153 lines
4.3 KiB
Plaintext
153 lines
4.3 KiB
Plaintext
{{py:
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implementation_specific_values = [
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# Values are the following ones:
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#
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# name_suffix, INPUT_DTYPE_t, INPUT_DTYPE
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('64', 'float64_t', 'np.float64'),
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('32', 'float32_t', 'np.float32')
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]
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}}
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from libc.math cimport sqrt, exp
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from ..utils._typedefs cimport float64_t, float32_t, int32_t, intp_t
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cdef class DistanceMetric:
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pass
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{{for name_suffix, INPUT_DTYPE_t, INPUT_DTYPE in implementation_specific_values}}
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######################################################################
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# Inline distance functions
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#
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# We use these for the default (euclidean) case so that they can be
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# inlined. This leads to faster computation for the most common case
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cdef inline float64_t euclidean_dist{{name_suffix}}(
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const {{INPUT_DTYPE_t}}* x1,
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const {{INPUT_DTYPE_t}}* x2,
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intp_t size,
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) except -1 nogil:
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cdef float64_t tmp, d=0
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cdef intp_t j
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for j in range(size):
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tmp = <float64_t> (x1[j] - x2[j])
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d += tmp * tmp
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return sqrt(d)
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cdef inline float64_t euclidean_rdist{{name_suffix}}(
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const {{INPUT_DTYPE_t}}* x1,
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const {{INPUT_DTYPE_t}}* x2,
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intp_t size,
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) except -1 nogil:
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cdef float64_t tmp, d=0
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cdef intp_t j
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for j in range(size):
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tmp = <float64_t>(x1[j] - x2[j])
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d += tmp * tmp
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return d
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cdef inline float64_t euclidean_dist_to_rdist{{name_suffix}}(const {{INPUT_DTYPE_t}} dist) except -1 nogil:
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return dist * dist
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cdef inline float64_t euclidean_rdist_to_dist{{name_suffix}}(const {{INPUT_DTYPE_t}} dist) except -1 nogil:
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return sqrt(dist)
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######################################################################
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# DistanceMetric{{name_suffix}} base class
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cdef class DistanceMetric{{name_suffix}}(DistanceMetric):
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# The following attributes are required for a few of the subclasses.
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# we must define them here so that cython's limited polymorphism will work.
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# Because we don't expect to instantiate a lot of these objects, the
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# extra memory overhead of this setup should not be an issue.
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cdef float64_t p
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cdef const float64_t[::1] vec
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cdef const float64_t[:, ::1] mat
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cdef intp_t size
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cdef object func
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cdef object kwargs
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cdef {{INPUT_DTYPE_t}} dist(
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self,
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const {{INPUT_DTYPE_t}}* x1,
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const {{INPUT_DTYPE_t}}* x2,
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intp_t size,
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) except -1 nogil
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cdef {{INPUT_DTYPE_t}} rdist(
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self,
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const {{INPUT_DTYPE_t}}* x1,
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const {{INPUT_DTYPE_t}}* x2,
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intp_t size,
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) except -1 nogil
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cdef {{INPUT_DTYPE_t}} dist_csr(
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self,
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const {{INPUT_DTYPE_t}}* x1_data,
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const int32_t* x1_indices,
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const {{INPUT_DTYPE_t}}* x2_data,
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const int32_t* x2_indices,
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const int32_t x1_start,
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const int32_t x1_end,
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const int32_t x2_start,
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const int32_t x2_end,
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const intp_t size,
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) except -1 nogil
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cdef {{INPUT_DTYPE_t}} rdist_csr(
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self,
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const {{INPUT_DTYPE_t}}* x1_data,
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const int32_t* x1_indices,
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const {{INPUT_DTYPE_t}}* x2_data,
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const int32_t* x2_indices,
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const int32_t x1_start,
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const int32_t x1_end,
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const int32_t x2_start,
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const int32_t x2_end,
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const intp_t size,
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) except -1 nogil
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cdef int pdist(
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self,
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const {{INPUT_DTYPE_t}}[:, ::1] X,
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{{INPUT_DTYPE_t}}[:, ::1] D,
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) except -1
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cdef int cdist(
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self,
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const {{INPUT_DTYPE_t}}[:, ::1] X,
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const {{INPUT_DTYPE_t}}[:, ::1] Y,
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{{INPUT_DTYPE_t}}[:, ::1] D,
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) except -1
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cdef int pdist_csr(
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self,
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const {{INPUT_DTYPE_t}}* x1_data,
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const int32_t[::1] x1_indices,
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const int32_t[::1] x1_indptr,
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const intp_t size,
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{{INPUT_DTYPE_t}}[:, ::1] D,
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) except -1 nogil
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cdef int cdist_csr(
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self,
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const {{INPUT_DTYPE_t}}* x1_data,
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const int32_t[::1] x1_indices,
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const int32_t[::1] x1_indptr,
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const {{INPUT_DTYPE_t}}* x2_data,
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const int32_t[::1] x2_indices,
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const int32_t[::1] x2_indptr,
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const intp_t size,
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{{INPUT_DTYPE_t}}[:, ::1] D,
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) except -1 nogil
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cdef {{INPUT_DTYPE_t}} _rdist_to_dist(self, {{INPUT_DTYPE_t}} rdist) except -1 nogil
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cdef {{INPUT_DTYPE_t}} _dist_to_rdist(self, {{INPUT_DTYPE_t}} dist) except -1 nogil
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{{endfor}}
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