Differences between revisions 12 and 27 (spanning 15 versions)

e2ctf

Contents

e2ctf

CTF processing in 3 stages

To get familiar with how e2ctf.py works, try separating the way you use e2ctf.py into three stages:

Auto fitting

e2ctf.py 1.img --voltage=200 --apix=2 --cs=3.2 --autofit

This runs auto CTF parameter determination, storing the result in a local database.

Fine tuning

e2ctf.py 1.img --gui

Now that you have determined the parameters with the first command, have a look at the results in the interface. Tweak if necessary. Save any changes you make with the Save Parms button

Write output

e2ctf.py 1.img --phaseflip --wiener

Finally generate output. The output will be in the particles directory.

Processing multiple images simultaneously

e2ctf takes multiple images as input, so you can use commands like this:

e2ctf.py *.img --voltage=200 --apix=2 --cs=3.2 --auto_fit
e2ctf.py *.img --gui
e2ctf.py *.img --phaseflip --wiener

Combining stages into a single command

You can combine more than one of the e2ctf processing stages into a single command. For instance you can run automated fitting and open the GUI with a single command like this:

e2ctf.py 1.img --voltage=200 --apix=2 --cs=3.2 --auto_fit --gui
e2ctf.py *.img --voltage=200 --apix=2 --cs=3.2 --auto_fit --gui

-  ⇤ ← Revision 12 as of 2009-03-02 20:58:16 → 
  Size: 1099
  Editor: DavidWoolford
  Comment:
+   ← Revision 27 as of 2009-11-02 16:44:58 → ⇥
  Size: 1387
  Editor: gtang
  Comment:
-Deletions are marked like this.
+Additions are marked like this.
 Line 2:
+||<<TableOfContents>> || {{attachment:ctf.png}} ||
-Line 3:
+Line 4:
-{{attachment:ctf.png}}
 Line 5:
-<<TableOfContents>>
-Line 7:
+Line 6:
-To get familiar with how  e2ctf.py works, try separating the way you using e2ctf.py into three stages:
+To get familiar with how  e2ctf.py works, try separating the way you use e2ctf.py into three stages:
-Line 11:
+Line 9:
+{{{
e2ctf.py 1.img --voltage=200 --apix=2 --cs=3.2 --autofit
}}}
This runs auto CTF parameter determination, storing the result in a local database.
-Line 12:
+Line 14:
+=== Fine tuning ===
-Line 13:
+Line 16:
-e2ctf.py  1.img --voltage=200 --apix=2 --cs=3.2 --auto_fit
+e2ctf.py 1.img --gui
-Line 15:
+Line 18:
-=== Fine tuning ===

(save any changes you make with the Save Parms button)
{{{
e2ctf.py  1.img --gui
}}}
+Now that you have determined the parameters with the first command, have a look at the results in the interface. Tweak if necessary. Save any changes you make with the Save Parms button
-Line 23:
+Line 21:
-Line 27:
+Line 24:
-The output will be in the particles directory. Also, you can supply  
more than one image as input to e2ctf.py.
+Finally generate output. The output will be in the particles directory.
-Line 31:
+Line 27:
-Line 35:
+Line 30:
+e2ctf.py *.img --voltage=200 --apix=2 --cs=3.2 --auto_fit
e2ctf.py *.img --gui
-Line 37:
+Line 34:
-Line 39:
+Line 35:
-You can combine more than one of the e2ctf processing stages into a single command. For instance you can run automated fitting and force the opening of the GUI in a with a single command like this:
+You can combine more than one of the e2ctf processing stages into a single command. For instance you can run automated fitting and open the GUI with a single command like this:
-Line 43:
+Line 38:
-e2ctf.py  1.img --voltage=200 --apix=2 --cs=3.2 --auto_fit --gui
+e2ctf.py 1.img --voltage=200 --apix=2 --cs=3.2 --auto_fit --gui
e2ctf.py *.img --voltage=200 --apix=2 --cs=3.2 --auto_fit --gui