Getting VCF-Miner started with Docker
Relevant links:
In a terminal, clone the repository:
git clone https://github.com/Steven-N-Hart/vcf-miner.git
cd vcf-miner
Next, build the image (see the following section if you get an error)
docker build -t vcfminer . # Dont forget the '.'!
On a Mac, when running 'docker build', you may need to run these commands to start the Docker daemon if you get this error: "Cannot connect to the Docker daemon. Is the docker daemon running on this host?"
# See: https://stackoverflow.com/questions/21871479/docker-cant-connect-to-docker-daemon
# And run these commands:
$ docker-machine start # Start virtual machine for docker
$ docker-machine env # It helps to get environment variables
$ eval "$(docker-machine env default)" # Set environment variables
Run the image
docker run -e NO_LDAP=1 -d -p 8888:8080 -v $PWD:/home -w /home vcfminer sh ./start.sh
Determine your docker IP Address. (Note: You may need to run the commands under the "On a Mac" section to see the $DOCKER_HOST variable)
# For example,
$ echo $DOCKER_HOST
tcp://192.168.99.100:2376
# In this case the IP address is: 192.168.99.100
Open a browser to http://your-ip:8888/vcf-miner/
Username: Admin
Password: temppass
Reminders:
- Doesn’t work on Internet Explorer
############################################################
Installing on bare metal centos6 or Docker
USER=example_user
# Note you may need sudo access to install on bare metal
yum install -y java-1.7.0-openjdk.x86_64 java-1.7.0-openjdk-devel wget tar git
wget -O /home/${USER}/mongodb.tgz https://fastdl.mongodb.org/linux/mongodb-linux-x86_64-rhel62-3.0.3.tgz
tar -zxvf /home/${USER}/mongodb.tgz -C /home/${USER}
cp /home/${USER}/mongodb-linux-x86_64-rhel62-3.0.3/bin/* /bin
mkdir -p /data/db /data/mongo
chmod 775 -R /data/mongo /data/db
#Get tomcat
wget http://archive.apache.org/dist/tomcat/tomcat-7/v7.0.62/bin/apache-tomcat-7.0.62.tar.gz
tar xvzf apache-tomcat-7.0.62.tar.gz
mv apache-tomcat-7.0.62 /usr/local
chmod 775 /usr/local/apache-tomcat-7.0.62/bin/*sh
#Delpoy VCF MINER war files
git clone https://github.com/Steven-N-Hart/vcf-miner.git
cd vcf-miner
cp *.war /usr/local/apache-tomcat-7.0.62/webapps/
#If you want to not use LDAP (cp securityuserapp-no-ldap.war /usr/local/apache-tomcat-7.0.62/webapps/securityuserapp.war)
echo -e '/usr/local/apache-tomcat-7.0.62/bin/catalina.sh &\nmongod --storageEngine wiredTiger' > start.sh
chmod 775 ./start.sh
./start.sh
Now open your browser to http://server_IP_address:8080/vcf-miner/ (but obviously using your IP address instead)
- Username: Admin
- Password: temppass
You are all set!