Run relax at Google Cloud Computing
Background
This follows the same idea as from Run relax at cloud.sagemath.com
Make a rapid deployment of relax on a google computer cluster, and calculate for 2 months with 8 CPU's, for free.
Pricing
For this example of Google Cloud Computing, we wan't to have access to as many computer cores as possible
- The pricing explained here: https://cloud.google.com/pricing/
- A pricing calculator is here: https://cloud.google.com/products/calculator/
At November 2015, google give free trial of 300$. https://cloud.google.com/free-trial/
Note, there are some limitations:
- https://cloud.google.com/free-trial/docs/free-trial-quotas
- https://cloud.google.com/free-trial/#/faq
For this time, the most important limitation is 8 CPUs.
8 CPU's
For the price calculation of:
- 1 server
- using Free: Debian, CentOS, ...
- with a regular VM Class
- Instance type of (HIGH CPU) n1-highcpu-8 (vCPUs: 8, RAM: 7.20 GB)
- 0 SSD
- Datacenter location Europe
- Average days per month each server is running: 1 days, per month.
This 1 day price was of November 2015, $8.06. Constantly running is $171.70 per month.
This essentially gives you 2 months of free computation with 8 CPU's.
Start free trial
Please first see this video:
- https://cloud.google.com/compute/docs/linux-quickstart or https://www.youtube.com/watch?v=BnEhYaUY4sA
Go to: https://cloud.google.com/free-trial/ and click Start your free trial.
You need to sign up with a credit card. To prevent mis-abuse from robots and hackers.
Then go to: https://console.developers.google.com
- You should already have a project called My First Project.
- Create a new project in top right corner of the browser under the dropdown of My First Project.
- Call the new project relax with App Engine location at europe-west
Create a Virtual Machine instance
- Click then at Try Compute Engine or go to https://console.developers.google.com/compute
- Click Create instance
- Name: relax
- Zone: Don't change this. As of Nov 2015, it seems that if you change this, you cannot select more than 2 vCPU's
- Machine type: From the very bottom, create 8 vCPUs. 32 cores need an upgrade to you account, and the free trial only allows for 8 vCPU's.
- Boot disk: 10 GB of Ubuntu 14.04 LTS
- Zone: Now change this to: europe-west1-c
- Let the rest be default and click Create.
Access Virtual Machine instance
- Go to https://console.developers.google.com/compute
- In the line of relax, click SSH
- This should open a browser terminal window
Get relax and unpack
v=5.0.0
# Get relax
curl http://download.gna.org/relax/relax-$v.GNU-Linux.x86_64.tar.bz2 -o relax-$v.GNU-Linux.x86_64.tar.bz2
# Make home bin
mkdir -p $HOME/bin
tar xvjf relax-5.0.0.GNU-Linux.x86_64.tar.bz2
rm relax-5.0.0.GNU-Linux.x86_64.tar.bz2
ln -s $HOME/relax-5.0.0/relax $HOME/bin
# Add $HOME/bin to PATH
echo '' >> $HOME/.bashrc
echo 'export PATH=$PATH:$HOME/bin' >> $HOME/.bashrc
source $HOME/.bashrc
Solve depencies. See also Installation linux
sudo apt-get -y install python-numpy
Then test relax
relax -i
Then install other packages Solve depencies. See also Installation linux
sudo apt-get -y install python-scipy python-matplotlib python-pip
sudo apt-get -y install openmpi-bin openmpi-doc libopenmpi-dev
sudo pip install mpi4py
sudo pip install epydoc
# Check installation
relax -i
Inspect server
Install these very good server packages Solve depencies. See alsp Installation linux
sudo apt-get -y install htop
Then check server
uptime
whoami
lscpu
htop -u `whoami`
Then check mpirun
mpirun --version
mpirun --report-bindings -np 4 echo "hello world"
mpirun --np 8 relax --multi='mpi4py'
Install trunk of relax
Solve dependencies.
