FEI TecnaiTitan installation specifics¶

Install win32 version of python subpackages¶

Because all interaction with the scope uses COM interface that is only accessible through 32-bit architecture, python running Leginon component is the 32-bit version. Use the 32-bit Windows files (those marked as win32 and certainly not the ones says 64) in http://emg.nysbc.org/projects/leginon/files for these.

Talos has a 64-bit Python pre-installed unde default python location C:\Python27. Therefore, we need to name our installation with another name, such as C:\Python27-win32.

Here is the full list

Program	package web site	local copy of win32 installer
Python 2.7.16	https://www.python.org	python-2.7.16.msi
wxPython 2.5.2.8 or newer	https://www.wxpython.org	wxPython2.8-win32-unicode-2.8.12.1-py27.exe
Python Imaging Library (PIL) 1.1.4 or newer	http://www.pythonware.com/products/pil/	PIL-1.1.7.win32-py2.7.exe
NumPy	(use only from our file to match compiled numextension	numpy-1.7.0-win32-python2.7.exe
SciPy 0.5.1 or newer	http://www.scipy.org	scipy-0.11.0-win32-superpack-python2.7.exe

Leginon 3.5 or before

MySQL Python client 1.2 or newer

http://sourceforge.net/projects/mysql-python

MySQL-python-1.2.4b4.win32-py2.7.exe

Leginon 3.6 and up

pyMySQL 0.10.1 (not higher)

https://pypi.org/project/PyMySQL/

pyMySQL-0.10.1-py2.py3-none-any.whl

Program	package web site	local copy of win32 installer
comtypes 0.6.2	http://sourceforge.net/projects/comtypes"	comtypes-0.6.2.win32.exe

Required scripting from FEI¶

TEM Scripting or Tecnai Scripting	Request this when purchasing the microscope	Required
TomMoniker Scripting	Should come with TEM Scripting	Required
Low Dose Server Library	Should come with the microscope if low dose kit was purchased	Required only if you want to use low dose kit with Leginon's Manual Application

Run checkcom.py¶

• From a command line window:
  

  cd C:\python27\Lib\site-packages\pyscope
  C:\python27\python.exe checkcom.py

• The output should at least find typelib for
  

  TEM Scripting
  

  
  and
  

  TOM Moniker
  

instruments.cfg¶

cs is constant for sperical abberation

For Tecnai series:

[TEM]
class: tecnai.Tecnai
cs: 2.0e-3

For Titan:

[TEM]
class: tecnai.Tecnai
cs: 2.7e-3

For Krios (different compustage)

[TEM]
class: tecnai.Krios
cs: 2.7e-3

For Krios EF mode, treated as a separate instrument. i.e. add

[TEM]
class: tecnai.EFKrios
cs: 2.7e-3

For Arctica, (Version 3.3)

[TEM]
class: tecnai.Arctica
cs: 2.7e-3

For Arctica, (older version)
use Krios class is fine. Just change cs value.

Testing with pyscope¶

For Tecnai series In python command

from pyscope import tecnai
t = tecnai.Tecnai()
t.getMagnification()

For Krios

from pyscope import tecnai
t = tecnai.Krios()
t.getMagnification()

For Krios with EF-TEM mode, add also

from pyscope import tecnai
t = tecnai.EFKrios()
t.getMagnification()

For Arctica (3.3 and above) (Use Krios instruction for 3.2 version)

from pyscope import tecnai
t = tecnai.Arctica()
t.getMagnification()

You should get the current magnification at the microscope when the main viewing screen is up

Trouble Shooting¶

unable to initializ Tecnai interface error

Programs to open before Leginon Client: None¶