Skip to content

GitLab

"test/git@developer.sourcefind.cn:jerrrrry/infinicore.git" did not exist on "7569675e583a2f83776001faf59a5f51c4662dbd"
Commit 1df7b845 authored by Benjamin Thomas Graham's avatar Benjamin Thomas Graham
Browse files

3d segmantation

parent f2e3800b
Show whitespace changes
Inline Side-by-side
Showing with 6 additions and 2081 deletions
PyTorch/sparseconvnet/legacy/networkArchitectures.py deleted 100644 → 0
View file @ f2e3800b
# Copyright 2016-present, Facebook, Inc.
# All rights reserved.
#
# This source code is licensed under the license found in the
# LICENSE file in the root directory of this source tree.
"""
Functions to build some networks
DeepCNet
VggNet - deep
ResNet - deeper
"""
import torch.legacy.nn
import math
from .affineReLUTrivialConvolution import AffineReLUTrivialConvolution
from .averagePooling import AveragePooling
from .cAddTable import CAddTable
from .convolution import Convolution
from .deconvolution import Deconvolution
from .denseNetBlock import DenseNetBlock
from .submanifoldConvolution import SubmanifoldConvolution
from .networkInNetwork import NetworkInNetwork
from .batchNormalization import BatchNormReLU, BatchNormalizationInTensor
from .maxPooling import MaxPooling
from .concatTable import ConcatTable
from .joinTable import JoinTable
from .sequential import Sequential
from .reLU import ReLU
from .identity import Identity
def DeepCNet(dimension, nInputPlanes, nPlanes, bn=True):
"""
i.e. sparseconvnet(2,nInputPlanes,{16,32,48,64,80},4,32) maps
(batchSize,nInputPlanes,16n+32,16n+32)->(batchSize,80,n,n)
Regular (i.e. not 'valid') convolutions
https://arxiv.org/abs/1409.6070
Based on "Multi-column Deep Neural Networks for Image Classification",
Dan Ciresan, Ueli Meier, Jonathan Masci and Jurgen Schmidhuber
"""
m = Sequential()
def c(nIn, nOut, size):
m.add(Convolution(dimension, nIn, nOut, size, 1, false))
if bn:
m.add(BatchNormReLU(nOut))
else:
m.add(ReLU(True))
c(nInputPlanes, nPlanes[0], 3)
for i in range(1, len(nPlanes)):
m.add(MaxPooling(dimension, 2, 2))
c(nPlanes[i - 1], nPlanes[i], 2)
end
m.nOutputPlanes = nPlanes[-1]
return m
def SparseVggNet(dimension, nInputPlanes, layers):
"""
VGG style nets
Use submanifold convolutions
Also implements 'Plus'-augmented nets
"""
nPlanes = nInputPlanes
m = Sequential()
for x in layers:
if x == 'MP':
m.add(MaxPooling(dimension, 3, 2))
elif x[0] == 'MP':
m.add(MaxPooling(dimension, x[1], x[2]))
elif x[0] == 'C' and len(x) == 2:
m.add(SubmanifoldConvolution(dimension, nPlanes, x[1], 3, False))
nPlanes = x[1]
m.add(BatchNormReLU(nPlanes))
elif x[0] == 'C' and len(x) == 3:
m.add(ConcatTable()
.add(
SubmanifoldConvolution(dimension, nPlanes, x[1], 3, False)
)
.add(
Sequential()
.add(Convolution(dimension, nPlanes, x[2], 3, 2, False))
.add(BatchNormReLU(x[2]))
.add(SubmanifoldConvolution(dimension, x[2], x[2], 3, False))
.add(BatchNormReLU(x[2]))
.add(Deconvolution(dimension, x[2], x[2], 3, 2, False))
)).add(JoinTable([x[1], x[2]]))
nPlanes = x[1] + x[2]
m.add(BatchNormReLU(nPlanes))
elif x[0] == 'C' and len(x) == 4:
m.add(ConcatTable()
.add(
SubmanifoldConvolution(dimension, nPlanes, x[1], 3, False)
)
.add(
Sequential()
.add(Convolution(dimension, nPlanes, x[2], 3, 2, False))
.add(BatchNormReLU(x[2]))
.add(SubmanifoldConvolution(dimension, x[2], x[2], 3, False))
.add(BatchNormReLU(x[2]))
.add(Deconvolution(dimension, x[2], x[2], 3, 2, False))
)
.add(Sequential()
.add(Convolution(dimension, nPlanes, x[3], 3, 2, False))
.add(BatchNormReLU(x[3]))
.add(SubmanifoldConvolution(dimension, x[3], x[3], 3, False))
.add(BatchNormReLU(x[3]))
.add(Convolution(dimension, x[3], x[3], 3, 2, False))
.add(BatchNormReLU(x[3]))
.add(SubmanifoldConvolution(dimension, x[3], x[3], 3, False))
.add(BatchNormReLU(x[3]))
.add(Deconvolution(dimension, x[3], x[3], 3, 2, False))
.add(BatchNormReLU(x[3]))
.add(SubmanifoldConvolution(dimension, x[3], x[3], 3, False))
.add(BatchNormReLU(x[3]))
.add(Deconvolution(dimension, x[3], x[3], 3, 2, False))
)).add(JoinTable([x[1], x[2], x[3]]))
nPlanes = x[1] + x[2] + x[3]
m.add(BatchNormReLU(nPlanes))
return m
def SparseResNet(dimension, nInputPlanes, layers):
"""
pre-activated ResNet
e.g. layers = {{'basic',16,2,1},{'basic',32,2}}
"""
nPlanes = nInputPlanes
m = Sequential()
def residual(nIn, nOut, stride):
if stride > 1:
return Convolution(dimension, nIn, nOut, 3, stride, False)
elif nIn != nOut:
return NetworkInNetwork(nIn, nOut, False)
else:
return Identity()
for blockType, n, reps, stride in layers:
for rep in range(reps):
if blockType[0] == 'b': # basic block
if rep == 0:
m.add(BatchNormReLU(nPlanes))
m.add(
ConcatTable().add(
Sequential().add(
SubmanifoldConvolution(
dimension,
nPlanes,
n,
3,
False) if stride == 1 else Convolution(
dimension,
nPlanes,
n,
3,
stride,
False)) .add(
BatchNormReLU(n)) .add(
SubmanifoldConvolution(
dimension,
n,
n,
3,
False))) .add(
residual(
nPlanes,
n,
stride)))
else:
m.add(
ConcatTable().add(
Sequential().add(
BatchNormReLU(nPlanes)) .add(
SubmanifoldConvolution(
dimension,
nPlanes,
n,
3,
False)) .add(
BatchNormReLU(n)) .add(
SubmanifoldConvolution(
dimension,
n,
n,
3,
False))) .add(
Identity()))
nPlanes = n
m.add(CAddTable(True))
m.add(BatchNormReLU(nPlanes))
return m
def SparseDenseNet(dimension, nInputPlanes, layers):
"""
SparseConvNet meets DenseNets using submanifold convolutions
Could do with a less confusing name
"""
nPlanes = nInputPlanes
m = Sequential()
for x in layers:
if 'pool' in x:
if 'size' not in x:
x['size'] = 2
if 'stride' not in x:
x['stride'] = 2
if 'base' not in x:
x['base'] = 16
if 'compression' not in x:
x['compression'] = 0
nDrop = x['base'] * \
math.floor(nPlanes * x['compression'] / x['base'])
if x['pool'] == 'MP':
m.add(MaxPooling(dimension, x['size'], x['stride'], nDrop))
nPlanes -= nDrop
if x['pool'] == 'AP':
m.add(AveragePooling(dimension, x['size'], x['stride'], nDrop))
nPlanes -= nDrop
elif x['pool'] == 'BN-R-C-AP':
m.add(BatchNormReLU(nPlanes))
m.add(NetworkInNetwork(nPlanes, nPlanes - nDrop))
nPlanes = nPlanes - nDrop
m.add(AveragePooling(dimension, x['size'], x['stride']))
elif x['pool'] == 'C-AP':
m.add(NetworkInNetwork(nPlanes, nPlanes - nDrop))
nPlanes = nPlanes - nDrop
m.add(AveragePooling(dimension, x['size'], x['stride']))
else:
if 'nExtraLayers' not in x:
x['nExtraLayers'] = 2
if 'growthRate' not in x:
x['growthRate'] = 16
m.add(
DenseNetBlock(
dimension,
nPlanes,
x['nExtraLayers'],
x['growthRate']))
nPlanes = nPlanes + x['nExtraLayers'] * x['growthRate']
