Spyking Circus

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Using Spyking-Circus

To use Spyking-circus, you will need to load this environment with module command. Module allows to you to easily switch version of software by loading and unloading.

• Use module av to see which modules are available
• Use module list to see which module is loaded
• E.g: module load phy/spyking_circus_dev (You can do this in your home directory)
  
  

Installation/updating from github (experts only)

This tutorial describes how to update the spyking circus version on knode01. Only Katia and Stephen have the right to (un)install Python packages on knode.

• git clone https://github.com/spyking-circus/spyking-circus.git
• Change the git branch
• cd spyking-circus
• git checkout folders (probably not anymore)
  
• Update with pip command: pip install -e .

Be careful! If you install with conda, you need to activate the environment first to be sure that the package is installed in spyking_circus_dev environment (You don’t need to do this if you only want to use spiking_circus command or install an update spyking circus folders):

• source activate spyking_circus_dev
• Load the environment (see above)
• Update spyking circus (folders version)

Use conda command package with pip to install the right mpi versions and pyqt (we have to use mpich for MPI backend):

• conda install -c mpi4py mpi4py
• conda install -c anaconda pyqt