Test Leginon with Simulator¶

Test Leginon with Simulator¶

TEM and CCD simulators are created automatically on the computer Leginon program started
at. They are convenient as a way to look around the GUI to try out buttons. The images
"acquired" are just random squares on background. Here we will use them to test the database
connection and storage disk mapping.

Start Leginon on the computer you will run most of the process¶

• <title>Register as a Leginon user and then copy and personalize your configuration
  file before your first use.</title>
• First User: Refer to Installation Guide <link linkend="addusers">Chapter on
  Administration Tools</link>

• Later Users: Refer to "<link linkend="admin_adduser">Set up for a new
  regular user</link>" in "Administration Tools" Chapter.

• start-leginon.py (From any directory for Linux)

OR

from Start Menu: \Start\Programs\Leginon> Leginon (on Windows)

• Leginon Setup Wizard> select "Create session" in session type if a new session
  is needed.

• Fill in session name and comments. Comments will appear in the Web
  Viewers

• Select instrument and project, if project database is used. Image path is
  automatically selected.

• Image path is automatically selected based on your leginon.cfg file.

• Leginon Setup Wizard> No need to edit client list as the computer where the
  program is started is automated added.

• Choose "Finish" in the set up wizard to start the session.

Acquiring the first simulated image¶

• Leginon/Application/Run> select Manual Application.

• Leginon> From the list of nodes on the left panel, select Manual node.

• Leginon/Manual> Open the "Setting" tool and configure the settings:

SimuTEM and SimuCCDCamera should be available for selection.

Acquisition/Camera Configuration- use one of the preconfigured selection for
binning and size such 512x8.

Save image to the database=yes.

Leave the rest of the configuration to default.

• You should see your first simulated image acquired through Leginon in the image
  display panel.

Check on the Web viewer¶

Follow the <link linkend="AppManual_webviewer">instruction in Manual Application
Chapter</link>.

Problem solving for the simulation test¶

Most problems regarding this test are caused by bad configuration. You should double
check your <link linkend="leginon_cfg">leginon.cfg</link>, <link linkend="sinedon_cfg"

sinedon.cfg</link>, <link linkend="install_dbemtool">config.php</link> as outlined in

complete installation chapter. See <link linkend="InstT_testrun">Installation
Troubleshooting</link>, and dbem Bulletin Board such as the topic " information not saved to db "
for common problems.

If everything goes smoothly, do a test directly on the computer controlling the
microscope as in the next section.