Leginon

h1. Leginon "MSI-Tomography" Application

h2.  Summary of this application

The Leginon "MSI-Tomography" application is originally contributed by Christian Soluway

and Grant Jensen at Caltech in collaboration with David Agard and Shawn Zhang at UC San

Francisco. Appion team has made some modification since. The documentation here is edited from

the protocol from Lu Gan and modified to reflect the new changes.

This application uses many of the same calibration as in other MSI applications. The

multiscale targeting and imaging also follows the same principle. Therefore, familiarity to

the latter will help. The following links are the relevant sections in MSI

applications.

[[MSI_Quick-start|MSI Quick Start checklist]]: A short check list for

users who are familiar with the application and have saved preferences.

<link linkend="MSISetupDetails">MSI set-up in more details</link>: The more complicated

MSI Leginon application set-up that should be completed before collecting data. Ignore the

automatic hole finding set-ups since this application uses user target selection and

queuing.

<link linkend="MSISetupDetails">Queuing option</link>: standard operation mode of

"MSI-Tomography".

<link linkend="MSI_troubleshooting">Trouble shooting</link>: This trouble shooting

sections addresses some of the possible challenges a Leginon user may face.