m.nOutputPlanes = nPlanes
return m
PyTorch/sparseconvnet/legacy/networkInNetwork.py deleted 100644 → 0
View file @ f2e3800b
# Copyright 2016-present, Facebook, Inc.
# All rights reserved.
#
# This source code is licensed under the license found in the
# LICENSE file in the root directory of this source tree.
import torch
from . import SparseModule
import sparseconvnet as s
from ..utils import toLongTensor, typed_fn, optionalTensor, nullptr
from ..sparseConvNetTensor import SparseConvNetTensor
class NetworkInNetwork(SparseModule):
def __init__(self, nIn, nOut, bias=True):
SparseModule.__init__(self)
self.nIn = nIn
self.nOut = nOut
std = (2.0 / self.nIn)**0.5
self.weight = torch.Tensor(nIn, nOut).normal_(0, std)
self.gradWeight = torch.Tensor(nIn, nOut).fill_(std)
if bias:
self.bias = torch.Tensor(nOut).zero_()
self.gradBias = torch.Tensor(nOut).zero_()
self.output = SparseConvNetTensor(torch.Tensor())
self.gradInput = torch.Tensor()
def updateOutput(self, input):
self.output.metadata = input.metadata
self.output.spatial_size = input.spatial_size
s.forward_pass_multiplyAdd_count +=\
typed_fn(input.features, 'NetworkInNetwork_updateOutput')(
input.features,
self.output.features,
self.weight,
optionalTensor(self, 'bias'))
s.forward_pass_hidden_states += self.output.features.nelement()
return self.output
def updateGradInput(self, input, gradOutput):
typed_fn(input.features, 'NetworkInNetwork_updateGradInput')(
self.gradInput,
gradOutput,
self.weight)
return self.gradInput
def accGradParameters(self, input, gradOutput, scale=1):
assert scale == 1
typed_fn(input.features, 'NetworkInNetwork_accGradParameters')(
input.features,
gradOutput,
self.gradWeight,
optionalTensor(self, 'gradBias'))
def __repr__(self):
s = 'NetworkInNetwork' + str(self.nIn) + '->' + str(self.nOut)
return s
def type(self, t=None, tensorCache=None):
if t is None:
return self._type
self._type = t
self.weight = self.weight.type(t)
self.gradWeight = self.gradWeight.type(t)
self.output.type(t)
self.gradInput = self.gradInput.type(t)
if hasattr(self, 'bias'):
self.bias = self.bias.type(t)
self.gradBias = self.gradBias.type(t)
PyTorch/sparseconvnet/legacy/reLU.py deleted 100644 → 0
View file @ f2e3800b
# Copyright 2016-present, Facebook, Inc.
# All rights reserved.
#
# This source code is licensed under the license found in the
# LICENSE file in the root directory of this source tree.
"""
If a LeakyReLU has leakiness zero, what is it?
Parameters
ip : operate in place (default true)
"""
import torch
import sparseconvnet
from torch.legacy.nn import Module
from .leakyReLU import LeakyReLU
from ..utils import toLongTensor, dim_typed_fn, optionalTensor, nullptr
from ..sparseConvNetTensor import SparseConvNetTensor
class ReLU(LeakyReLU):
def __init__(self, ip):
LeakyReLU.__init__(self, 0, ip)
PyTorch/sparseconvnet/legacy/sequential.py deleted 100644 → 0
View file @ f2e3800b
# Copyright 2016-present, Facebook, Inc.
# All rights reserved.
#
# This source code is licensed under the license found in the
# LICENSE file in the root directory of this source tree.
from torch.legacy.nn import Sequential as S
from ..utils import set
class Sequential(S):
def __init__(self):
S.__init__(self)
def suggestInputSize(self, out_size):
for m in self.modules[::-1]:
out_size = m.suggestInputSize(out_size)
return out_size
def clearState(self):
set(self.output)
set(self.gradInput)
for m in self.modules:
m.clearState()
PyTorch/sparseconvnet/legacy/sparseModule.py deleted 100644 → 0
View file @ f2e3800b
# Copyright 2016-present, Facebook, Inc.
# All rights reserved.
#
# This source code is licensed under the license found in the
# LICENSE file in the root directory of this source tree.
from torch.legacy.nn import Module
from ..utils import set
class SparseModule(Module):
def __init__(self):
Module.__init__(self)
def clearState(self):
set(self.output)
set(self.gradInput)
def suggestInputSize(self, out_size):
return out_size
PyTorch/sparseconvnet/legacy/sparseToDense.py deleted 100644 → 0
View file @ f2e3800b
# Copyright 2016-present, Facebook, Inc.
# All rights reserved.
#
# This source code is licensed under the license found in the
# LICENSE file in the root directory of this source tree.
"""
Function to convert a SparseConvNet hidden layer to a dense convolutional
layer. Put a SparseToDense convolutional layer (or an ActivePooling layer) at
the top of your sparse network. The output can then pass to a dense
convolutional layers or (if the spatial dimensions have become trivial) a
linear classifier.
Parameters:
dimension : of the input field,
"""
import torch
from . import SparseModule
from ..utils import dim_typed_fn, nullptr
from ..sparseConvNetTensor import SparseConvNetTensor
class SparseToDense(SparseModule):
def __init__(self, dimension, nPlanes=None):
SparseModule.__init__(self)
self.dimension = dimension
self.output = torch.Tensor()
self.gradInput = torch.FloatTensor()
self.nPlanes = nPlanes
def updateOutput(self, input):
if not self.nPlanes:
self.nPlanes = input.features.size(1)
dim_typed_fn(
self.dimension,
input.features,
'SparseToDense_updateOutput')(
input.spatial_size,
input.metadata.ffi,
input.features,
self.output,
torch.cuda.IntTensor() if input.features.is_cuda else nullptr,
self.nPlanes)
return self.output
def updateGradInput(self, input, gradOutput):
dim_typed_fn(
self.dimension,
input.features,
'SparseToDense_updateGradInput')(
input.spatial_size,
input.metadata.ffi,
input.features,
self.gradInput,
gradOutput,
torch.cuda.IntTensor() if input.features.is_cuda else nullptr)
return self.gradInput
def __repr__(self):
return 'SparseToDense(' + str(self.dimension) + ')'
PyTorch/sparseconvnet/legacy/submanifoldConvolution.py deleted 100644 → 0
View file @ f2e3800b
# Copyright 2016-present, Facebook, Inc.
# All rights reserved.
#
# This source code is licensed under the license found in the
# LICENSE file in the root directory of this source tree.
import torch
import sparseconvnet as s
from . import SparseModule
from ..utils import toLongTensor, dim_typed_fn, optionalTensor, nullptr
from ..sparseConvNetTensor import SparseConvNetTensor
class SubmanifoldConvolution(SparseModule):
def __init__(self, dimension, nIn, nOut, filter_size, bias):
SparseModule.__init__(self)
self.dimension = dimension
self.nIn = nIn
self.nOut = nOut
self.filter_size = toLongTensor(dimension, filter_size)
self.filter_volume = self.filter_size.prod().item()
std = (2.0 / nIn / self.filter_volume)**0.5
self.weight = torch.Tensor(
nIn * self.filter_volume, nOut
).normal_(0, std)
self.gradWeight = torch.Tensor(
nIn * self.filter_volume, nOut).fill_(std)
if bias:
self.bias = torch.Tensor(nOut).zero_()
self.gradBias = torch.Tensor(nOut).zero_()
self.output = SparseConvNetTensor(torch.Tensor())
self.gradInput = torch.Tensor()
def updateOutput(self, input):
assert input.features.ndimension() == 0 or input.features.size(1) == self.nIn
self.output.metadata = input.metadata
self.output.spatial_size = input.spatial_size
s.forward_pass_multiplyAdd_count +=\
dim_typed_fn(self.dimension, input.features, 'SubmanifoldConvolution_updateOutput')(
input.spatial_size,
self.filter_size,
input.metadata.ffi,
input.features,
self.output.features,
self.weight,
optionalTensor(self, 'bias'),
self.filter_volume,
torch.cuda.IntTensor() if input.features.is_cuda else nullptr)
s.forward_pass_hidden_states += self.output.features.nelement()
return self.output
def backward(self, input, gradOutput, scale=1):
assert scale == 1
dim_typed_fn(
self.dimension,
input.features,
'SubmanifoldConvolution_backward')(
input.spatial_size,
self.filter_size,
input.metadata.ffi,
input.features,
self.gradInput,
gradOutput,
self.weight,
self.gradWeight,
optionalTensor(
self,
'gradBias'),
self.filter_volume,
torch.cuda.IntTensor() if input.features.is_cuda else nullptr)
return self.gradInput
def type(self, t=None, tensorCache=None):
if t is None:
return self._type
self._type = t
self.weight = self.weight.type(t)
self.gradWeight = self.gradWeight.type(t)
self.output.type(t)
self.gradInput = self.gradInput.type(t)
if hasattr(self, 'bias'):
self.bias = self.bias.type(t)
self.gradBias = self.gradBias.type(t)
def __repr__(self):
s = 'SubmanifoldConvolution ' + \
str(self.nIn) + '->' + str(self.nOut) + ' C'
if self.filter_size.max() == self.filter_size.min():
s = s + str(self.filter_size[0].item())
else:
s = s + '(' + str(self.filter_size[0].item())
for i in self.filter_size[1:]:
s = s + ',' + str(i.item())
s = s + ')'
