使用Numpy,Numba,Cython等提高Python操作的性能

时间:2017-02-03 09:50:11

标签: python numpy optimization

我正在运行一个模拟,它有两个方法,每次迭代都会调用模拟并占用大部分计算时间。

方法是:

def calculate_macrovars(f, n, ns, ex, ey, dens, velx, vely):
    fd = f[:,2:n+2,2:n+2]
    dens[:,:] = fd[0,:,:]
    velx[:,:] = 0.
    vely[:,:] = 0.
    for s in range(1,ns):
        fds = fd[s,:,:]
        dens += fds
        velx += ex[s]*fds
        vely += ey[s]*fds        
    dens[:,:] = dens
    velx[:,:] /= dens 
    vely[:,:] /= dens  

def do_relaxation(f, ftmp, n, ns, ws, ex, ey, cssq, omega, dens, velx, vely):
    dist = f[:,2:n+2,2:n+2]
    dist_tmp = ftmp[:,2:n+2,2:n+2]
    vv = (velx*velx + vely*vely)/cssq
    for s in range(ns):
        ev = (ex[s]*velx + ey[s]*vely)/cssq
        dist_eq = ws[s]*dens*(1 + ev + 0.5*ev*ev - 0.5*vv)
        dist_tmp[s,:,:] = (1. - omega)*dist[s,:,:] + omega*dist_eq

这些函数的参数是3d数组fftmp(shape = nsxnxn dtype = np.float32),标量n和{{1} }(ns),1d数组int(shape = ws dtype = nsx1),1d数组np.float32ex(shape = { {1}} dtype = ey),标量nsx1np.int8cssq),2d数组omegafloat,{{1 }}(shape = dens dtype = velx

我描述了一个模拟运行,发现每个方法分别占用了25%和69%的时间,共计94%的计算时间,如下所示(我已经修剪了轮廓以删除所有行,这些行占用的时间可以忽略不计运行):

vely

分析nxn产生:

np.float32

分析Line # Hits Time Per Hit % Time Line Contents ============================================================== 2 def tgv_simulation(): 84 4981 16577491 3328.1 24.9 calculate_macrovars() 89 4981 45899937 9215.0 68.9 do_relaxation() 91 4981 3614229 725.6 5.4 do_streaming() Total time: 66.6111 s 产生:

calculate_macrovars()

我应采用哪种优化策略来提高这两种方法的性能?

更新:向量化Line # Hits Time Per Hit % Time Line Contents ============================================================== 2 def calculate_macrovars(): 5 4981 16353 3.3 0.1 fd = f[:,2:n+2,2:n+2] 6 4981 376653 75.6 2.2 dens[:,:] = fd[0,:,:] 7 4981 256929 51.6 1.5 velx[:,:] = 0. 8 4981 246298 49.4 1.4 vely[:,:] = 0. 9 44829 41229 0.9 0.2 for s in range(1,ns): 10 39848 47308 1.2 0.3 fds = fd[s,:,:] 11 39848 3739018 93.8 21.6 dens += fds 12 39848 5699723 143.0 32.9 velx += ex[s]*fds 13 39848 5428619 136.2 31.4 vely += ey[s]*fds 15 4981 723137 145.2 4.2 velx[:,:] /= dens 16 4981 719715 144.5 4.2 vely[:,:] /= dens Total time: 17.3031 s

do_relaxation()

异型:

Line #      Hits         Time  Per Hit   % Time  Line Contents
==============================================================
    19                                           def do_relaxation():
    22      4981        17183      3.4      0.0      dist = f[:,2:n+2,2:n+2]
    23      4981         6700      1.3      0.0      dist_tmp = ftmp[:,2:n+2,2:n+2]
    24      4981      1510181    303.2      3.3      vv = (velx*velx + vely*vely)/cssq
    25     49810        61256      1.2      0.1      for s in range(ns):
    26     44829     12988964    289.7     28.7          ev = (ex[s]*velx + ey[s]*vely)/cssq
    27     44829     18644169    415.9     41.2          dist_eq = ws[s]*dens*(1 + ev + 0.5*ev*ev - 0.5*vv)
    28     44829     11993650    267.5     26.5          dist_tmp[s,:,:] = (1. - omega)*dist[s,:,:] + omega*dist_eq

Total time: 45.2221 s

calculate_macrovars的循环版本大致相同的性能。

0 个答案:

没有答案
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