Getting Started¶

Full (Super User) Manual - Getting Started¶

These steps are a general overview of the entire procedure involving
installation, microscope alignment, calibrations, and using Leginon applications (e.g.
Manual, Calibrations, MSI).

Getting Started as a Super User

Installation (System Administrator) - Getting Started¶

These steps are geared soley towards the system administator(s) that will installing
Leginon and setting it up initially for the rest of the Leginon users that need not be
concerned with these details.

Getting Started as a System Administrator

Short Manual (Basic Leginon User) - Getting Started¶

These steps are intended to help the basic Leginon user who will operate Leginon (and
not care about installation or the first-time calibrations).

Getting Started as a basic Leginon user

Installation (System Administrator) - Getting Started¶

These steps are geared soley towards the system administator(s) that will installing
Leginon and setting it up initially for the rest of the Leginon users that need not be
concerned with these details.

Refer to <link linkend="Inst_troubleshooting">Installation Trouble Shooting</link>, and
Leginon "Bulletin
Board":http://emg.nysbc.org/bb/viewforum.php?f=2 .

1. Download Leginon System¶

Leginon Home: http://www.leginon.org/

Direct links to downloads:

• http://emg.nysbc.org/software/leginon/

• http://emg.nysbc.org/software/dbemtools/

• http://emg.nysbc.org/software/mrctools .

2. Install Leginon System¶

Refer to the <link linkend="completeinstall">Complete Installation</link>

3. Add Users, Groups, Instruments, Calibrations, and Applications¶

Refer to <link linkend="addusers">Administration</link>

4. Test run¶

Refer to <link linkend="runleg_chapter">Start Leginon</link> chapter for test run on
the microscope and on a remote computer.

Short Manual (Basic Leginon User) - Getting Started¶

These steps are intended to help the basic Leginon user who will operate Leginon (and
not care about installation or the first-time calibrations).

1. Align the microscope¶

Refer to <link linkend="microscope_setup">Microscope Set-up</link>

2. Recording images with Low Dose Kit on the microscope¶

Refer to using the <link linkend="manual_app">Manual</link> application

3. Set-up and run MSI¶

Refer to <link linkend="MISQuickStart">MSI quick set-up checklist</link>

AND

Refer to <link linkend="leg1operation">MSI Operation</link>

4. Help yourself and others¶

Refer to <link linkend="MSI_troubleshooting">User Trouble Shooting</link>

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< Minimum Requirements and current NRAMM setup

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