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INSTALL.md

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Installing Cello

Note that Cello can be used with no downloads/installations required at www.cellocad.org.

If you experience bugs or the site is down, please contact [email protected].

Initial steps

Get the code from Git:
Make a results directory:

At the same directory-level as the repository, make a directory with the same name appended with '_results'.

For example, if the repository name is ~/cello/:

mkdir ~/cello_results/

If the repository is ~/cello_v2/:

mkdir ~/cello_v2_results/

When running Cello using the web interface, results are stored in this directory.

With Docker

Within the repository directory, run:

docker build -t cello .

This will build a docker image called cello from the instruction in Dockerfile.

Once this image has been built, a container can be derived from this image and run with the command:

docker run -p 8080:8080 -v /path/to/results/folder/:/cello_results -v /path/to/resources/folder:/cello/resources  cello
  • /path/to/results/folder is the path to the directory in which you want results to be stored. This path need not be at the same directory-level as the repository.
  • /path/to/resources/folder is the path to a directory that includes the contents of resources/ in this repository. The datase will be stored in a subdirectory of this called derbydb2. You can simply omit -v /path/to/resources/folder:/cello/resources/, but then database contents, including usernames and passwords will be lost when the container is stopped.

Both paths should be absolute: a path like ./results will not work, but $PWD/results will.

You may need to run the docker build and docker run commands using sudo, depending on how Docker is configured on your machine.

Once the container is running, you can connect to it by opening http://localhost:8080/ in your web-broweser. Results will appear in the specified directory (and can also be downloaded as zip files through the web interface).

Without Docker

Recommended: Homebrew package manager for Unix

http://brew.sh/

ruby -e "$(curl -fsSL https://raw.githubusercontent.com/Homebrew/install/master/install)"
Install Maven, the software package manager used in Cello
wget http://repos.fedorapeople.org/repos/dchen/apache-maven/epel-apache-maven.repo -O /etc/yum.repos.d/epel-apache-maven.repo
yum install apache-maven
  • Option 3: Unix commands
brew update
brew install maven
Add local jars to the local maven repository (.m2 directory)
cd ~/cello/resources/library
bash install_local_jars.sh

the install_local_jars.sh script adds these local jars to the maven repository ~/.m2/repository/

  • mvn install:install-file -Dfile=NetSynth.jar -DgroupId=org.cellocad -DartifactId=netsynth -Dversion=1.0 -Dpackaging=jar
  • mvn install:install-file -Dfile=eugene-2.0.0-SNAPSHOT-jar-with-dependencies.jar -DgroupId=org -DartifactId=eugene -Dversion=2.0.0 -Dpackaging=jar
Install other dependencies for automated figure generation

If Eugene is used (it's optional), then Java 1.7 is required. It will not work with 1.8.

Linux

sudo yum install gnuplot
sudo yum install ghostscript
sudo yum install ImageMagick
sudo yum install python-matplotlib
sudo yum install graphviz

Mac

brew update
brew install gnuplot
brew install ghostscript
brew install imagemagick
brew install graphviz

Matplotlib (available in anaconda python) http://continuum.io/downloads

Compile Cello
cd ~/cello/
mvn compile
Run Cello (see RUN.md )
Summary of all steps for installing Cello on a fresh Amazon EC2 instance:
sudo yum groupinstall "Development tools"
sudo yum install git
sudo yum install gnuplot
sudo yum install ghostscript
sudo yum install graphviz
sudo yum install python-matplotlib
sudo yum install ImageMagick
sudo yum install /lib/libgcc_s.so.1
sudo yum install ld-linux.so.2

sudo yum install wget
sudo wget http://repos.fedorapeople.org/repos/dchen/apache-maven/epel-apache-maven.repo -O /etc/yum.repos.d/epel-apache-maven.repo
sudo yum install -y apache-maven

sudo yum search java | grep 'java-'
sudo yum install java-1.7.0-openjdk.x86_64

cd ~/cello/resources/library
bash install_local_jars.sh
cd ~/cello/
mvn clean compile
mvn spring-boot:run &
sudo lsof -i:8080 (find the process running on port 8080)