Leginon

h1. Gatan K2 unique installation and setup

h2. Gatan K2 is controlled by a computer separated from the microscope

Please read [[Using_Leginon_on_a_system_where_the_microscope_and_camera_are_controlled_by_different_computers]] first.

h2. Extra Package and Installation

* Use all amd64 version of Windows installer

* SerialEM DigitalMicrograph Plug-in

{{include(Install_SerialEM_DigitalMicrograph_plugin)}}

h2. instruments.cfg

{{include(Gatan_K2_Instruments_cfg)}}

h2. Setup

* Set camera configuration to give the [[Leginon Image Orientation|standard Leginon orientation]].  For example, we need 270 degree rotation and flip around the vertical axis on FEI F20.  Note that the rotation required is different if it is installed post-GIF and/or on Krios.

* Set the [[Low_dose_shutter_configuration_for_Gatan_camera_in_Digital_Micrograph_program|shutter configuration in DM]] to protect the specimen when camera is not taking images.

* 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.

h2. Change Flag in pyscope/dmsem.py if you have DM 2.30 version and requires flip/rotation to give the Leginon orientation.

In standard python site-package installation, this file is at C:\Python27\Lib\site-packages\pyscope\demsem.py

Find this line near the top:

<pre>

isDM230 = False

</pre>

Change it to

<pre>

isDM230 = True

</pre>

h2. Testing with pyscope

{{include(Gatan_K2_Installation_Pyscope_Test)}}

h2. Programs to open before Leginon Client: Digital Micrograph

h2. See more about K2 implementation in [[Using_Gatan_K2_Summit_in_Leginon]]