Leginon

h1. Gatan K3 installation and setup

Gatan K3 installation and setup is identical to K2 except the instrument.cfg and the additional dmsem.cfg settings below.

h2. instruments.cfg

* A template for instruments.cfg is in the installed pyscope directory as "instruments.cfg.template".  Copy it to

 <pre>C:\Program Files\myami\instruments.cfg</pre>

* Remove SimCam modules in the configuration.

{{include(Gatan K3 Instruments.cfg)}}

h2. dmsem.cfg

All available options for K2 are also available to K3.  You can configure the section [k2] as described in [[Gatan K2 installation and setup]].

* Make sure you keep the section header [k2].  Don't change that.*

A new section called [k3] includes K3-only settings.

*DM_PROCESSING*

For now, the default is "gain normalized".  This means the returned frame movies are dark subtracted and gain normalized.  This means the resulting data are float number.  Therefore could not be compressed efficiently.

As of today, service mode access is required from Gatan to use K3 in "dark subtracted" mode which is equivalent of the raw-frame movies in K2 counted and super-res mode.  This mode can pair with LZW tiff compression to save a lot of space.  To do so set the following:

<pre>

[k2]

....

SAVE_LZW_TIFF_FRAMES = True

[k3]

DM_PROCESSING = dark subtracted

</pre>

h2. Testing with pyscope

[[Gatan K3 Installation Pyscope Test]]

{{include(Gatan_K3_Installation_Pyscope_Test)}}