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Setting up GPU-enabled Tensorflow to work with Zeppelin

Sometimes we want to do some quick Deep Learning prototyping using TensorFlow. We also want to take advantage of Spark for data pre-processing, scaling, feature extraction while keeping it all in the same place for demo. This step-by-step guide will go through process of setting up those tools to work with each other.

My setup:

  • AWS GPU-enabled instance (any g2)
  • Ubuntu 14.04
  • HDP 2.5

This tutorial has been partly based on this script: https://gist.github.com/erikbern/78ba519b97b440e10640, but has been heavily updated and modified.

First, let’s install and set up some pre-reqs:

sudo apt-get update 
sudo apt-get upgrade -y # choose maintainers version
sudo apt-get install -y build-essential python-pip python-dev git python-numpy swig python-dev default-jdk zip zlib1g-dev

Then, disable nouveau and update initramfs

echo -e "blacklist nouveau\nblacklist lbm-nouveau\noptions nouveau modeset=0\nalias nouveau off\nalias lbm-nouveau off\n" | sudo tee /etc/modprobe.d/blacklist-nouveau.conf
echo options nouveau modeset=0 | sudo tee -a /etc/modprobe.d/nouveau-kms.conf
sudo update-initramfs -u
sudo reboot # we do actually need to reboot it 
sudo apt-get install -y linux-image-extra-virtual
sudo reboot

Let's also install linux-headers and linux-source

sudo apt-get install -y linux-source linux-headers-`uname -r`

Now, we need to get CUDA. At the time of writing this article, latest version was 7.5

wget http://developer.download.nvidia.com/compute/cuda/7.5/Prod/local_installers/cuda_7.5.18_linux.run
chmod +x cuda_7.5.18_linux.run
./cuda_7.5.18_linux.run -extract=`pwd`/nvidia_installers
cd nvidia_installers
sudo ./NVIDIA-Linux-x86_64-352.39.run
sudo modprobe nvidia
sudo ./cuda-linux64-rel-7.5.18-19867135.run
cd ..

It would be too easy for NVidia if that was it. Now we need to get CuDNN from their Accelerated Computing Program. You would need to apply for it here. (https://developer.nvidia.com/cudnn). Approval shouldn’t take more than couple of hours.

Once approved, go to download page here (https://developer.nvidia.com/rdp/cudnn-download) and get cuDNN v5 for CUDA 7.5. This one:

7355-screen-shot-2016-09-06-at-103216-am.png

Then, scp this file from your local machine to remote host. Once it’s there, do:

tar -xf cudnn-7.5-linux-x64-v5.0-ga.tar
sudo cp cuda/lib64/* /usr/local/cuda/lib64/
sudo cp cuda/include/cudnn.h /usr/local/cuda/include/
sudo add-apt-repository ppa:webupd8team/java
sudo apt-get update
sudo apt-get install oracle-java8-installer

We will also need setup tools called Bazel. I used bazel v 0.3.1 but newer version should work too.

wget https://github.com/bazelbuild/bazel/releases/download/0.3.1/bazel-0.3.1-installer-linux-x86_64.sh
chmod +x bazel-0.3.1-installer-linux-x86_64.sh
./bazel-0.3.1-installer-linux-x86_64.sh --user

Let's save environment variables to ~/.bashrc

echo 'export PATH="$PATH:$HOME/bin"' >> ~/.bashrc
echo 'export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:/usr/local/cuda/lib64"' >> ~/.bashrc
echo 'export CUDA_HOME=/usr/local/cuda' >> ~/.bashrc
source ~/.bashrc

Getting TensorFlow from GitHub

git clone --recurse-submodules https://github.com/tensorflow/tensorflow
cd tensorflow

Here we need to do some manual setup. Open third_party/gpus/crosstool/CROSSTOOL and add "/usr/local/cuda-7.5/include" to cxx_builtin_include_directory property. It should look something like that:

7353-screen-shot-2016-09-06-at-121652-pm.png

Then, start configuration and building:

./configure
bazel build -c opt --config=cuda //tensorflow/tools/pip_package:build_pip_package
bazel-bin/tensorflow/tools/pip_package/build_pip_package /tmp/tensorflow_pkg

Finally, installing TensorFlow package from wheel.

sudo pip install /tmp/tensorflow_pkg/tensorflow-0.10.0rc0-cp27-none-linux_x86_64.whl

At this point, we have Tensorflow working with GPU support, but we also need to make it available for Zeppelin. To do that, we need to show Zeppelin where our CUDA is installed.

echo 'export PATH="$PATH:$HOME/bin"' >> /etc/zeppelin/conf/zeppelin-env.sh
echo 'export LD_LIBRARY_PATH="$LD_LIBRARY_PATH:/usr/local/cuda/lib64"' >> /etc/zeppelin/conf/zeppelin-env.sh
echo 'export CUDA_HOME=/usr/local/cuda' >> etc/zeppelin/conf/zeppelin-env.sh

This should work with Zeppelin now. If python throws error that it can't find CUDA while importing TensorFlow, try again after restarting Zeppelin.

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Comments
Super Guru

do you have an example zeppelin notebook to share?

Contributor

Thanks a lot for this article. What are you using to run TF on Spark in this configuration?

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Last update:
‎08-17-2019 10:20 AM
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