return s
PyTorch/sparseconvnet/networkArchitectures.py deleted 100644 → 0
View file @ f2e3800b
# Copyright 2016-present, Facebook, Inc.
# All rights reserved.
#
# This source code is licensed under the license found in the
# LICENSE file in the root directory of this source tree.
from .averagePooling import AveragePooling
from .batchNormalization import BatchNormalization, BatchNormReLU, BatchNormLeakyReLU
from .convolution import Convolution
from .sequential import Sequential
from .submanifoldConvolution import SubmanifoldConvolution
from .deconvolution import Deconvolution
from .networkInNetwork import NetworkInNetwork
from .maxPooling import MaxPooling
from .identity import Identity
from .sparseToDense import SparseToDense
from .denseToSparse import DenseToSparse
from .tables import *
def SparseVggNet(dimension, nInputPlanes, layers):
"""
VGG style nets
Use submanifold convolutions
Also implements 'Plus'-augmented nets
"""
nPlanes = nInputPlanes
m = Sequential()
for x in layers:
if x == 'MP':
m.add(MaxPooling(dimension, 3, 2))
elif x[0] == 'MP':
m.add(MaxPooling(dimension, x[1], x[2]))
elif x[0] == 'C' and len(x) == 2:
m.add(SubmanifoldConvolution(dimension, nPlanes, x[1], 3, False))
nPlanes = x[1]
m.add(BatchNormReLU(nPlanes))
elif x[0] == 'C' and len(x) == 3:
m.add(ConcatTable()
.add(
SubmanifoldConvolution(dimension, nPlanes, x[1], 3, False)
).add(
Sequential()
.add(Convolution(dimension, nPlanes, x[2], 3, 2, False))
.add(BatchNormReLU(x[2]))
.add(SubmanifoldConvolution(dimension, x[2], x[2], 3, False))
.add(BatchNormReLU(x[2]))
.add(Deconvolution(dimension, x[2], x[2], 3, 2, False))
)).add(JoinTable())
nPlanes = x[1] + x[2]
m.add(BatchNormReLU(nPlanes))
elif x[0] == 'C' and len(x) == 4:
m.add(ConcatTable()
.add(
SubmanifoldConvolution(dimension, nPlanes, x[1], 3, False)
)
.add(
Sequential()
.add(Convolution(dimension, nPlanes, x[2], 3, 2, False))
.add(BatchNormReLU(x[2]))
.add(SubmanifoldConvolution(dimension, x[2], x[2], 3, False))
.add(BatchNormReLU(x[2]))
.add(Deconvolution(dimension, x[2], x[2], 3, 2, False))
)
.add(Sequential()
.add(Convolution(dimension, nPlanes, x[3], 3, 2, False))
.add(BatchNormReLU(x[3]))
.add(SubmanifoldConvolution(dimension, x[3], x[3], 3, False))
.add(BatchNormReLU(x[3]))
.add(Convolution(dimension, x[3], x[3], 3, 2, False))
.add(BatchNormReLU(x[3]))
.add(SubmanifoldConvolution(dimension, x[3], x[3], 3, False))
.add(BatchNormReLU(x[3]))
.add(Deconvolution(dimension, x[3], x[3], 3, 2, False))
.add(BatchNormReLU(x[3]))
.add(SubmanifoldConvolution(dimension, x[3], x[3], 3, False))
.add(BatchNormReLU(x[3]))
.add(Deconvolution(dimension, x[3], x[3], 3, 2, False))
)).add(JoinTable())
nPlanes = x[1] + x[2] + x[3]
m.add(BatchNormReLU(nPlanes))
elif x[0] == 'C' and len(x) == 5:
m.add(ConcatTable()
.add(
SubmanifoldConvolution(dimension, nPlanes, x[1], 3, False)
)
.add(
Sequential()
.add(Convolution(dimension, nPlanes, x[2], 3, 2, False))
.add(BatchNormReLU(x[2]))
.add(SubmanifoldConvolution(dimension, x[2], x[2], 3, False))
.add(BatchNormReLU(x[2]))
.add(Deconvolution(dimension, x[2], x[2], 3, 2, False))
)
.add(Sequential()
.add(Convolution(dimension, nPlanes, x[3], 3, 2, False))
.add(BatchNormReLU(x[3]))
.add(SubmanifoldConvolution(dimension, x[3], x[3], 3, False))
.add(BatchNormReLU(x[3]))
.add(Convolution(dimension, x[3], x[3], 3, 2, False))
.add(BatchNormReLU(x[3]))
.add(SubmanifoldConvolution(dimension, x[3], x[3], 3, False))
.add(BatchNormReLU(x[3]))
.add(Deconvolution(dimension, x[3], x[3], 3, 2, False))
.add(BatchNormReLU(x[3]))
.add(SubmanifoldConvolution(dimension, x[3], x[3], 3, False))
.add(BatchNormReLU(x[3]))
.add(Deconvolution(dimension, x[3], x[3], 3, 2, False))
)
.add(Sequential()
.add(Convolution(dimension, nPlanes, x[4], 3, 2, False))
.add(BatchNormReLU(x[4]))
.add(SubmanifoldConvolution(dimension, x[4], x[4], 3, False))
.add(BatchNormReLU(x[4]))
.add(Convolution(dimension, x[4], x[4], 3, 2, False))
.add(BatchNormReLU(x[4]))
.add(SubmanifoldConvolution(dimension, x[4], x[4], 3, False))
.add(BatchNormReLU(x[4]))
.add(Convolution(dimension, x[4], x[4], 3, 2, False))
.add(BatchNormReLU(x[4]))
.add(SubmanifoldConvolution(dimension, x[4], x[4], 3, False))
.add(BatchNormReLU(x[4]))
.add(Deconvolution(dimension, x[4], x[4], 3, 2, False))
.add(BatchNormReLU(x[4]))
.add(SubmanifoldConvolution(dimension, x[4], x[4], 3, False))
.add(BatchNormReLU(x[4]))
.add(Deconvolution(dimension, x[4], x[4], 3, 2, False))
.add(BatchNormReLU(x[4]))
.add(SubmanifoldConvolution(dimension, x[4], x[4], 3, False))
.add(BatchNormReLU(x[4]))
.add(Deconvolution(dimension, x[4], x[4], 3, 2, False))
)).add(JoinTable())
nPlanes = x[1] + x[2] + x[3] + x[4]
m.add(BatchNormReLU(nPlanes))
return m
def SparseResNet(dimension, nInputPlanes, layers):
"""
pre-activated ResNet
e.g. layers = {{'basic',16,2,1},{'basic',32,2}}
"""
nPlanes = nInputPlanes
m = Sequential()
def residual(nIn, nOut, stride):
if stride > 1:
return Convolution(dimension, nIn, nOut, 3, stride, False)
elif nIn != nOut:
return NetworkInNetwork(nIn, nOut, False)
else:
return Identity()
for blockType, n, reps, stride in layers:
for rep in range(reps):
if blockType[0] == 'b': # basic block
if rep == 0:
m.add(BatchNormReLU(nPlanes))
m.add(
ConcatTable().add(
Sequential().add(
SubmanifoldConvolution(
dimension,
nPlanes,
n,
3,
False) if stride == 1 else Convolution(
dimension,
nPlanes,
n,
3,
stride,
False)) .add(
BatchNormReLU(n)) .add(
SubmanifoldConvolution(
dimension,
n,
n,
3,
False))) .add(
residual(
nPlanes,
n,
stride)))
else:
m.add(
ConcatTable().add(
Sequential().add(
BatchNormReLU(nPlanes)) .add(
SubmanifoldConvolution(
dimension,
nPlanes,
n,
3,
False)) .add(
BatchNormReLU(n)) .add(
SubmanifoldConvolution(
dimension,
n,
n,
3,
False))) .add(
Identity()))
nPlanes = n
m.add(AddTable())
m.add(BatchNormReLU(nPlanes))
return m
def ResNetUNet(dimension, nPlanes, reps, depth=4):
"""
U-Net style network with ResNet-style blocks.
For voxel level prediction:
import sparseconvnet as scn
import torch.nn
class Model(nn.Module):
def __init__(self):
nn.Module.__init__(self)
self.sparseModel = scn.Sequential().add(
scn.SubmanifoldConvolution(3, nInputFeatures, 64, 3, False)).add(
scn.ResNetUNet(3, 64, 2, 4))
self.linear = nn.Linear(64, nClasses)
def forward(self,x):
x=self.sparseModel(x).features
x=self.linear(x)
return x
"""
def res(m, a, b):
m.add(ConcatTable()
.add(Identity() if a == b else NetworkInNetwork(a, b, False))
.add(Sequential()
.add(BatchNormReLU(a))
.add(SubmanifoldConvolution(dimension, a, b, 3, False))
.add(BatchNormReLU(b))
.add(SubmanifoldConvolution(dimension, b, b, 3, False))))\
.add(AddTable())
def v(depth, nPlanes):
m = Sequential()
if depth == 1:
for _ in range(reps):
res(m, nPlanes, nPlanes)
else:
m = Sequential()
for _ in range(reps):
res(m, nPlanes, nPlanes)
m.add(
ConcatTable() .add(
Identity()) .add(
Sequential() .add(
BatchNormReLU(nPlanes)) .add(
Convolution(
dimension,
nPlanes,
nPlanes,
2,
2,
False)) .add(
v(
depth - 1,
nPlanes)) .add(
BatchNormReLU(nPlanes)) .add(
Deconvolution(
dimension,
nPlanes,
nPlanes,
2,
2,
False))))
m.add(JoinTable())
for i in range(reps):
res(m, 2 * nPlanes if i == 0 else nPlanes, nPlanes)
return m
m = v(depth, nPlanes)
m.add(BatchNormReLU(nPlanes))
return m
README.md
View file @ 1df7b845
......@@ -17,7 +17,7 @@ This is the Torch/PyTorch library for training Submanifold Sparse Convolutional
## Spatial sparsity
This library brings [Spatially-sparse convolutional networks](https://github.com/btgraham/SparseConvNet) to PyTorch and [Torch classic](README_Torch.md). Moreover, it introduces **Submanifold Sparse Convolutions**, that can be used to build computationally efficient sparse VGG/ResNet/DenseNet-style networks.
This library brings [Spatially-sparse convolutional networks](https://github.com/btgraham/SparseConvNet) to PyTorch. Moreover, it introduces **Submanifold Sparse Convolutions**, that can be used to build computationally efficient sparse VGG/ResNet/DenseNet-style networks.
