CentOS6 on Google Compute EngineにDockerを入れ、Genome解析ツールをセットアップする ref: http://qiita.com/t_oginogin/items/f04e60ea54ef85a47859

docker

export TMPDIR=/data/tmp

file0.txt

sudo mkdir /data

file1.txt

sudo /usr/share/google/safe_format_and_mount -m "mkfs.ext4 -F" /dev/disk/by-id/google-disk-1 /data

file10.txt

sudo mkdir /data/ngs

file11.txt

sudo docker run -it --name chef -v /data/ngs:/ngs t.oginogin/chef /bin/bash

file12.txt

su - ubuntu

file13.txt

scp -o UserKnownHostsFile=/dev/null -o CheckHostIP=no -o StrictHostKeyChecking=no -i $HOME/.ssh/google_compute_engine vicuna.zip $USER@TYPE-GOOGLE-COMPUTE-ENGINE-PUBLIC-IP-HERE:/home/$USER

file14.txt

sudo mkdir /data/ngs/tmp
sudo mv ~/vicuna.zip /data/ngs/tmp/

file15.txt

sudo git clone https://github.com/t-oginogin/ngs_recipes.git /ngs/ngs_recipes

file16.txt

sudo mkdir /ngs/chef-solo

file17.txt

cd /ngs/ngs_recipes
sudo chef-solo -c solo.rb -j ./localhost.json

file18.txt

exit
exit

file19.txt

sudo docker commit chef t.oginogin/ngs

file2.txt

sudo /usr/share/google/safe_format_and_mount /dev/disk/by-id/google-disk-1 /data

file20.txt

sudo docker run -it --name ngs  -v /data/ngs:/ngs t.oginogin/ngs /bin/bash

file21.txt

su - ubuntu

file22.txt

bwa
bowtie
bowtie2
samtools
vicuna-omp-v1.0

file3.txt

sudo df -h

file4.txt

sudo mkdir /data/tmp

file5.txt

sudo yum -y install http://dl.fedoraproject.org/pub/epel/6/x86_64/epel-release-6-8.noarch.rpm
sudo yum -y install docker-io
sudo service docker start
sudo chkconfig docker on

file7.txt

sudo service docker restart

file8.txt

cd /data/
sudo yum install curl
sudo curl -o Dockerfile https://raw.githubusercontent.com/t-oginogin/dockerfiles/master/ubuntu/Dockerfile_chef

file9.txt

sudo docker build -t t.oginogin/chef .