Leginon

h1. Special Operation setup

h2.  Taking final exposures on film

If film is used to collect data with one or more exposure presets, Edit the preset

setting in Presets Manager when you are ready to do so. The exposure time of the preset will

be applied to film exposure. A warning message will come up when the cassette is exhausted

and Leginon paused. You will need to reset the stock number after new film is added.

h2.  Acquiring images with the stage at a fixed alpha tilt

All targeting and focusing works on tilted specimen with correction made within Leginon

automatically.

*  Z adjustment to the defocus allows images acquired from image-shifted targets to

exhibit equivelent defocus regardless of location.

Additional <link linkend="mcal_st_pos">stage position matrix calibration</link> is

therefore needed for MSI at hl preset magnification where the targets are selected in

Hole node.

*  Distortion correction is made to beam-tilted images that are used for autofocusing

to boost peak signal.

Rotation centers are therefore needed to be stored at the magnification and HT for

fa and hl that are used in Z focus and Focus nodes for autofocusing, respectively. This

is <link linkend="r_center_store">stored (and retrieved) in Beam Tilt node of

Calibration application</link>. Because rotation center may change from day to day,

the correction is made only if the required rotation center is stored under the same

session.

**Because of the additional calibrations, this is not recommanded for

beginners.