With regular 3x3 convolutions, the set of active (non-zero) sites grows rapidly:<br />
![submanifold](img/i.gif) <br />
......@@ -50,7 +50,7 @@ In theory, the library supports up to 10 dimensions. In practice, ConvNets with
## Hello World - PyTorch
## Hello World
SparseConvNets can be built either by [defining a function that inherits from torch.nn.Module](examples/Assamese_handwriting/VGGplus.py) or by stacking modules in a [sparseconvnet.Sequential](PyTorch/sparseconvnet/sequential.py):
```
import torch
......@@ -139,17 +139,13 @@ cd examples/Assamese_handwriting
python VGGplus.py
```
## PyTorch Setup
## Setup
Tested with Ubuntu 16.04, Python 3 in [Miniconda](https://conda.io/miniconda.html) and PyTorch master (v0.4 with merged Tensors/Variables).
Tested with Ubuntu 16.04, Python 3 in [Miniconda](https://conda.io/miniconda.html) and PyTorch v0.4 (with merged Tensors/Variables).
```
git clone https://github.com/pytorch/pytorch.git
cd pytorch
python setup.py install
cd ..
apt-get install libsparsehash-dev
conda install -c pytorch # OR git clone https://github.com/pytorch/pytorch.git; cd pytorch; python setup.py install; cd ..
conda install -c bioconda google-sparsehash # OR apt-get install libsparsehash-dev
git clone git@github.com:facebookresearch/SparseConvNet.git
cd SparseConvNet/PyTorch/
python setup.py install
......
README_Torch.md deleted 100644 → 0
View file @ f2e3800b
## Hello World - (Lua)Torch
Convolutional networks are built with SparseConvNet in the same way as with Torch's nn/cunn/cudnn packages.
```
--Train on the GPU if there is one, otherwise CPU
scn=require 'sparseconvnet'
tensorType = scn.cutorch and 'torch.CudaTensor' or 'torch.FloatTensor'
model = scn.Sequential()
:add(scn.SparseVggNet(2,1,{ --dimension 2, 1 input plane
{'C', 8}, -- 3x3 VSC convolution, 8 output planes, batchnorm, ReLU
{'C', 8}, -- and another
{'MP', 3, 2}, --max pooling, size 3, stride 2
{'C', 16}, -- etc
{'C', 16},
{'MP', 3, 2},
{'C', 24},
{'C', 24},
{'MP', 3, 2}}))
:add(scn.Convolution(2,24,32,3,1,false)) --an SC convolution on top
:add(scn.BatchNormReLU(32))
:add(scn.SparseToDense(2))
:type(tensorType)
--[[
To use the network we must create an scn.InputBatch with right dimensionality.
If we want the output to have spatial size 10x10, we can find the appropriate
input size, give that we uses three layers of MP3/2 max-pooling, and finish
with a SC convoluton
]]
inputSpatialSize=model:suggestInputSize(torch.LongTensor{10,10}) --103x103
input=scn.InputBatch(2,inputSpatialSize)
--Now we build the input batch, sample by sample, and active site by active site.
msg={
" O O OOO O O OO O O OO OOO O OOO ",
" O O O O O O O O O O O O O O O O ",
" OOOOO OO O O O O O O O O O OOO O O O ",
" O O O O O O O O O O O O O O O O O O ",
" O O OOO OOO OOO OO O O OO O O OOO OOO ",
}
input:addSample()
for y,line in ipairs(msg) do
for x = 1,string.len(line) do
if string.sub(line,x,x) == 'O' then
local location = torch.LongTensor{x,y}
local featureVector = torch.FloatTensor{1}
input:setLocation(location,featureVector,0)
end
end
end
--[[
Optional: allow metadata preprocessing to be done in batch preparation threads
to improve GPU utilization.
Parameter:
3 if using MP3/2 or size-3 stride-2 convolutions for downsizing,
2 if using MP2
]]
input:precomputeMetadata(3)
model:evaluate()
input:type(tensorType)
output = model:forward(input)
--[[
Output is 1x32x10x10: our minibatch has 1 sample, the network has 32 output
feature planes, and 10x10 is the spatial size of the output.
]]
print(output:size())
```
## Torch Setup
Tested with Ubuntu 16.04.
Install [Torch](http://torch.ch/docs/getting-started.html) then: <br />
```
apt-get install libsparsehash-dev
git clone git@github.com:facebookresearch/SparseConvNet.git
then
cd SparseConvNet/Torch/
luarocks make sparseconvnet-0.1-1.rockspec
```
To run the examples you may also need to install unrar and TorchNet:
```
apt-get install unrar
and
luarocks install torchnet
```
Torch/AffineReluTrivialConvolution.lua deleted 100644 → 0
View file @ f2e3800b
-- Copyright 2016-present, Facebook, Inc.
-- All rights reserved.
--
-- This source code is licensed under the license found in the
-- LICENSE file in the root directory of this source tree.
return function(sparseconvnet)
local C = sparseconvnet.C
local AF,parent = torch.class(
'sparseconvnet.AffineReluTrivialConvolution', 'nn.Module',sparseconvnet)
function AF:__init(nInputPlanes, nOutputPlanes,additiveGrad)
parent.__init(self)
self.nInputPlanes=nInputPlanes
self.nOutputPlanes=nOutputPlanes
self.affineWeight = torch.Tensor(nInputPlanes)
self.affineBias = torch.Tensor(nInputPlanes)
self.convWeight = torch.Tensor(nInputPlanes,nOutputPlanes)
self.gradAffineWeight = torch.Tensor(nInputPlanes):fill(0)
self.gradAffineBias = torch.Tensor(nInputPlanes):zero()
self.gradConvWeight = torch.Tensor(nInputPlanes,nOutputPlanes):zero()
self.additiveGrad=additiveGrad or false --boolean
self.output={
features=torch.Tensor(),
}
self:reset()
end
function AF:reset()
self.affineWeight:fill(1)
self.affineBias:zero()
self.convWeight:normal(0,math.sqrt(2/self.nInputPlanes)) --not 2/self.nOutputPlanes?
end
function AF:parameters()
return {self.affineWeight, self.affineBias, self.convWeight},
{self.gradAffineWeight, self.gradAffineBias, self.gradConvWeight}
end
function AF:updateOutput(input)
self.output.metadata = input.metadata
self.output.spatialSize = input.spatialSize
C.typedFn(self._type,'AffineReluTrivialConvolution_updateOutput')(
input.features:cdata(),
self.output.features:cdata(),
self.affineWeight:cdata(),
self.affineBias:cdata(),
self.convWeight:cdata())
self.shared.forwardPassMultiplyAddCount=
self.shared.forwardPassMultiplyAddCount+
input.features:size(1)*self.nInputPlanes*self.nOutputPlanes
self.shared.forwardPassHiddenStates=
self.shared.forwardPassHiddenStates+self.output.features:nElement()
return self.output
end
function AF:backward(input, gradOutput)
C.typedFn(self._type,'AffineReluTrivialConvolution_backward')(
input.features:cdata(),
self.gradInput.features:cdata(),
gradOutput.features:cdata(),
self.affineWeight:cdata(),
self.gradAffineWeight:cdata(),
self.affineBias:cdata(),
self.gradAffineBias:cdata(),
self.convWeight:cdata(),
self.gradConvWeight:cdata(),
self.additiveGrad)
return self.gradInput
end
function AF:updateGradInput(input, gradOutput)
assert(false) --just call backward
end
function AF:accGradParameters(input, gradOutput, scale)
assert(false) --just call backward
end
function AF:__tostring()
local s = 'AffineReluTrivialConvolution(' ..
self.nInputPlanes..'->' .. self.nOutputPlanes .. ')'
return s
end
function AF:clearState()
self.output={features=self.output.features:set()}
self.gradInput={features=self.gradInput.features:set()}
self.rules=nil
end
function AF:suggestInputSize(nOut)
return nOut
end
end
Torch/AveragePooling.lua deleted 100644 → 0
View file @ f2e3800b
-- Copyright 2016-present, Facebook, Inc.
-- All rights reserved.
