当使用Numba的@jitclass decorator对对象调用类方法时,看起来 “self”参数不受支持。我不知道该如何处理这里的错误。 尽管调用了其他numpy函数,但所有的编译都很好,但是各个方法都没有抖动
spec = [('raster',numba.float32[:,:]),('height', numba.int32),('width', numba.int32),('azis', numba.int64[:]),('grid',numba.int64),('rough',numba.float64[:,:]),('maxrange',numba.float64[:,:]),('aziratio',numba.float64[:,:]),('labels',numba.float64[:,:])]
@jitclass(spec)
class raster_class(object):
def __init__(self,raster):
self.raster = raster
self.height =self.raster.shape[0]
self.width = self.raster.shape[1]
self.azis = np.arange(0,170,10)
self.grid = 500
x = np.int(self.height/self.grid)
y = np.int(self.width/self.grid)
self.rough = np.zeros((x,y))
self.maxrange = np.zeros((x,y))
self.aziratio = np.zeros((x,y))
self.labels = np.zeros((x,y))
def detrend(self):
raster -= ndimage.gaussian_filter(self.raster,sigma=40)
return raster
def SR(self,image):
image = image[~np.isnan(image)] # remove nan's
image = np.ndarray.flatten(image)
mean = np.mean(image)
return np.sqrt((1/(len(image)-1))*np.sum((image-mean)**2))
def getRange(self,mat):
# fits an anisotropic variogram model and returns the effective range for a given azimuth
m,n = mat.shape
vals = np.reshape(mat,(m*n,1))
coords = []
for i in range(m):
for j in range(n):
coords.append((i,j))
coords = np.array(coords)
response = np.hstack((coords,vals))
response = response[~np.isnan(response[:,-1])]
response = response[response[:,-1] != 0]
response = response[~np.isnan(response[:,-1])]
coords = response[:,:2]
response = response[:,2]
response += np.random.normal(0,scale=0.25,size=response.shape[0]) #add noise to prevent same values
azi_r = []
for azi in self.azis:
DV = DirectionalVariogram(coords,response,azimuth=azi,tolerance=15,maxlag=250,n_lags=20)
azi_r.append(DV.cof[0])
major = np.argmax(azi_r)
large_range = azi_r[major]
major = azis[major]
if major >= 90:
perp = major - 90
else:
perp = major + 90
minor = azis.index(perp)
minor_range = azi_r(minor)
ratio = large_range/minor_range
return ratio,large_range
def iterate(self):
for i in range(0,self.height-self.grid,self.grid):
for j in range(0,self.width-self.grid,self.grid):
image = self.raster[i:i+self.grid,j:j+self.grid]
indi = int(i/self.grid)
indj = int(j/self.grid)
roughness = self.SR(image)
ratio,range_ = self.getRange(image)
self.azi_ratio[indi,indj] = ratio
self.largest_range[indi,indj] = range_
self.response_rough[indi,indj] = roughness
if __name__ == "__main__":
brooks = np.load("brooks_dem.npy")
brooks_class = raster_class(brooks)
time = time.time()
brooks_class.iterate()
end_time = time.time() - time
hours = end_time/3600
print("Computation Took {} Hours".format(hours))
错误消息
This error is usually caused by passing an argument of a type that is unsupported by the
named function.
[1] During: typing of intrinsic-call at /home/dunbar/DEM/processraster.py (35)
File "processraster.py", line 35:
def SR(self,image):
image = image[~np.isnan(image)] # remove nan's
^
[1] During: resolving callee type: BoundFunction((<class
'numba.types.misc.ClassInstanceType'>, 'SR') for
instance.jitclass.raster_class#55ac81be91b8<raster:array(float32, 2d,
A),height:int32,width:int32,azis:array(int64, 1d, A),grid:int64,rough:array(float64, 2d,
A),maxrange:array(float64, 2d, A),aziratio:array(float64, 2d, A),labels:array(float64, 2d,
A)>)
[2] During: typing of call at /home/dunbar/DEM/processraster.py (81)
File "processrabster.py", line 81:
def iterate(self):
<source elided>
indj = int(j/self.grid)
roughness = self.SR(image)
^
[1] During: resolving callee type: BoundFunction((<class
'numba.types.misc.ClassInstanceType'>, 'iterate') for
instance.jitclass.raster_class#55ac81be91b8<raster:array(float32, 2d,
A),height:int32,width:int32,azis:array(int64, 1d, A),grid:int64,rough:array(float64, 2d,
A),maxrange:array(float64, 2d, A),aziratio:array(float64, 2d, A),labels:array(float64, 2d,
A)>)
[2] During: typing of call at <string> (3)
File "<string>", line 3:
<source missing, REPL/exec in use?>
问题似乎出在
SR
方法中,但不幸的是,jitclass错误消息除此之外信息量不大。但是,由于这是一个静态方法,调试它的一个非常简单的方法是将其作为独立函数进行测试,即从类中取出SR
,删除self
参数,添加@njit
装饰器,并在任意二维数组上运行SR
当我这样做时,我发现以下两个问题:
image[~np.isnan(image)]
是一种“高级”索引形式,因为它使用布尔数组作为输入。Numbaonly supports advanced indexing on a single dimension,但是image
是二维的您调用
flatten
就像从其ndarray
类调用函数一样,即np.ndarray.flatten(image)
,但Numba只识别更标准的方法调用image.flatten()
您可以通过切换两行的顺序来修复点#1,首先写入
image = image.flatten()
(或者image = image.ravel()
,因为不需要复制),然后再写入image = image[~np.isnan(image)]
幸运的是,对于您的特定应用程序,不需要执行这些操作,因为} 的调用,这是由Numba支持的
SR
方法似乎可以替换为对^{更一般地说,我赞同这样的评论,即使用Numba编译这样一个大型类并不是真正的预期用途(至少目前是这样);最好通过分析识别一些瓶颈,并专门编译这些瓶颈
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