跨多处理 python 共享 pandas 数据框字典

Share a dictionary of pandas dataframe across multiprocessing python(跨多处理 python 共享 pandas 数据框字典)

问题描述

我有一本 python pandas 数据框字典.这本词典的总大小约为 2GB.但是，当我在 16 个多进程中共享它时(在子进程中我只读取 dict 的数据而不修改它)，它需要 32GB 内存.所以我想问一下我是否可以在不复制的情况下跨多处理共享这本字典.我试图将其转换为 manager.dict().但似乎时间太长了.实现这一目标的最标准方法是什么?谢谢.

I have a dictionary of python pandas dataframes. The total size of this dictionary is about 2GB. However, when I share it across 16 multiprocessing (in the subprocesses I only read the data of the dict without modifying it), it takes 32GB ram. So I would like to ask if it is possible for me to share this dictionary across multiprocessing without copying it. I tried to convert it to manager.dict(). But it seems it takes too long. What would be the most standard way to achieve this? Thank you.

推荐答案

我发现的最佳解决方案(它仅适用于某些类型的问题)是使用使用 Python 的 BaseManager 和 SyncManager 类的客户端/服务器设置.为此，您首先设置一个服务器，为数据提供代理类.

The best solution I've found (and it only works for some types of problems) is to use a client/server setup using Python's BaseManager and SyncManager classes. To do this you first setup a Server that serve's up a proxy class for the data.

DataServer.py

#!/usr/bin/python
from    multiprocessing.managers import SyncManager
import  numpy

# Global for storing the data to be served
gData = {}

# Proxy class to be shared with different processes
# Don't put big data in here since that will force it to be piped to the
# other process when instantiated there, instead just return a portion of
# the global data when requested.
class DataProxy(object):
    def __init__(self):
        pass

    def getData(self, key, default=None):
        global gData
        return gData.get(key, None)

if __name__ == '__main__':
    port  = 5000

    print 'Simulate loading some data'
    for i in xrange(1000):
        gData[i] = numpy.random.rand(1000)

    # Start the server on address(host,port)
    print 'Serving data. Press <ctrl>-c to stop.'
    class myManager(SyncManager): pass
    myManager.register('DataProxy', DataProxy)
    mgr = myManager(address=('', port), authkey='DataProxy01')
    server = mgr.get_server()
    server.serve_forever()

运行一次以上并让它继续运行.下面是您用来访问数据的客户端类.

Run the above once and leave it running. Below is the client class you use to access the data.

DataClient.py

from   multiprocessing.managers import BaseManager
import psutil   #3rd party module for process info (not strictly required)

# Grab the shared proxy class.  All methods in that class will be availble here
class DataClient(object):
    def __init__(self, port):
        assert self._checkForProcess('DataServer.py'), 'Must have DataServer running'
        class myManager(BaseManager): pass
        myManager.register('DataProxy')
        self.mgr = myManager(address=('localhost', port), authkey='DataProxy01')
        self.mgr.connect()
        self.proxy = self.mgr.DataProxy()

    # Verify the server is running (not required)
    @staticmethod
    def _checkForProcess(name):
        for proc in psutil.process_iter():
            if proc.name() == name:
                return True
        return False

下面是多处理的测试代码.

Below is the test code to try this with multiprocessing.

TestMP.py

#!/usr/bin/python
import time
import multiprocessing as mp
import numpy
from   DataClient import *    

# Confusing, but the "proxy" will be global to each subprocess, 
# it's not shared across all processes.
gProxy = None
gMode  = None
gDummy = None
def init(port, mode):
    global gProxy, gMode, gDummy
    gProxy  = DataClient(port).proxy
    gMode  = mode
    gDummy = numpy.random.rand(1000)  # Same as the dummy in the server
    #print 'Init proxy ', id(gProxy), 'in ', mp.current_process()

def worker(key):
    global gProxy, gMode, gDummy
    if 0 == gMode:   # get from proxy
        array = gProxy.getData(key)
    elif 1 == gMode: # bypass retrieve to test difference
        array = gDummy
    else: assert 0, 'unknown mode: %s' % gMode
    for i in range(1000):
        x = sum(array)
    return x    

if __name__ == '__main__':
    port   = 5000
    maxkey = 1000
    numpts = 100

    for mode in [1, 0]:
        for nprocs in [16, 1]:
            if 0==mode: print 'Using client/server and %d processes' % nprocs
            if 1==mode: print 'Using local data and %d processes' % nprocs                
            keys = [numpy.random.randint(0,maxkey) for k in xrange(numpts)]
            pool = mp.Pool(nprocs, initializer=init, initargs=(port,mode))
            start = time.time()
            ret_data = pool.map(worker, keys, chunksize=1)
            print '   took %4.3f seconds' % (time.time()-start)
            pool.close()

当我在我的机器上运行它时，我得到...

When I run this on my machine I get...

Using local data and 16 processes
   took 0.695 seconds
Using local data and 1 processes
   took 5.849 seconds
Using client/server and 16 processes
   took 0.811 seconds
Using client/server and 1 processes
   took 5.956 seconds

这是否适合您的多处理系统取决于获取数据的频率.每次传输都会产生少量开销.如果您减少 x=sum(array) 循环中的迭代次数，您可以看到这一点.在某些时候，您将花费更多时间获取数据而不是处理数据.

Whether this works for you in your multiprocessing system depends on how often have to grab the data. There's a small overhead associated with each transfer. You can see this if you turn down the number of iterations in the x=sum(array) loop. At some point you'll spend more time getting data than working on it.

除了多处理之外，我也喜欢这种模式，因为我只需在服务器程序中加载一次我的大数组数据，它会一直加载到我终止服务器为止.这意味着我可以针对数据运行一堆单独的脚本，并且它们可以快速执行；无需等待数据加载.

Besides multiprocessing, I also like this pattern because I only have to load my big array data once in the server program and it stays loaded until I kill the server. That means I can run a bunch of separate scripts against the data and they execute quickly; no waiting for data to load.

虽然这里的方法有点类似于使用数据库，但它的优势在于可以处理任何类型的 python 对象，而不仅仅是字符串和整数等简单的 DB 表.我发现使用 DB 是一种对于那些简单的类型来说要快一些，但对我来说，它往往更多地以编程方式工作，而且我的数据并不总是很容易移植到数据库中.

While the approach here is somewhat similar to using a database, it has the advantage of working on any type of python object, not just simple DB tables of strings and ints, etc. I've found that using a DB is a bit faster for those simple types but for me, it tends to be more work programatically and my data doesn't always port over easily to a database.

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