--
-- This source code is licensed under the license found in the
-- LICENSE file in the root directory of this source tree.
return function(sparseconvnet)
local C = sparseconvnet.C
local AveragePooling, parent = torch.class(
'sparseconvnet.AveragePooling', 'nn.Module', sparseconvnet)
function AveragePooling:__init(
dimension, poolSize, poolStride, nFeaturesToDrop)
parent.__init(self)
self.dimension = dimension
self.poolSize = sparseconvnet.toLongTensor(poolSize,dimension)
self.poolStride = sparseconvnet.toLongTensor(poolStride,dimension)
self.poolVolume = self.poolSize:prod()
self.nFeaturesToDrop = nFeaturesToDrop or 0
self.output = {
features = torch.FloatTensor(),
}
self.gradInput = {
features = torch.Tensor()
}
end
function AveragePooling:updateOutput(input)
self.output.metadata=input.metadata
self.output.spatialSize =
torch.cdiv(input.spatialSize-self.poolSize,self.poolStride)+1
C.dimTypedFn(self.dimension, self._type, 'AveragePooling_updateOutput')(
input.spatialSize:cdata(),
self.output.spatialSize:cdata(),
self.poolSize:cdata(),
self.poolStride:cdata(),
input.metadata.ffi,
input.features:cdata(),
self.output.features:cdata(),
self.nFeaturesToDrop,
self.shared.rulesBuffer and self.shared.rulesBuffer:cdata())
return self.output
end
function AveragePooling:updateGradInput(input, gradOutput)
C.dimTypedFn(self.dimension, self._type, 'AveragePooling_updateGradInput')(
input.spatialSize:cdata(),
self.output.spatialSize:cdata(),
self.poolSize:cdata(),
self.poolStride:cdata(),
input.metadata.ffi,
input.features:cdata(),
self.gradInput.features:cdata(),
gradOutput.features:cdata(),
self.nFeaturesToDrop,
self.shared.rulesBuffer and self.shared.rulesBuffer:cdata())
return self.gradInput
end
function AveragePooling:type(type,tensorCache)
if type==nil then
return self._type
end
self._type=type
self.output.features=self.output.features:type(type)
self.gradInput.features=self.gradInput.features:type(type)
end
function AveragePooling:__tostring()
local s = 'AveragePooling'
if self.poolSize:max()==self.poolSize:min()
and self.poolStride:max()==self.poolStride:min() then
s=s..self.poolSize[1] ..(self.poolStride[1]==1
and '' or '/'..self.poolStride[1])
else
s=s..'('..self.poolSize[1]
for i=2,self.dimension do
s=s..','..self.poolSize[i]
end
s=s..')/('..self.poolStride[1]
for i=2,self.dimension do
s=s..','..self.poolStride[i]
end
s=s..')'
end
if self.nFeaturesToDrop>0 then
s=s .. ' nFeaturesToDrop = ' .. self.nFeaturesToDrop
end
return s
end
function AveragePooling:clearState()
self.output={features=self.output.features:set()}
self.gradInput={features=self.gradInput.features:set()}
end
function AveragePooling:suggestInputSize(nOut)
return torch.cmul(nOut-1,self.poolStride)+self.poolSize
end
end
Torch/BatchNormalization.lua deleted 100644 → 0
View file @ f2e3800b
-- Copyright 2016-present, Facebook, Inc.
-- All rights reserved.
--
-- This source code is licensed under the license found in the
-- LICENSE file in the root directory of this source tree.
--[[
Parameters:
nPlanes : number of input planes
eps : small number used to stabilise standard deviation calculation
momentum : for calculating running average for testing (default 0.9)
affine : only 'true' is supported at present (default 'true')
noise : add multiplicative and additive noise during training if >0.
leakiness : Apply activation function inplace: 0<=leakiness<=1.
0 for ReLU, values in (0,1) for LeakyReLU, 1 for no activation function.
]]
return function(sparseconvnet)
local C = sparseconvnet.C
local BN,parent = torch.class(
'sparseconvnet.BatchNormalization', 'nn.Module', sparseconvnet)
function BN:__init(nPlanes, eps, momentum, affine, leakiness)
parent.__init(self)
assert(nPlanes%4==0)
self.nPlanes=nPlanes
self.leakiness=leakiness or 1
if affine ~= nil then
assert(type(affine) == 'boolean', 'affine has to be true/false')
self.affine = affine
else
self.affine = true
end
self.eps = eps or 1e-5
self.saveMean = torch.Tensor(nPlanes)
self.saveInvStd = torch.Tensor(nPlanes)
self.momentum = momentum or 0.9
self.runningMean = torch.Tensor(nPlanes)
self.runningVar = torch.Tensor(nPlanes)
if self.affine then
self.weight = torch.Tensor(nPlanes)
self.bias = torch.Tensor(nPlanes)
self.gradWeight = torch.Tensor(nPlanes)
self.gradBias = torch.Tensor(nPlanes)
end
self.output = {
features = torch.Tensor()
}
self.gradInput = {
features = torch.Tensor()
}
self:reset()
end
function BN:reset()
if self.affine then
self.weight:fill(1)
self.bias:zero()
end
self.runningMean:zero()
self.runningVar:fill(1)
self.saveMean:zero()
self.saveInvStd:fill(1)
end
function BN:updateOutput(input)
assert(input.features:size(2)==self.nPlanes)
self.output.metadata = input.metadata
self.output.spatialSize=input.spatialSize
C.typedFn(self._type,'BatchNormalization_updateOutput')(
input.features:cdata(),
self.output.features:cdata(),
self.saveMean:cdata(),
self.saveInvStd:cdata(),
self.runningMean:cdata(),
self.runningVar:cdata(),
self.weight and self.weight:cdata(),
self.bias and self.bias:cdata(),
self.eps,
self.momentum,
self.train,
self.leakiness)
return self.output
end
function BN:backward(input, gradOutput)
assert(self.train)
C.typedFn(self._type,'BatchNormalization_backward')(
input.features:cdata(),
self.gradInput.features:cdata(),
self.output.features:cdata(),
gradOutput.features:cdata(),
self.saveMean:cdata(),
self.saveInvStd:cdata(),
self.runningMean:cdata(),
self.runningVar:cdata(),
self.weight and self.weight:cdata(),
self.bias and self.bias:cdata(),
self.gradWeight and self.gradWeight:cdata(),
self.gradBias and self.gradBias:cdata(),
self.leakiness)
return self.gradInput
end
function BN:updateGradInput(input, gradOutput)
assert(false) --just call backward
end
function BN:accGradParameters(input, gradOutput, scale)
assert(false) --just call backward
end
function BN:__tostring()
local l
if self.leakiness==0 then
l=',ReLU'
elseif self.leakiness==1/3 then
l=',LeakyReLU(0.333..)'
elseif self.leakiness<1 then
l=',LeakyReLU('..self.leakiness..')'
else
l=''
end
local s = 'BatchNormalization(' ..
'nPlanes=' .. self.nPlanes..',' ..
'eps=' .. self.eps .. ',' ..
'momentum=' .. self.momentum .. l .. ')'
return s
end
function BN:clearState()
self.output={features=self.output.features:set()}
self.gradInput={features=self.gradInput.features:set()}
end
function BN:suggestInputSize(nOut)
return nOut
end
local BN,parent = torch.class('sparseconvnet.BatchNormReLU',
'sparseconvnet.BatchNormalization', sparseconvnet)
function BN:__init(nPlanes, eps, momentum)
parent.__init(self, nPlanes, eps, momentum, true, 0)
end
end
Torch/BatchNormalizationInTensor.lua deleted 100644 → 0
View file @ f2e3800b
-- Copyright 2016-present, Facebook, Inc.
-- All rights reserved.
--
-- This source code is licensed under the license found in the
-- LICENSE file in the root directory of this source tree.
--[[
Parameters:
nPlanes : number of input planes
eps : small number used to stabilise standard deviation calculation
momentum : for calculating running average for testing (default 0.9)
affine : only 'true' is supported at present (default 'true')
noise : add multiplicative and additive noise during training if >0.
leakiness : Apply activation function inplace: 0<=leakiness<=1.
0 for ReLU, values in (0,1) for LeakyReLU, 1 for no activation function.
]]
return function(sparseconvnet)
local C = sparseconvnet.C
local BN,parent = torch.class(
'sparseconvnet.BatchNormalizationInTensor', 'sparseconvnet.BatchNormalization', sparseconvnet)
function BN:__init(nPlanes, eps, momentum, outputColumnOffset)
parent.__init(self,nPlanes,eps,momentum, false, 1)
self.outputColumnOffset=outputColumnOffset
end
function BN:updateOutput(input)
local o = self.output.features:narrow(2,1+self.outputColumnOffset,self.nPlanes)
self.output.metadata = input.metadata
self.output.spatialSize=input.spatialSize
C.typedFn(self._type,'BatchNormalizationInTensor_updateOutput')(
input.features:cdata(),
o:cdata(),
self.saveMean:cdata(),
self.saveInvStd:cdata(),
self.runningMean:cdata(),
self.runningVar:cdata(),
self.weight and self.weight:cdata(),
self.bias and self.bias:cdata(),
self.eps,
self.momentum,
self.train,
self.leakiness)
return self.output
end
function BN:backward(input, gradOutput)
assert(self.train)
local o = self.output.features:narrow(2,1+self.outputColumnOffset,self.nPlanes)
local d_o = gradOutput.features:narrow(2,1+self.outputColumnOffset,self.nPlanes)
C.typedFn(self._type,'BatchNormalization_backward')(
input.features:cdata(),
self.gradInput.features:cdata(),
o:cdata(),
d_o:cdata(),
self.saveMean:cdata(),
self.saveInvStd:cdata(),
self.runningMean:cdata(),
self.runningVar:cdata(),
self.weight and self.weight:cdata(),
self.bias and self.bias:cdata(),
self.gradWeight and self.gradWeight:cdata(),
self.gradBias and self.gradBias:cdata(),
self.leakiness)
return self.gradInput
end
function BN:updateGradInput(input, gradOutput)
assert(false) --just call backward
end
function BN:accGradParameters(input, gradOutput, scale)
assert(false) --just call backward
end
function BN:__tostring()
local l
if self.leakiness==0 then
l=',ReLU'
elseif self.leakiness==1/3 then
l=',LeakyReLU(0.333..)'
elseif self.leakiness<1 then
l=',LeakyReLU('..self.leakiness..')'
else
l=''
end
local s = 'BatchNormalizationInTensor(' ..
'nPlanes=' .. self.nPlanes..',' ..
'eps=' .. self.eps .. ',' ..
