Manual Focusing Tool » History » Revision 2
Revision 1 (Anchi Cheng, 12/17/2012 04:29 PM) → Revision 2/3 (Anchi Cheng, 12/17/2012 06:44 PM)
h1. Manual Focusing Tool The Manual Focusing can be activated either by enabling "Manual_before/Manual_after" steps Focus window opens when you click on the tool !http://emg.nysbc.org/software/leginon/images/icons/manualfocus! or directly when leginon is idle using (Z) Focus/Toolbar/MF. * Manual_before/Manual_after you add it in the focus sequence: ** The preset used is set inside focus sequence settings !http://emg.nysbc.org/software/leginon/images/icons/focus_sequence.png! * Manual Focus Tool !http://emg.nysbc.org/software/leginon/images/icons/manualfocus.png! ** When using Manual Focus Tool directly, and the preset focuser goes through that after receiving a focus target. 1. click "Set Instrument" !http://emg.nysbc.org/software/leginon/images/icons/instrumentset.png! to send what Leginon thinks is set zero defocus to the microscope. 2. If the above does not take you to zero defocus judged by the preset named "manual focus tool preset" found also in focuser node settings. * MF> The FFT should show visible and isotropic Thon ring according to rings of the fc preset defocus. * MF/Toolbar> Make sure CTF in the power spectrum shown, move type is "Defocus" and the set value defocus up or down relatively be fixed increment by clicking "+" or "-" buttons in the box is 0 m then click "Set instrument" botton !http://emg.nysbc.org/software/leginon/images/icons/instrumentset.png!. This will set tool bar. The Thon rings of the CTF in the FFT should disappear once the defocus is at Gaussion focus relative to the current 0. * MF> The perfect autofocus result is that specimen (often called zero defocus). Repeat this step and adjust the FFT indicates that the scope direction and increment until defocus is at Gaussian focus. * For relative movement, press "+" or "-". The step size is determined in MF/Toolbar/Settings> * To reset defocus to zero increment can be set by left-click at the new focus, press first ctf node of the so-named button !http://emg.nysbc.org/software/leginon/images/icons/instrumentsetnew.png!. * power spectrum.* 3. Clicking the Stop button !http://emg.nysbc.org/software/leginon/images/icons/stop.png! exits the manual check.