTENER:{'read':qlistener.qListener,'write':qlistener.qListener,'default':{'host':'localhost','port':5672}},
CONSOLE:{'read':qlistener.Console,"write":qlistener.Console},
HTTP:{'read':session.HttpReader,'write':session.HttpWriter},
DATABRICKS:{'read':bricks.BricksReader,'write':bricks.BricksWriter},
MONGODB:{'read':mongo.MongoReader,'write':mongo.MongoWriter,'default':{'port':27017,'host':'localhost'}},
COUCHDB:{'read':couch.CouchReader,'writer':couch.CouchWriter,'default':{'host':'localhost','port':5984}},
ETL :{'read':etl.Transporter,'write':etl.Transporter}
}
DEFAULT = {PG:{'host':'localhost','port':5432},MYSQL:{'host':'localhost','port':3306}}
DEFAULT[MONGODB] = {'port':27017,'host':'localhost'}
DEFAULT[REDSHIFT] = DEFAULT[PG]

5
transport/qlistener.py
View File

@ -40,3 +40,8 @@ class qListener :
_q = qListener._queue[_id]
_q.put(_data)
_q.join()
class Console (qListener):
def __init__(self,**_args):
super().__init__(callback=print)
# self.callback = print

100
transport/session.py
View File

@ -1,54 +1,60 @@
from flask import request, session
from datetime import datetime
import re
from common import Reader, Writer
from transport.common import Reader, Writer
import json
import requests
from io import StringIO
import pandas as pd
class HttpRequestReader(Reader):
class HttpReader(Reader):
"""
This class is designed to read data from an Http request file handler provided to us by flask
The file will be heald in memory and processed accordingly
NOTE: This is inefficient and can crash a micro-instance (becareful)
"""
def __init__(self,**params):
self.file_length = 0
try:
#self.file = params['file']
#self.file.seek(0, os.SEEK_END)
#self.file_length = self.file.tell()
#print 'size of file ',self.file_length
self.content = params['file'].readlines()
self.file_length = len(self.content)
except Exception as e:
print ("Error ... ",e)
pass
def __init__(self,**_args):
self._url = _args['url']
self._headers = None if 'headers' not in _args else _args['headers']
# def isready(self):
# return self.file_length > 0
def format(self,_response):
_mimetype= _response.headers['Content-Type']
if _mimetype == 'text/csv' or 'text/csv':
_content = _response.text
return pd.read_csv(StringIO(_content))
#
# @TODO: Add support for excel, JSON and other file formats that fit into a data-frame
#
def isready(self):
return self.file_length > 0
def read(self,size =-1):
i = 1
for row in self.content:
i += 1
if size == i:
break
yield row
return _response.text
def read(self,**_args):
if self._headers :
r = requests.get(self._url,headers = self._headers)
else:
r = requests.get(self._url,headers = self._headers)
return self.format(r)
class HttpSessionWriter(Writer):
class HttpWriter(Writer):
"""
This class is designed to write data to a session/cookie
This class is designed to submit data to an endpoint (url)
"""
def __init__(self,**params):
def __init__(self,**_args):
"""
@param key required session key
"""
self.session = params['queue']
self.session['sql'] = []
self.session['csv'] = []
self.tablename = re.sub('..+$','',params['filename'])
self.session['uid'] = params['uid']
self._url = _args['url']
self._name = _args['name']
self._method = 'post' if 'method' not in _args else _args['method']
# self.session = params['queue']
# self.session['sql'] = []
# self.session['csv'] = []
# self.tablename = re.sub('..+$','',params['filename'])
# self.session['uid'] = params['uid']
#self.xchar = params['xchar']
@ -57,10 +63,26 @@ class HttpSessionWriter(Writer):
return "".join(["INSERT INTO :table VALUES('",values,"');\n"]).replace(':table',self.tablename)
def isready(self):
return True
def write(self,**params):
label = params['label']
row = params ['row']
def write(self,_data,**_args):
#
#
_method = self._method if 'method' not in _args else _args['method']
_method = _method.lower()
_mimetype = 'text/csv'
if type(_data) == dict :
_mimetype = 'application/json'
_content = _data
else:
_content = _data.to_dict(orient='records')
_headers = {'Content-Type':_mimetype}
_pointer = getattr(requests,_method)
if label == 'usable':
self.session['csv'].append(self.format(row,','))
self.session['sql'].append(self.format_sql(row))
_pointer ({self._name:_content},headers=_headers)
# label = params['label']
# row = params ['row']
# if label == 'usable':
# self.session['csv'].append(self.format(row,','))
# self.session['sql'].append(self.format_sql(row))

22
transport/sql.py
View File

@ -291,17 +291,17 @@ class SQLWriter(SQLRW,Writer):
"""
# inspect = False if 'inspect' not in _args else _args['inspect']
# cast = False if 'cast' not in _args else _args['cast']
if not self.fields :
if type(info) == list :
_fields = info[0].keys()
elif type(info) == dict :
_fields = info.keys()
elif type(info) == pd.DataFrame :
_fields = info.columns.tolist()
# _fields = info.keys() if type(info) == dict else info[0].keys()
_fields = list (_fields)
self.init(_fields)
# if not self.fields :
# if type(info) == list :
# _fields = info[0].keys()
# elif type(info) == dict :
# _fields = info.keys()
# elif type(info) == pd.DataFrame :
# _fields = info.columns.tolist()
# # _fields = info.keys() if type(info) == dict else info[0].keys()
# # _fields = list (_fields)
# self.init(_fields)
try:
table = _args['table'] if 'table' in _args else self.table

2
transport/version.py
View File

@ -1,2 +1,2 @@
__author__ = 'The Phi Technology'
__version__= '1.8.6'
__version__= '1.9.0'