Leginon

h1. Aperture selection through tem controller

This feature allows selection of aperture of TFS microscopes with automated apertures.  The current implementation uses AutoIt Scripting and reads the configuration from c:\Program Files (x86)\myami\fei.cfg

h2. Setup

h3. compile autoit script

The script is pyscope/autoit/ApertureSelection.au3

Use AutoIt suite to compile it.  Either 32 or 64-bit version works as far as I know.  Save the executable at the place you plan to specify in fei.cfg

h3. Setup pyscope fei.cfg

Copy from pyscope/fei.cfg.template these lines to fei.cfg used on your scope.  In standard installation, this should be "c:\Program Files (x86)\myami\fei.cfg"

Modify these settings according to your scope.

<pre>

[aperture]

# Disable control of auto apertures if not working or not available

# not all versions of microscope software allows auto aperture control

# from scripting level.

USE_AUTO_APERTURE = False

# AutoIt Automation

AUTOIT_APERTURE_SELECTION_EXE_PATH = c:\Users\supervisor\Desktop\Anchi\AutoItScripts\ApertureSelection.exe

# Does the Titan column has automated c3 aperture ?  This affects the id of the

# gui button for AutoIt script. 

HAS_AUTO_C3 = True

# Individual aperture selections.  If retractable, add open at the end of the list

# List these in the order of what appears in the TUI

# Note: can not handle multiple apertures of the same name.

CONDENSER_2 = 150, 100, 50, 20

OBJECTIVE = 100, 70, 50, open

# Optional selected area aperture control. comment or remove the line to deactivate it.

SELECTED_AREA = 200,100, 40, 10, open

</pre>

h2. Testing

h3. Testing the AutoIt executable

# Open TEM user interface.

# Retract the objective aperture.

# Double click Autoit executable to run.

If this works right, it should insert the 100 um aperture.

h3. Testing in with python command from pyscope

<pre>

from pyscope import fei

f=fei.Krios()  # Change this to match your instrument class

f.getApertureSelections('objective') # This should give you the list you specified in fei.cfg

'100', '70', '50' , 'open'

f.getApertureSelection('objective')  # The returned value should be the current aperture position as a string

'100'

f.setApertureSelection('objective', '50') # This should insert the 50 um aperture

f.retractApertureMechanism('objective') # This should retract the aperture as if you click on the Activate/Deactivate aperture button to disable it.

</pre>

h2. Use it in Leginon

The most likely usage of this is  in TEM controller (aliased as TEM_Remote in MSI application).