See alsp Installation linux
sudo apt-get -y install subversion scons grace
Checkout relax and build.
svn co svn://svn.gna.org/svn/relax/trunk relax_trunk
# Build
cd relax_trunk
scons
# Link to executable
cd $HOME
mkdir -p $HOME/bin
ln -s $HOME/relax_trunk/relax $HOME/bin/relax_trunk
# See relax info
relax_trunk -i
install Minfx
See Minfx
v=1.0.12
mkdir -p $HOME/Downloads
cd $HOME/Downloads
curl http://download.gna.org/minfx/minfx-$v.tar.gz -o minfx-$v.tar.gz
tar -xzf minfx-$v.tar.gz
cd minfx-$v
sudo pip install .
cd $HOME
# Test relax
relax_trunk -i
install Bmrblib
See Bmrblib
v=1.0.4
mkdir -p $HOME/Downloads
cd $HOME/Downloads
curl http://download.gna.org/bmrblib/bmrblib-$v.tar.gz -o bmrblib-$v.tar.gz
tar -xzf bmrblib-$v.tar.gz
cd bmrblib-$v
sudo pip install .
cd $HOME
# Test relax
relax_trunk -i
Check installation of relax
relax_trunk --time -x
Transfer files back and forth to the server
Se
Install gcloud
See https://cloud.google.com/sdk/
On your own computer
cd $HOME/Downloads
curl https://sdk.cloud.google.com | bash
source $HOME/.bash_profile
gcloud init
This will start a browser to authenticate you. When it ask for a ID, just write "test" and say no to cloning.
Then go to:
- https://console.developers.google.com/compute
- In the line of relax, click SSH, and drop down to: View gcloud command.
It could look like this. Try this in your own terminal. This should make some SSH keys and bring you to the server
gcloud compute --project "relax-1143" ssh --zone "europe-west1-c" "relax"
This should bring you to the google server.
lscpu
cat $HOME/.ssh/authorized_keys
exit
# At your own computer
ls -l $HOME/.ssh/google*
cat $HOME/.ssh/config
ssh-add -l
ssh-add $HOME/.ssh/google_compute_engine
ssh-add -l
Copy files
See: https://cloud.google.com/sdk/gcloud/reference/compute/copy-files
The ssh command was
gcloud compute --project "relax-1143" ssh --zone "europe-west1-c" "relax"
We make a test file and copy it
touch test.txt
gcloud compute --project "relax-1143" copy-files test.txt relax:~ --zone "europe-west1-c"
# Try a directory
mkdir testdir
cp test.txt testdir
gcloud compute --project "relax-1143" copy-files testdir relax:~ --zone "europe-west1-c"
# Back again
cd testdir
gcloud compute --project "relax-1143" copy-files relax:~/testdir . --zone "europe-west1-c"
ssh-config with gcloud
See https://cloud.google.com/sdk/gcloud/reference/compute/config-ssh
gcloud compute config-ssh makes SSHing to virtual machine instances easier by adding an alias for each instance to the user SSH configuration (~/.ssh/config) file.
gcloud compute --project "relax-1143" config-ssh
cat $HOME/.ssh/config
# ssh in
ssh relax.europe-west1-c.relax-1143
exit
# Use sed to change value of your local computes ssh config file
grep 'relax.europe-west1-c.relax-1143' $HOME/.ssh/config
sed 's/relax.europe-west1-c.relax-1143/gcc_relax/g' $HOME/.ssh/config
sed -i.bak 's/relax.europe-west1-c.relax-1143/gcc_relax/g' $HOME/.ssh/config
ls -l $HOME/.ssh/config*
grep 'gcc_relax' $HOME/.ssh/config
ssh gcc_relax
Use scp and rsync when gcloud has been ssh-config configured
#First fast check
touch test2.txt
scp test2.txt gcc_relax:
ssh gcc_relax
ls
exit
# Or use rsync
mkdir dirtest
rsync --progress -avzhe ssh ./dirtest gcc_relax:
ssh gcc_relax
ls
rmdir dirtest
exit
STOP the google instance after test to stop the billing of computation
See: https://cloud.google.com/compute/docs/instances/stopping-or-deleting-an-instance
By browser
Go to:
- https://console.developers.google.com/compute
- Tick the relax project and click the "Stop" button.
By terminal
# Get at list of projects
gcloud compute --project "relax-1143" instances list
# Start it, it takes 30 seconds.
gcloud compute --project "relax-1143" instances start --zone "europe-west1-c" "relax"
ssh gcc_relax
exit
# Stop it through terminal
gcloud compute --project "relax-1143" instances stop --zone "europe-west1-c" "relax"
# This should now not work
ssh gcc_relax
Upgrade account
To use 32 CPU's you need to upgrade your account
See
Deploy google datalab to your server
Cloud Datalab uses AppEngine and Managed VMs beta, which is available in the US region only.
Visit: https://cloud.google.com/datalab
- Launch datalab
- Sign in
- Start your server:
gcloud compute --project "relax-1143" instances start --zone "europe-west1-c" "relax" ssh gcc_relax
- Deploy to your project