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Anchi Cheng, 04/24/2020 04:19 PM
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
Setup¶
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
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.
[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
Testing¶
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.
Testing in with python command from pyscope¶
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.
Use it in Leginon¶
The most likely usage of this is in TEM controller (aliased as TEM_Remote in MSI application).
Updated by Anchi Cheng over 4 years ago · 4 revisions