Configure leginon.cfg for Appion/Leginon v2.1 and lower¶

The order in which Leginon/Appion looks for leginon.cfg¶

1. individual user home directory
2. $PYTHONSITEPKG/leginon/config
    
   Note: You can discover the $PYTHONSITEPKG path by starting python:
   

   python
   import sys
   sys.path
   

   
   The first path to site-packages should hold the config file.

configuration file template¶

A skeleton (default) configuration file is available:

$PYTHONSITEPKG/leginon/config/default.cfg

where $PYTHONSITEPKG is your python site-packages directory

Create a global leginon.cfg¶

Copy default.cfg to leginon.cfg.

sudo cp -v $PYTHONSITEPKG/leginon/config/default.cfg $PYTHONSITEPKG/leginon/config/leginon.cfg

Edit the newly created file and add a directory for images. Make sure you have permission to save files at this location. See File Server Setup Considerations for more details

You may put in a fake path on the microscope PC installation and ignore the error message at the start of Leginon if you follow our general rule of not saving any image directly from the microscope pc,

[Images]
path: your_storage_disk_path/leginon