Getting started with theano

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Remarks

Theano is a python library, which handles defining and evaluating symbolic expressions over tensor variables. Has various application, but most popular is deep learning.

Installation or Setup

Detailed instructions on getting theano set up or installed.

Installing Theano and configuring the GPU on Ubuntu 14.04

You can use the following instructions to install Theano and configure the GPU (assume a freshly installed Ubuntu 14.04):

# Install Theano
sudo apt-get install python-numpy python-scipy python-dev python-pip python-nose g++ libopenblas-dev git
sudo pip install Theano

# Install Nvidia drivers, CUDA and CUDA toolkit, following some instructions from http://docs.nvidia.com/cuda/cuda-installation-guide-linux/index.html
wget http://developer.download.nvidia.com/compute/cuda/7.5/Prod/local_installers/cuda-repo-ubuntu1404-7-5-local_7.5-18_amd64.deb # Got the link at https://developer.nvidia.com/cuda-downloads
sudo dpkg -i cuda-repo-ubuntu1404-7-5-local_7.5-18_amd64.deb
sudo apt-get update
sudo apt-get install cuda

sudo reboot
 

At that point, running nvidia-smi should work, but running nvcc won't work.

# Execute in console, or (add in ~/.bash_profile then run "source ~/.bash_profile"):
export PATH=/usr/local/cuda-7.5/bin:$PATH
export LD_LIBRARY_PATH=/usr/local/cuda-7.5/lib64:$LD_LIBRARY_PATH
 

At that point, both nvidia-smi and nvcc should work.

To test whether Theano is able to use the GPU:

Copy-paste the following in gpu_test.py :

# Start gpu_test.py
# From http://deeplearning.net/software/theano/tutorial/using_gpu.html#using-gpu
from theano import function, config, shared, sandbox
import theano.tensor as T
import numpy
import time

vlen = 10 * 30 * 768  # 10 x #cores x # threads per core
iters = 1000

rng = numpy.random.RandomState(22)
x = shared(numpy.asarray(rng.rand(vlen), config.floatX))
f = function([], T.exp(x))
print(f.maker.fgraph.toposort())
t0 = time.time()
for i in xrange(iters):
    r = f()
t1 = time.time()
print("Looping %d times took %f seconds" % (iters, t1 - t0))
print("Result is %s" % (r,))
if numpy.any([isinstance(x.op, T.Elemwise) for x in f.maker.fgraph.toposort()]):
    print('Used the cpu')
else:
    print('Used the gpu')
# End gpu_test.py
 

and run it:

THEANO_FLAGS='mode=FAST_RUN,device=gpu,floatX=float32' python gpu_test.py
 

which should return:

f@f-Aurora-R4:~$ THEANO_FLAGS='mode=FAST_RUN,device=gpu,floatX=float32' python gpu_test.py
Using gpu device 0: GeForce GTX 690
[GpuElemwise{exp,no_inplace}(<CudaNdarrayType(float32, vector)>), HostFromGpu(GpuElemwise{exp,no_inplace}.0)]
Looping 1000 times took 0.658292 seconds
Result is [ 1.23178029  1.61879349  1.52278066 ...,  2.20771813  2.29967761
  1.62323296]
Used the gpu
 

To know your CUDA version:

​nvcc -V
 

Example:

username@server:~$ nvcc -V
nvcc: NVIDIA (R) Cuda compiler driver
Copyright (c) 2005-2015 NVIDIA Corporation
Built on Tue_Aug_11_14:27:32_CDT_2015
Cuda compilation tools, release 7.5, V7.5.17
 

Adding cuDNN

To add cuDNN (instructions from http://deeplearning.net/software/theano/library/sandbox/cuda/dnn.html):

  1. Download cuDNN from https://developer.nvidia.com/rdp/cudnn-download (need registration, which is free)
  2. tar -xvf cudnn-7.0-linux-x64-v3.0-prod.tgz
  3. Do one of the following

Option 1: Copy the *.h files to CUDA_ROOT/include and the *.so* files to CUDA_ROOT/lib64 (by default, CUDA_ROOT is /usr/local/cuda on Linux).

sudo cp cuda/lib64/* /usr/local/cuda/lib64/
sudo cp cuda/include/cudnn.h /usr/local/cuda/include/
 

Option 2:

export LD_LIBRARY_PATH=/home/user/path_to_CUDNN_folder/lib64:$LD_LIBRARY_PATH
export CPATH=/home/user/path_to_CUDNN_folder/include:$CPATH
export LIBRARY_PATH=/home/user/path_to_CUDNN_folder/lib64:$LD_LIBRARY_PATH
 

By default, Theano will detect if it can use cuDNN. If so, it will use it. If not, Theano optimizations will not introduce cuDNN ops. So Theano will still work if the user did not introduce them manually.

To get an error if Theano can not use cuDNN, use this Theano flag: optimizer_including=cudnn .

Example:

THEANO_FLAGS='mode=FAST_RUN,device=gpu,floatX=float32,optimizer_including=cudnn' python gpu_test.py
 

To know your cuDNN version:

cat /usr/local/cuda/include/cudnn.h | grep CUDNN_MAJOR -A 2
 

Adding CNMeM

The CNMeM library is a "Simple library to help the Deep Learning frameworks manage CUDA memory.".

# Build CNMeM without the unit tests
git clone https://github.com/NVIDIA/cnmem.git cnmem
cd cnmem
mkdir build
cd build
sudo apt-get install -y cmake
cmake ..
make

# Copy files to proper location
sudo cp ../include/cnmem.h /usr/local/cuda/include
sudo cp *.so /usr/local/cuda/lib64/
cd ../..
 

To use with Theano, you need to add the lib.cnmem flag. Example:

THEANO_FLAGS='mode=FAST_RUN,device=gpu,floatX=float32,lib.cnmem=0.8,optimizer_including=cudnn' python gpu_test.py
 

The first output of the script should be:

Using gpu device 0: GeForce GTX TITAN X (CNMeM is enabled with initial size: 80.0% of memory, cuDNN 5005)
 

lib.cnmem=0.8 means that it can use up to 80% of the GPU.

CNMeM has been reported to give some interesting speed improvements, and is supported by Theano, Torch, and Caffee.

Theano - source 1:

The speed up depend of many factor, like the shapes and the model itself. The speed up go from 0 to 2x faster.

Theano - source 2:

If you don't change the Theano flag allow_gc, you can expect 20% speed up on the GPU. In some case (small models), we saw a 50% speed up.


Common issues:

Running Theano on multiple CPU cores

You can run Theano on multiple CPU cores with the OMP_NUM_THREADS=[number_of_cpu_cores] flag.

Example:

OMP_NUM_THREADS=4 python gpu_test.py 
 

The script theano/misc/check_blas.py outputs information regarding which BLAS is used:

cd [theano_git_directory]
OMP_NUM_THREADS=4 python theano/misc/check_blas.py
 

Your first theano program

In this example, we will compile functions that computes sum and difference given two real number.

from __future__ import print_function
import theano
import theano.tensor as T

#define two symbolic scalar
s_x = T.fscalar()
s_y = T.fscalar()

#compute something
s_sum = s_x + s_y
s_diff = s_x - s_y

#compile a function that adds two number
#theano will call system compiler at here
fn_add = theano.function(inputs=[s_x, s_y], outputs=s_sum)
fn_diff = theano.function(inputs=[s_x, s_y], outputs=s_diff)

#call the compiled functions
print(fn_add(2., 2.)) #4.
print(fn_diff(2., 2.)) #0.
 

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Monday, October 24, 2016
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