'momentum=' .. self.momentum .. l .. ')'
return s
end
function BN:clearState()
self.output={features=self.output.features:set()}
self.gradInput={features=self.gradInput.features:set()}
end
function BN:suggestInputSize(nOut)
return nOut
end
end
Torch/BatchwiseDropout.lua deleted 100644 → 0
View file @ f2e3800b
-- Copyright 2016-present, Facebook, Inc.
-- All rights reserved.
--
-- This source code is licensed under the license found in the
-- LICENSE file in the root directory of this source tree.
--[[
Implementation of batchwise dropout, optionally followed by LeakyReLU
Parameters:
p : dropout probability in the range [0,1]
ip : perform dropout inplace (default true)
leaky : in the range [0,1]. Set to zero to do ReLU after the dropout. Set to one
just to do dropout. Set to 1/3 for LeakyReLU after the dropout, etc. (default 1)
]]
return function(sparseconvnet)
local C = sparseconvnet.C
local math = require 'math'
local BatchwiseDropout, parent = torch.class(
'sparseconvnet.BatchwiseDropout', 'nn.Module', sparseconvnet)
function BatchwiseDropout:__init(nPlanes,p,ip,leaky)
parent.__init(self)
self.inplace = (type(ip)~='boolean') or ip
self.p = p
self.leakiness=leaky or 1
self.noise=torch.Tensor(nPlanes)
self.nPlanes=nPlanes
self.output = ip and "Recycle" or {
features = torch.Tensor()
}
self.gradInput = ip and "Recycle" or {
features = torch.Tensor()
}
end
function BatchwiseDropout:updateOutput(input)
if self.train then
self.noise:bernoulli(1-self.p)
else
self.noise:fill(1-self.p)
end
if self.inplace then
self.output = input
else
self.output.metadata = input.metadata
self.output.spatialSize = input.spatialSize
end
C.typedFn(self._type,'BatchwiseMultiplicativeDropout_updateOutput')(
input.features:cdata(),
self.output.features:cdata(),
self.noise:cdata(),
self.leakiness)
return self.output
end
function BatchwiseDropout:updateGradInput(input, gradOutput)
if self.inplace then
self.gradInput = gradOutput
end
C.typedFn(self._type,'BatchwiseMultiplicativeDropout_updateGradInput')(
input.features:cdata(),
self.gradInput.features:cdata(),
gradOutput.features:cdata(),
self.noise:cdata(),
self.leakiness)
return self.gradInput
end
function BatchwiseDropout:type(type)
self._type=type
self.noise=self.noise:type(type)
if self.output.features then
self.output.features=self.output.features:type(type)
end
if self.gradInput.features then
self.gradInput.features=self.gradInput.features:type(type)
end
end
function BatchwiseDropout:__tostring()
local s = 'BatchwiseDropout('..self.p .. ", " .. self.leakiness..')'
return s
end
function BatchwiseDropout:clearState()
if self.inplace then
self.output=nil
self.gradInput=nil
else
self.output={features=self.output.features:set()}
self.gradInput={features=self.gradInput.features:set()}
end
end
function BatchwiseDropout:suggestInputSize(nOut)
return nOut
end
end
Torch/C.lua deleted 100644 → 0
View file @ f2e3800b
-- Copyright 2016-present, Facebook, Inc.
-- All rights reserved.
--
-- This source code is licensed under the license found in the
-- LICENSE file in the root directory of this source tree.
return function (sparseconvnet)
local ffi = require 'ffi'
local libpath, ok
libpath = package.searchpath('libcusparseconvnet', package.cpath)
if not libpath then
libpath = package.searchpath('libsparseconvnet', package.cpath)
end
assert(libpath)
local F = ffi.load(libpath)
--local fc=io.open('header_cpu.h','w')
--local fg=io.open('header_gpu.h','w')
local cdef = [[
void scn_set_THCState(void *state);
]]
ffi.cdef(cdef)
if cutorch then
F['scn_set_THCState'](cutorch.getState())
end
cdef = [[
void scn_ptrCopyA(long *dst, void **src);
void scn_ptrCopyB(void **dst, long *src);
double scn_ruleBookBits();
void scn_2_drawCurve(void **m, THFloatTensor *features, THFloatTensor *stroke);
]]
if fc then fc:write(cdef) end
ffi.cdef(cdef)
sparseconvnet.ruleBookBits=F['scn_ruleBookBits']()
cdef = [[
double scn_DIMENSION_addSampleFromThresholdedTensor(
void **m, THFloatTensor *features_, THFloatTensor *tensor_,
THLongTensor *offset_, THLongTensor *spatialSize_, float threshold);
void scn_DIMENSION_batchAddSample(void **m);
void scn_DIMENSION_createMetadataForDenseToSparse(
void **m, THLongTensor *spatialSize_, THLongTensor *pad, THLongTensor *nz,
long batchSize);
void scn_DIMENSION_freeMetadata(void **metadata);
void scn_DIMENSION_generateRuleBooks3s2(void **m);
void scn_DIMENSION_generateRuleBooks2s2(void **m);
void scn_DIMENSION_setInputSpatialSize(void **m, THLongTensor *spatialSize);
void scn_DIMENSION_setInputSpatialLocation(void **m, THFloatTensor *features,
THLongTensor *location, THFloatTensor *vec, bool overwrite);
void scn_DIMENSION_setInputSpatialLocations(void **m, THFloatTensor *features,
THLongTensor *locations, THFloatTensor *vecs, bool overwrite);
void scn_DIMENSION_getSpatialLocations(void **m, THLongTensor *spatialSize,
THLongTensor *locations);
]]
for DIMENSION = 1,10 do
local def = string.gsub(cdef, 'DIMENSION', DIMENSION)
ffi.cdef(def)
if fc then
def=string.gsub(def,'bool','_Bool')
fc:write(def)
end
end
--types CPU float, double;
--type GPU half, float, double; int_cpu and int_gpu
cdef = [[
void scn_ARCH_REAL_AffineReluTrivialConvolution_updateOutput(
THTensor *input_features, THTensor *output_features,
THTensor *affineWeight, THTensor *affineBias, THTensor *convWeight);
void scn_ARCH_REAL_AffineReluTrivialConvolution_backward(
THTensor *input_features, THTensor *d_input_features,
THTensor *d_output_features, THTensor *affineWeight,
THTensor *d_affineWeight, THTensor *affineBias, THTensor *d_affineBias,
THTensor *convWeight, THTensor *d_convWeight, bool additiveGrad);
// BatchwiseMultiplicativeDropout
void scn_ARCH_REAL_BatchwiseMultiplicativeDropout_updateOutput(
THTensor *input_features, THTensor *output_features,
THTensor *noise, long nPlanes, long input_stride, long output_stride,
float alpha);
void scn_ARCH_REAL_BatchwiseMultiplicativeDropout_updateGradInput(
THTensor *input_features, THTensor *d_input_features,
THTensor *d_output_features, THTensor *noise, long nPlanes,
long input_stride, long output_stride, float alpha);
// BatchNormalization
void scn_ARCH_REAL_BatchNormalization_updateOutput(
THTensor *input_features, THTensor *output_features,
THTensor *saveMean, THTensor *saveInvStd, THTensor *runningMean,
THTensor *runningVar, THTensor *weight, THTensor *bias, REAL eps,
REAL momentum, bool train, REAL leakiness);
void scn_ARCH_REAL_BatchNormalization_backward(
THTensor *input_features, THTensor *d_input_features,
THTensor *output_features, THTensor *d_output_features, THTensor *saveMean,
THTensor *saveInvStd, THTensor *runningMean, THTensor *runningVar,
THTensor *weight, THTensor *bias, THTensor *d_weight, THTensor *d_bias,
REAL leakiness);
// BatchNormalizationInTensor
void scn_ARCH_REAL_BatchNormalizationInTensor_updateOutput(
THTensor *input_features, THTensor *output_features,
THTensor *saveMean, THTensor *saveInvStd, THTensor *runningMean,
THTensor *runningVar, THTensor *weight, THTensor *bias, REAL eps,
REAL momentum, bool train, REAL leakiness);
// LeakyReLU
void scn_ARCH_REAL_LeakyReLU_updateOutput(
THTensor *input_features, THTensor *output_features,
float alpha);
void scn_ARCH_REAL_LeakyReLU_updateGradInput(
THTensor *input_features, THTensor *d_input_features,
THTensor *d_output_features, float alpha);
// NetworkInNetwork
double scn_ARCH_REAL_NetworkInNetwork_updateOutput(
THTensor *input_features, THTensor *output_features,
THTensor *weight, THTensor *bias);
void scn_ARCH_REAL_NetworkInNetwork_updateGradInput(
THTensor *d_input_features, THTensor *d_output_features,
THTensor *weight);
void scn_ARCH_REAL_NetworkInNetwork_accGradParameters(
THTensor *input_features, THTensor *d_output_features,
THTensor *d_weight, THTensor *d_bias);
]]
for _,v in ipairs({{'float', 'THFloatTensor'}, {'double','THDoubleTensor'}}) do
local def = cdef
def = string.gsub(def, 'ARCH', 'cpu')
def = string.gsub(def, 'THITensor', 'void')
def = string.gsub(def, 'REAL', v[1])
def = string.gsub(def, 'THTensor', v[2])
ffi.cdef(def)
if fc then
def=string.gsub(def,'bool','_Bool')
fc:write(def)
end
end
if sparseconvnet.cutorch then
for k,v in ipairs({
{'float', 'THCudaTensor'},
--{'double', 'THCudaDoubleTensor'}
})
do
local def = cdef
def = string.gsub(def, 'ARCH', 'gpu')
def = string.gsub(def, 'THITensor', sparseconvnet.ruleBookBits==64 and
'THCudaLongTensor' or 'THCudaIntTensor')
def = string.gsub(def, 'REAL', v[1])
def = string.gsub(def, 'THTensor', v[2])
ffi.cdef(def)
