inutano/README.md

## README.md

      
    Raw
  

              README.md
            
          
    sem4j to go

A galaxy-based web application to enable semantic/path search by cypher query on Neo4j, designed for everyone.
Demo site

Running galaxy here
Getting Started

Detailed manual will be available soon (At least we hope it will).

Launch instance from public AMI (working)
Open Galaxy

http://<your instance's url>:8080


Use Cypher Tools

Convert data to graph

Tab-to-Graph


Load it to Neo4J

Graph-to-DB


Visualize and search

Graph Viewer


Components


Amazon EC2
Galaxy
Cypher Tool from Galaxy Toolshed

Currently hosted at Github repo
will be published to toolshed soon (?)


Neo4J
Sem4J Viewer from github repo

How we built

AMI Configuration log
# into the cloud...

# Download Neo4J
wget "http://dist.neo4j.org/neo4j-community-2.0.1-unix.tar.gz"

# Download Python and build it
wget "http://www.python.org/ftp/python/2.7.5/Python-2.7.5.tgz"

# Download galaxy
hg clone "https://bitbucket.org/galaxy/galaxy-dist/"

# Start Neo4J and Galaxy on reboot
nano /etc/init.d/neo4j-init
nano /etc/init.d/galaxy-init
chkconfig --add neo4j-init
chkconfig --add galaxy-init
chkconfig neo4j-init on
chkconfig galaxy-init on

# Clone sem4j viewer repo
git clone https://github.com/sem4j-jp/sem4j-viewer.git
make sure that the permission of *-init scripts and running scripts is 755!
#!/bin/sh
# chkconfig: 2345 98 98
# description: initialize Neo4J server
# processname: neo4j-init

do_start(){
  export JAVA_HOME=/home/ec2-user/java/latest && /home/ec2-user/neo4j/latest/bin/neo4j start
}

do_stop(){
  /home/ec2-user/neo4j/latest/bin/neo4j stop  
}

case "$1" in
  start)
    do_start
    ;;
  stop)
    do_stop
    ;;
  restart)
    do_stop
    do_start
    ;;
  *)
    echo "Usage: $0 {start|stop|restart}"
    RETVAL=1
esac

exit $RETVAL
#!/bin/sh
# chkconfig: 2345 99 99
# description: initialize galaxy daemon

do_start(){
  /home/ec2-user/galaxy/galaxy-dist/run.sh --daemon
}

do_stop(){
  echo "stop"
}

case "$1" in
  start)
    do_start
    ;;
  stop)
    do_stop
    ;;
  restart)
    do_stop
    do_start
    ;;
  *)
    echo "Usage: $0 {start|stop|restart}"
    RETVAL=1
esac

exit $RETVAL