Installation Troublshooting Guide¶

Perform system check¶

In addition to the downloads from our repository, there are several other requirements that you will get either from your OS installation source, or from its respective website. The system check in the Leginon package checks your system to see if you already have these requirements.

cd myami/leginon/ 
python syscheck.py

If python is not installed, this, of course will not run. If you see any lines like "*** Failed...", then you have something missing. Otherwise, everything should result in "OK".

Test Appion¶

• If appion was installed using setup.py you are ready to test out appion.

• Run the following script to test import of Appion libraries and binaries:
  

  cd myami/appion/
  ./check.sh
  

  
  NOTE
  You can ignore EMAN, MATLAB, and UCSF Chimera errors at this point.
   
  What about: raise LeginonConfigError('set IMAGE_PATH in leginonconfig.py')
  leginon.leginonconfig.LeginonConfigError: set IMAGE_PATH in leginonconfig.py

You need to edit leginon.cfg.

• Run the following script to test the installation of 3rd party processing packages:
  

  cd myami/appion/test
  python check3rdPartyPackages.py