if fg then
def=string.gsub(def,'bool','_Bool')
fg:write(def)
end
end
end
cdef = [[
// ActivePooling
void scn_ARCH_REAL_DIMENSIONActivePooling_updateOutput(
THLongTensor *inputSize, void **m, THTensor *input_features,
THTensor *output_features, THITensor *rulesBuffer, bool average);
void scn_ARCH_REAL_DIMENSIONActivePooling_updateGradInput(
THLongTensor *inputSize, void **m,
THTensor *d_input_features, THTensor *d_output_features,
THITensor *rulesBuffer, bool average);
// Average Pooling
void scn_ARCH_REAL_DIMENSIONAveragePooling_updateOutput(
THLongTensor *inputSize, THLongTensor *outputSize,
THLongTensor *poolSize, THLongTensor *poolStride, void **m,
THTensor *input_features, THTensor *output_features, long nFeaturesToDrop,
THITensor *rulesBuffer);
void scn_ARCH_REAL_DIMENSIONAveragePooling_updateGradInput(
THLongTensor * inputSize, THLongTensor * outputSize,
THLongTensor * poolSize, THLongTensor * poolStride, void **m,
THTensor *input_features, THTensor *d_input_features,
THTensor *d_output_features, long nFeaturesToDrop,
THITensor *rulesBuffer);
double scn_ARCH_REAL_DIMENSIONConvolution_updateOutput(
THLongTensor *inputSize, THLongTensor *outputSize,
THLongTensor *filterSize, THLongTensor *filterStride, void **m,
THTensor *input_features, THTensor *output_features, THTensor *weight,
THTensor *bias, long filterVolume, THITensor *rulesBuffer);
void scn_ARCH_REAL_DIMENSIONConvolution_backward(
THLongTensor *inputSize, THLongTensor *outputSize,
THLongTensor *filterSize, THLongTensor *filterStride, void **m,
THTensor *input_features, THTensor *d_input_features,
THTensor *d_output_features, THTensor *weight, THTensor *d_weight,
THTensor *d_bias, long filterVolume, THITensor *rulesBuffer);
double scn_ARCH_REAL_DIMENSIONDeconvolution_updateOutput(
THLongTensor *inputSize, THLongTensor *outputSize,
THLongTensor *filterSize, THLongTensor *filterStride, void **m,
THTensor *input_features, THTensor *output_features, THTensor *weight,
THTensor *bias, long filterVolume, THITensor *rulesBuffer);
void scn_ARCH_REAL_DIMENSIONDeconvolution_backward(
THLongTensor *inputSize, THLongTensor *outputSize,
THLongTensor *filterSize, THLongTensor *filterStride, void **m,
THTensor *input_features, THTensor *d_input_features,
THTensor *d_output_features, THTensor *weight, THTensor *d_weight,
THTensor *d_bias, long filterVolume, THITensor *rulesBuffer);
// Max Pooling
void scn_ARCH_REAL_DIMENSIONMaxPooling_updateOutput(
THLongTensor *inputSize, THLongTensor *outputSize,
THLongTensor *poolSize, THLongTensor *poolStride, void **m,
THTensor *input_features, THTensor *output_features, long nFeaturesToDrop,
THITensor *rulesBuffer);
void scn_ARCH_REAL_DIMENSIONMaxPooling_updateGradInput(
THLongTensor * inputSize, THLongTensor * outputSize,
THLongTensor * poolSize, THLongTensor * poolStride, void **m,
THTensor *input_features, THTensor *d_input_features,
THTensor *output_features, THTensor *d_output_features,
long nFeaturesToDrop, THITensor *rulesBuffer);
// SparseToDense
void scn_ARCH_REAL_DIMENSIONSparseToDense_updateOutput(
THLongTensor *inputSize, void **m, THTensor *input_features,
THTensor *output_features, THITensor *rulesBuffer, long nPlanes);
void scn_ARCH_REAL_DIMENSIONSparseToDense_updateGradInput(
THLongTensor *inputSize, void **m, THTensor *input_features,
THTensor *d_input_features, THTensor *d_output_features,
THITensor *rulesBuffer);
double scn_ARCH_REAL_DIMENSIONSubmanifoldConvolution_updateOutput(
THLongTensor *inputSize, THLongTensor *filterSize, void **m,
THTensor *input_features, THTensor *output_features, THTensor *weight,
THTensor *bias, long filterVolume, THITensor *rulesBuffer);
void scn_ARCH_REAL_DIMENSIONSubmanifoldConvolution_backward(
THLongTensor *inputSize, THLongTensor *filterSize, void **m,
THTensor *input_features, THTensor *d_input_features,
THTensor *d_output_features, THTensor *weight, THTensor *d_weight,
THTensor *d_bias, long filterVolume, THITensor *rulesBuffer);
]]
for _,v in ipairs({{'float', 'THFloatTensor'}, {'double', 'THDoubleTensor'}}) do
for DIMENSION = 1,10 do
local def = cdef
def = string.gsub(def, 'ARCH', 'cpu')
def = string.gsub(def, '_DIMENSION', DIMENSION)
def = string.gsub(def, 'THITensor', 'void')
def = string.gsub(def, 'REAL', v[1])
def = string.gsub(def, 'THTensor', v[2])
ffi.cdef(def)
if fc then
def=string.gsub(def,'bool','_Bool')
fc:write(def)
end
end
end
if sparseconvnet.cutorch then
for k,v in ipairs({
{'float', 'THCudaTensor'},
--{'double', 'THCudaDoubleTensor'}
}) do
for DIMENSION = 1,10 do
local def = cdef
def = string.gsub(def, 'ARCH', 'gpu')
def = string.gsub(def, '_DIMENSION', DIMENSION)
def = string.gsub(def, 'THITensor', sparseconvnet.ruleBookBits==64 and
'THCudaLongTensor' or 'THCudaIntTensor')
def = string.gsub(def, 'REAL', v[1])
def = string.gsub(def, 'THTensor', v[2])
ffi.cdef(def)
if fg then
def=string.gsub(def,'bool','_Bool')
fg:write(def)
end
end
end
end
if fc then
fc:close()
fg:close()
end
sparseconvnet.C = {}
local C = sparseconvnet.C
local typeTable={}
typeTable['torch.FloatTensor'] = 'cpu_float'
typeTable['torch.DoubleTensor'] = 'cpu_double'
typeTable['torch.CudaHalfTensor'] = 'gpu_half' --todo
typeTable['torch.CudaTensor'] = 'gpu_float'
typeTable['torch.CudaDoubleTensor'] = 'gpu_double'
function C.fn(name)
return F['scn_' .. name]
end
function C.typedFn(type,name)
return F['scn_' .. typeTable[type] .. '_' .. name]
end
function C.dimensionFn(dimension,name)
return F['scn_' .. dimension .. '_' .. name]
end
function C.dimTypedFn(dimension,type,name)
return F['scn_' .. typeTable[type] .. dimension .. name]
end
function C.copyFfiPtrToLong(dst,src)
F['scn_ptrCopyA'](dst:data(), src)
end
function C.copyLongToFfiPtr(dst,src)
F['scn_ptrCopyB'](dst, src:data())
end
end
Torch/CAddTable.lua deleted 100644 → 0
View file @ f2e3800b
-- Copyright 2016-present, Facebook, Inc.
-- All rights reserved.
--
-- This source code is licensed under the license found in the
-- LICENSE file in the root directory of this source tree.
--[[
Assume all the inputs have identical SparseGrids and input[i].nActive
Assume input[1].nPlanes >= input[i].nPlanes for all i=1,#input
output.submanifoldRules is taken from input[1].submanifoldRules (could do set union?)
(for resnets, make sure the residual link is input[2])
]]
return function(sparseconvnet)
local CAddTable, parent = torch.class(
'sparseconvnet.CAddTable', 'nn.Module', sparseconvnet)
function CAddTable:__init(ip)
parent.__init(self)
self.inplace = type(ip)=='boolean' and ip
self.gradInput = {}
self.output = self.inplace and 'recycle' or {
features = torch.Tensor()
}
sparseconvnet.shareShared(self)
end
function CAddTable:add(module)
table.insert(self.modules,module)
sparseconvnet.shareShared(self)
return self
end
function CAddTable:updateOutput(input)
if self.inplace then
self.output=input[1]
else
self.output.features:resizeAs(input[1].features):copy(input[1].features)
self.output.metadata=input[1].metadata
self.output.spatialSize=input[1].spatialSize
end
for i=2,#input do
assert(input[i].nActive==input[1].nActive)
self.output.features:narrow(2,1,input[i].features:size(2)):add(input[i].features)
end
return self.output
end
function CAddTable:updateGradInput(input, gradOutput)
for i=1,#input do
if self.inplace and input[1].features:size(2) == input[i].features:size(2) then
self.gradInput[i]=self.gradInput[i] or {}
self.gradInput[i].features=gradOutput.features
else
self.gradInput[i]=self.gradInput[i] or {features=input[i].features.new()}
self.gradInput[i].features:resizeAs(input[i].features)
self.gradInput[i].features:copy(
gradOutput.features:narrow(2,1,input[i].features:size(2)))
end
end
for i=#input+1,#self.gradInput do
self.gradInput[i]=nil
end
return self.gradInput
end
function CAddTable:backwards(input, gradOutput)
for i=1,#input do
if self.inplace and input[1].features:size(2) == input[i].features:size(2) then
self.gradInput[i]=self.gradInput[i] or {}
self.gradInput[i].features=gradOutput.features
else
self.gradInput[i]=self.gradInput[i] or {features=input[i].features.new()}
self.gradInput[i].features:resizeAs(input[i].features)
self.gradInput[i].features:copy(
gradOutput.features:narrow(2,1,input[i].features:size(2)))
end
end
for i=#input+1,#self.gradInput do
self.gradInput[i]=nil
end
return self.gradInput
end
function CAddTable:clearState()
self.gradInput = {}
self.output = self.inplace and 'recycle' or {
features = self.output.features:set()
}
end
function CAddTable:suggestInputSize(nOut)
