Installation Guide for DE-12 or DE-20¶

DE-12 is on a computer separated from the microscope¶

Please read Using_Leginon_on_a_system_where_the_microscope_and_camera_are_controlled_by_different_computers first.

Extra Package and Installation¶

program/package	notes
DirectElectronAPI.exe	(Should come with the camera)
Google protobuf

Protobuf installation instruction¶

Google Protobuf is an open source communication library DE use between client and server. For C++ programs, it is built into the program, so no external library installation is needed. However, for Python/Leginon only, the library will need to be added. A simple way to install this for python use on DE camera computer (Windows) follows:

1. Download 2.3.0 source zip file as well as the win32.zip binary file
2. Unzip both packages.
3. Copy the binary file protoc-2.3.0-win32/proc.exe into protobuf-2.3.0\protobuf-2.3.0\src folder
4. Go into protobuf\python and run "python setup.py install".

Note: If it attempts to install 0.6c9 version of setuptools and failed to obtain the file, download the ez_setup.py file from setuptools for Windows 7 at https://bitbucket.org/pypa/setuptools/raw/bootstrap/ez_setup.py You can then replace the one in your protobuf-2.3.0/python folder.

instruments.cfg¶

DE12 and DE Survey camera are retract/extend together, with the survey camera at off-axis. Therefore zplane should be set at the same value
For example,

[camera1]
class: de.DE12
zplane: 50

[camera2]
class: de.DESurvey
zplane: 50

height and width should be set according to the model.

orientation setup¶

Change the orientation in pyscope/de.py for frame orientation definition used in movie frame processing.

# frame flipping configuration.
# default here is for DE-12 orientation on FEI F20
FRAME_LR_FLIP = True
# frame rotate configuration. multiple of 90 degrees if needed
# after the flip.  Direction + is x to -y.
FRAME_ROTATE = 0
</pre<

	
Known values:
DE-12 on Tecnai F20: FRAME_LR_FLIP = True, FRAME_ROTATE=0
DE-20 on Tecnai F20: FRAME_LR_FLIP = True, FRAME_ROTATE=-1


	
Setup¶


	

	
Create the folder to store the dose fractionation raw frames.  Default location is D:\\frames.
		
Setup [[DDD_raw_frame_file_transfer|raw frame file transfer]] from a network data server.
	


	
Testing¶


	
Testing with pyscope¶


	
{{include(DE-12 Installation Pyscope Test)}}


	
Programs to open before Leginon Client: DE Server¶


	
See how to use DE camera usage in


	

	
[[DE-12 introduction]] Please read this!!!
		
[[Acquiring summed frame image thru Leginon]]
		
[[DDD raw frame saving|Triggering raw frame saving]]
		
[[DDD raw frame file transfer|Transferring raw frame images]] off the solid-state drive of DE-12 during data collection to a network drive.
		
[[Make DE-12 movie stack|Compiling corrected movie stack]] with Appion using bright and dark images acquired in Leginon