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flybrainenv

Shared login scripts and other configuration info for the lmb linux cluster

use

You should add the following at the end of your lmb ~/.login.

source /public/flybrain/flybrain.csh

Note do not put it in your .cshrc because the /public/com/lmbwide.login which is called from your .login will still clobber your path after .cshrc has been run.

There is a corresponding file to add to your .bashrc so that your path can be set for bash scripts running on the cluster.

source /public/flybrain/flybrain.sh

installing software

You have two options when using /public/flybrain/

  1. Use the prefix=/public/flybrain/
    1. this will then have folders like /public/flybrain/bin /public/flybrain/lib and /public/flybrain/include analogous to the corresponding folders in /usr/local.
  2. Make a subfolder such as /public/flybrain/R
    1. add a versioned subsubfolder e.g. R-3.5.1
    2. symlink the main executable from the subsubfolder to the subfolder
    3. add the subfolder /public/flybrain/R to the path in flybrain.csh/flybrain.sh

Option 1 is simpler, but option 2 is good if there may be multiple versions of the software installed over time.

location

These scripts are designed to live in /public/flybrain/ on the lmb cluster.