return nOut
end
end
Torch/CMakeLists.txt deleted 100644 → 0
View file @ f2e3800b
# Copyright 2016-present, Facebook, Inc.
# All rights reserved.
#
# This source code is licensed under the license found in the
# LICENSE file in the root directory of this source tree.
set(CMAKE_VERBOSE_MAKEFILE on)
CMAKE_MINIMUM_REQUIRED(VERSION 2.8 FATAL_ERROR)
CMAKE_POLICY(VERSION 2.8)
SET(CMAKE_MODULE_PATH "${CMAKE_CURRENT_SOURCE_DIR}/cmake" "${CMAKE_MODULE_PATH}")
FIND_PACKAGE(Torch REQUIRED)
SET(CMAKE_CXX_FLAGS "${CMAKE_CXX_FLAGS} -std=c++11 -fopenmp")
FILE(GLOB luasrc *.lua)
SET(src SCN/init.cpp)
ADD_TORCH_PACKAGE(sparseconvnet "${src}" "${luasrc}")
LINK_DIRECTORIES("${Torch_INSTALL_LIB}")
TARGET_LINK_LIBRARIES(sparseconvnet TH)
INCLUDE_DIRECTORIES(${CMAKE_CURRENT_SOURCE_DIR})
INCLUDE_DIRECTORIES(${CMAKE_CURRENT_SOURCE_DIR}/../PyTorch/sparseconvnet/SCN)
FIND_PACKAGE(CUDA 7.5)
IF(CUDA_FOUND)
# Detect CUDA architecture and get best NVCC flags
INCLUDE(${CMAKE_CURRENT_SOURCE_DIR}/SCN/cmake/FindCudaArch.cmake)
SELECT_NVCC_ARCH_FLAGS(NVCC_FLAGS_EXTRA)
LIST(APPEND CUDA_NVCC_FLAGS ${NVCC_FLAGS_EXTRA})
INCLUDE_DIRECTORIES("${Torch_INSTALL_INCLUDE}/THC")
LINK_DIRECTORIES("${Torch_INSTALL_LIB}")
FILE(GLOB src-cuda SCN/init.cu)
CUDA_ADD_LIBRARY(cusparseconvnet MODULE ${src-cuda})
TARGET_LINK_LIBRARIES(cusparseconvnet THC TH)
IF(APPLE)
SET_TARGET_PROPERTIES(cusparseconvnet PROPERTIES
LINK_FLAGS "-undefined dynamic_lookup")
ENDIF()
### Torch packages supposes libraries prefix is "lib"
SET_TARGET_PROPERTIES(cusparseconvnet PROPERTIES
PREFIX "lib"
IMPORT_PREFIX "lib")
INSTALL(TARGETS cusparseconvnet
RUNTIME DESTINATION "${Torch_INSTALL_LUA_CPATH_SUBDIR}"
LIBRARY DESTINATION "${Torch_INSTALL_LUA_CPATH_SUBDIR}")
ENDIF(CUDA_FOUND)
Torch/ClassificationTrainValidate.lua deleted 100644 → 0
View file @ f2e3800b
-- Copyright 2016-present, Facebook, Inc.
-- All rights reserved.
--
-- This source code is licensed under the license found in the
-- LICENSE file in the root directory of this source tree.
return function(sparseconvnet)
local function updateStats(stats, output, target, loss)
local batchSize = output:size(1)
stats.n = stats.n + batchSize
stats.nll = stats.nll + loss*batchSize
local _ , predictions = output:float():sort(2, true)
local correct = predictions:eq(
target:long():view(batchSize, 1):expandAs(output))
-- Top-1 score
stats.top1 = stats.top1 + correct:narrow(2, 1, 1):sum()
-- Top-5 score
local len = math.min(5, correct:size(2))
stats.top5 = stats.top5 + correct:narrow(2, 1, len):sum()
end
function sparseconvnet.ClassificationTrainValidate(model,dataset,p)
local t = model:type()
p.nEpochs=p.nEpochs or 100
p.initial_LR = p.initial_LR or 1e-2
p.LR_decay=p.LR_decay or 4e-2
p.weightDecay=p.weightDecay or 1e-4
p.momentum=p.momentum or 0.9
local optimState = {
learningRate=p.initial_LR,
learningRateDecay = 0.0,
momentum = p.momentum,
nesterov = true,
dampening = 0.0,
weightDecay = p.weightDecay,
epoch=1
}
if paths.filep('epoch.t7') then
model=torch.load('model.t7')
optimState.epoch=torch.load('epoch.t7')+1
print('Restarting at epoch '.. optimState.epoch ..' from model.t7 ..')
end
print(p)
local criterion = nn.CrossEntropyCriterion()
criterion:type(model:type())
local params, gradParams = model:getParameters()
print('#parameters', params:nElement())
local timer=torch.Timer()
for epoch = optimState.epoch,p.nEpochs do
model:training()
timer:reset()
local stats={top1=0, top5=0, n=0, nll=0}
optimState.learningRate = p.initial_LR*math.exp((1-epoch)*p.LR_decay)
for batch in dataset.train(epoch) do
batch.input:type(t)
batch.target=batch.target:type(t)
model:forward(batch.input)
criterion:forward(model.output, batch.target)
updateStats(stats,model.output,batch.target,criterion.output)
gradParams:zero() -- model:zeroGradParameters()
criterion:backward(model.output, batch.target)
model:backward(batch.input, criterion.gradInput)
local function feval()
return criterion.output, gradParams
end
optim.sgd(feval, params, optimState)
end
print(epoch,'train:',
string.format('top1=%.2f%%', 100*(1-stats.top1/stats.n)),
string.format('top5=%.2f%%', 100*(1-stats.top5/stats.n)),
string.format('nll: %.2f', stats.nll/stats.n),
string.format('%.1fs', timer:time().real))
if p.checkPoint then
model:clearState()
torch.save('model.t7',model)
torch.save('epoch.t7',epoch)
end
model:evaluate()
model.modules[1].shared.forwardPassMultiplyAddCount=0
model.modules[1].shared.forwardPassHiddenStates=0
timer:reset()
local stats={top1=0, top5=0, n=0, nll=0}
for batch in dataset.val() do
batch.input:type(t)
batch.target=batch.target:type(t)
model:forward(batch.input)
criterion:forward(model.output, batch.target)
updateStats(stats,model.output,batch.target,criterion.output)
end
print(epoch,'test:',
string.format('top1=%.2f%%', 100*(1-stats.top1/stats.n)),
string.format('top5=%.2f%%', 100*(1-stats.top5/stats.n)),
string.format('nll: %.2f', stats.nll/stats.n),
string.format('%.1fs', timer:time().real))
print(string.format('%.3e MultiplyAdds/sample %.3e HiddenStates/sample',
model.modules[1].shared.forwardPassMultiplyAddCount/stats.n,
model.modules[1].shared.forwardPassHiddenStates/stats.n))
end
end
end
Torch/ConcatTable.lua deleted 100644 → 0
View file @ f2e3800b
-- Copyright 2016-present, Facebook, Inc.
-- All rights reserved.
--
-- This source code is licensed under the license found in the
-- LICENSE file in the root directory of this source tree.
return function(sparseconvnet)
local ConcatTable, parent = torch.class(
'sparseconvnet.ConcatTable', 'nn.ConcatTable', sparseconvnet)
function ConcatTable:__init()
parent.__init(self)
self.modules={}
self.output={}
self.gradInput={
features=torch.Tensor()
}
sparseconvnet.shareShared(self)
end
function ConcatTable:add(module)
table.insert(self.modules,module)
sparseconvnet.shareShared(self)
return self
end
function ConcatTable:updateOutput(input)
for i = 1,#self.modules do
self.output[i]=self.modules[i]:forward(input)
end
for i = #self.modules+1,#self.output do
self.output[i]=nil
end
return self.output
end
function ConcatTable:backward(input, gradOutput)
local gradInputs={}
for i = 1,#self.modules do
gradInputs[i]=self.modules[i]:backward(input,gradOutput[i],scale)
end
self.gradInput.features:resizeAs(
gradInputs[1].features):copy(gradInputs[1].features)
for i=2,#self.modules do
self.gradInput.features:add(gradInputs[i].features)
end
return self.gradInput
end
function ConcatTable:clearState()
for _,m in ipairs(self.modules) do
m:clearState()
end
self.output={}
self.gradInput={features=self.gradInput.features:set()}
end
function ConcatTable:suggestInputSize(nOut)
return self.modules[1]:suggestInputSize(nOut)
end
end
Markdown is supported
0% or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment