sc17

by google-aai

google-aai / sc17

SuperComputing 2017 Deep Learning Tutorial

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Step-by-Step Deep Learning Tutorial

Authors: Cassie Kozyrkov (@kozyrkov) and Brian Foo (@bkungfoo)

Team: Google Applied AI

Follow along with us!

Take a look at these walkthrough slides with screenshots to guide you along:

github.com/kozyrkov/deep-learning-walkthrough

Bonus: slides contain ML hints, summaries, and pitfall alerts.

Create and Setup Cloud Project

This tutorial is meant to run fully on the Google Cloud Platform.

Starting with your web browser, do the following:

Editing Resource Quota

Why edit resource quota? To complete this tutorial, you will need more computing resources than your Google Cloud Platform account has access to by default. One reason that accounts start out with limits on resources is that this protects users from being billed unexpectedly for the more expensive options. For more information, see the quotas documentation page.

For this project, we will require several types of resources:

  • Compute Engine VM for Data Science: We will create a VM that you will log into and do most of your work and run notebooks. You will have the option of creating a VM with a GPU choice, or no GPU. A GPU is strongly recommended for deep network training because it dramatically cuts down the time to completion. However, the cost is also higher. Please refer to the resource guide for a brief discussion and comparison of performances and costs.

  • Cloud resources: We will be using Dataflow to run distributed preprocessing jobs. Thus, we need to extend quotas on Cloud resources, such as CPUs, IP addresses, and total disk space.

We will be setting quotas for these two types of resources. Note that quotas only determine the maximum amount of a resource that your project is allowed to request! It does not mean that your jobs will use this amount necessarily, but that you are permitted to use up to this amount. The general guideline is to set higher quotas such that there is no need to readjust them for compute-intensive tasks.

Quota Setup Instructions:

To set up the data science VM, we will need to extend the quota for GPUs. * Select your project from the list on the resource quota page. * (If this is the first time creating the project, compute engine may still need to boot up. If the quota page does not have GPU options, click on "Compute Engine" in the dropdown menu on the top left, and click quota there. Wait for it to load, and return to the quota page above.) * If you would like to try out a GPU machine (recommended), find a region that has gpu support. At the time this tutorial was written, valid regions include us-east1, us-west1, europe-west1, and asia-east1. * Select your chosen region from the Region dropdown menu. Then select the following: * NVIDIA K80 GPUs * NVIDIA P100 GPUs * Click "+ edit quotas" at the top of the page. Change the fields above to the following values: * NVIDIA K80 GPUs: 1 * NVIDIA P100 GPUs: 1 * Follow the process to submit a request.

To setup cloud resources for preprocessing jobs, follow a similar request as above to edit quotas: * Find a region with Dataflow support At the time this tutorial was written, valid regions include us-central1 and europe-west1. * Select this region in the dropdown menu on the resource quota page. * Change the following quotas: * CPUs: 400 * In-use IP addresses: 100 * Persistent Disk Standard (GB): 65536 * Select region "Global" in the dropdown menu: * Change the following quotas: * CPUs (all regions): 400

After you have completed these steps, you will need to wait until you receive an email approving of the quota increases. Please note that you may be asked to provide credit card details to confirm these increases.

Setup Cloud Project Components and API

Expected setup time: 5 minutes

Click on the ">_" icon at the top right of your web console to open a cloud shell. Inside the cloud shell, execute the following commands:

git clone https://github.com/google-aai/sc17.git
cd sc17

If you happen to have the project files locally, you can also upload locally by clicking on the 3 vertically arranged dots on the top right of the shell window, and then click "upload file".

After you have the proper scripts uploaded, set permissions on the following script:

chmod 777 setup_step_1_cloud_project.sh

Then run the script to create storage, dataset, and compute VMs for your project (Note: using the "sh" command will fail as it is missing some necessary syntax in the cloud shell environment.)

./setup_step_1_cloud_project.sh project-name [gpu-type] [compute-region] [dataflow-region]

where: * [project-name] is the ID of the project you created (check the Cloud Dashboard for the ID extension if needed) * gpu-type is either None, K80, or P100 (default: None) * compute-region is the region you will create your data science VM (default: us-east1) * dataflow-region is where you will run dataflow preprocessing jobs (default: us-central1)

If this is your first time setting up the project, you will be prompted during the course of running the script, such as selecting the number corresponding to your project. Enter what is needed to allow the script to continue running.

If the script stops with an error message "ERROR [timestamp]: message" (e.g. quota limits are too low), use relevant parts of the error message to fix your project setting if needed, and rerun the script.

Setting up your VM environment

Library installations

Expected setup time: 15 minutes

From the VM instances page, click the "SSH" text under "Connect" to connect to your compute VM instance. You may have to click twice if your browser auto-blocks pop-ups.

In the new window, run git clone to download the project onto your VM, and cd into it:

git clone https://github.com/google-aai/sc17.git
cd sc17

If you happen to have the project files locally, you can also upload locally by opening your Storage Bucket from the GCP Console menu and dragging your local files over. Then in your VM window, download them from your storage bucket by running:

gsutil cp [gs://[bucket-name]/* .]

Note that tab-complete will work after

gs://
if you don't know your bucket name.

After you have the script files downloaded to your VM, run the following script:

sh setup_step_2_install_software.sh

The script should setup opencv dependencies, python, virtual env, and jupyter. It will also automatically detect the presence of an NVIDIA GPU and install/link CUDA libraries and tensorflow GPU if necessary. The script will also prompt you to provide a password at some point. This password is for connecting to jupyter from your web browser. Please take note of it since you'll be prompted to enter it when you start working in Jupyter.

To complete and test the setup, reload bashrc to load the newly created virtual environment:

. ~/.bashrc

Use Unix Screen to Start a Notebook

Screen takes a little to get used to, but it will make working on cloud VMs much more pleasant, especially with a project that needs to run many tasks!

For those not familiar with the unix screen command, Screen is known as a "terminal multiplexer", which allows you to run multiple terminal (shell) instances at the same time in your ssh session. Furthermore, Screen sessions are NOT tied to your ssh session, which means that if you accidentally log out or disconnect from your ssh session in the middle of running a long process running on your VM, you will not lose your work!

Furthermore, you might want multiple processes running simultaneously and have an easy way to switch back and forth. A simple example is that you want to leave your Jupyter notebook open while running a Cloud Dataflow job (which you do not want abruptly canceled!). Running these in separate terminals is ideal.

To start screen for the first time, run:

screen

and press return. This opens up a screen terminal (defaults to terminal 0).

Let's create one more Screen terminal (terminal 1) by pressing

Ctrl-a
, and then
c
(We will write this shorthand as
Ctrl-a c
)

You can now jump between the two terminals by using

Ctrl-a n
, or access them directly using
Ctrl-a 0
or
Ctrl-a 1
.

Go to terminal 0 by typing

Ctrl-a 0
, and then type:
jupyter notebook

to start jupyter.

Finally, detach from both Screen terminals by typing

Ctrl-a d
. If you want to resume the screen terminals, simply type:
screen -R

Fantastic! Now let's do another cool trick: Make sure you are detached from Screen terminals (type

Ctrl-a d
if necessary), and then exit the machine by typing:
exit

at the command line. You just exited the machine, but the Screen terminals are still be running, including Jupyter which you started in Screen!

Connecting to Jupyter

Jupyter is now running inside a Screen terminal even though your ssh session has ended. Let's try it out through an ssh tunnel (For security reasons, we will not simply open up a firewall port and show your notebook to the entire world!)

On your local computer, make sure you have gcloud sdk installed. Then run:

gcloud init

Follow the instructions and choose your project, and then choose the region corresponding to where your vm was created. After this has been setup, run:

gcloud compute config-ssh

After this runs successfully, you will get this back in your shell:

You should now be able to use ssh/scp with your instances.
For example, try running:

$ ssh [instance-name].[zone-name].[project-name]

Run the suggested command to check that ssh works when connecting to your cloud VM. Then exit the ssh shell by typing

exit
.

Now we are ready to connect to Jupyter! Run the same ssh command again, but this time, add some flags and ports:

ssh -N -f -L localhost:8888:localhost:5000 [instance-name].[zone-name].[project-name]

This command basically configures port forwarding, redirecting port 5000 on your cloud VM to your own computer's port 8888. Now go to your web browser, and type:

localhost:8888

If you see a password page for Jupyter, enter your password as prompted. Once you are in, you can see the notebook view of the directory you started Jupyter in.

Before proceeding, please read the resource guide to beware of common pitfalls (such as forgetting to stop your VM when not using it!) and other ways to save on cost.

Hooray! Let's go detect some cats!

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