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Test run operation problems » History » Revision 32

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Amber Herold, 08/02/2010 12:01 PM


Test run operation problems

Python and Leginon windows do not stay opened on
Windows PC

Why:
  • Windows closes the python process window because an error is detected.
Testing: Start Leginon from a python command window so that the error message can be
read
  • Follow the following menu to open a python command window:

Windows/Start Menu/All Programs/Python2.5/Python (command line)

  • Python> import start
  • Read the error message. Copy it to your bug report when asking NRAMM for
    help.

Missing modules

Why:
  • Either the python path is not set up correctly or the module was not installed
    properly.
Testing:
  • script: <link linkend="inst_syscheck">syscheck.py</link>

If the missing module is not installed under one of the Python module search path
found in the syscheck output, it need to be moved.

"Tecnai" does not show up in instrument list

Why:
  • An error is detected when the instrument is loaded.
Testing: Import the module in pyScope package through a python command window so that
the error message can be read
  • Follow the following menu to open a python command window:

Windows/Start Menu/All Programs/Python2.5/Python (command line)

For example, if "Tecnai" is missing from the instrument list, try
this:

Python>from pyScope import tecnai
Python>myscope = tecnai.Tecnai()
Python>myscope.getMagnification()

  • Read the error message. Copy it to your bug report when asking for help.

Magnification list not in the database

Why:
first time the TEM is used by leginon and the database, the valid magnification
for the instrument needs to be saved in the database.

Solution: On the scope: Leginon/Instrument> select the microscope to display
parameters and click "Get Magnification" button (The icon is of a calculator) on the
tool bar.

Leginon fails to aquire and save larger images

Why:
  • Your computer does not have sufficient memory to acquire and correct the large 4kx4k
    images.

Solution:

Put on your computer more memory and more memory swap space.

  • If you file storage system is not on the same computer, there may be problem
    transfering large data file. This is known to happen from a Windows machine to disk
    storage operated under Linux through Samba.

Solution:

Let us know if you have one.

Leginon fails to move the goniometer after a new
installation or update of pyScope

Why:
  • tecnaicom.py, the python wrapper of Tecnai Scripting library, has not been created
    in the running pyScope folder on the microscope controlling computer.

Solution:

Double click updatecom.py to run it in the (installed) pyScope folder.


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Updated by Amber Herold over 14 years ago · 32 revisions