Funnel

Follow these instructions if you wish to deploy a TES endpoint in front of your HPC/HTC cluster (currently tested with Slurm and OpenPBS.

• Make sure the build dependencies make and Go 1.21+ are installed, GOPATH is set and GOPATH/bin is added to PATH.

  For example, in Ubuntu this can be achieved via:

  sudo apt update
  sudo apt install make golang-go
  export GOPATH=/your/desired/path
  export PATH=$GOPATH/bin:$PATH
  go version
  

• Clone the repository:

  git clone https://github.com/ohsu-comp-bio/funnel.git
  

• Build Funnel:

  cd funnel
  make
  

• Test the installation by starting the Funnel server with:

  funnel server run
  

If all works, Funnel should be ready for deployment on your HPC/HTC.

Alternatively, you can install Funnel via Homebrew:

brew tap ohsu-comp-bio/formula
brew install funnel@0.11

Source: Funnel website

Slurm

For the use of Funnel with Slurm, make sure the following conditions are met:

1. The funnel binary must be placed in a server with access to Slurm.
2. A config file must be created and placed on the same server. This file can be used as a starting point.
3. If we would like to deploy Funnel as a Systemd service, this file can be used as a template. Set the correct paths to the funnel binary and config file.

If successful, Funnel should be listening on port 8080.

OpenPBS

Under construction

More info coming soon...