Differences between revisions 15 and 28 (spanning 13 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 --autofit
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 --autofit --gui
e2ctf.py *.img --voltage=200 --apix=2 --cs=3.2 --autofit --gui

-  ⇤ ← Revision 15 as of 2009-03-02 21:01:49 → 
  Size: 1109
  Editor: DavidWoolford
  Comment:
+   ← Revision 28 as of 2010-05-06 18:13:00 → ⇥
  Size: 1384
  Editor: SteveLudtke
  Comment:
-Deletions are marked like this.
+Additions are marked like this.
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-{{attachment:ctf.png?align=right}}
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-<<TableOfContents>>
+||<<TableOfContents>> || {{attachment:ctf.png}} ||
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-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:
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+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.
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+=== Fine tuning ===
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+Line 16:
-e2ctf.py  1.img --voltage=200 --apix=2 --cs=3.2 --auto_fit
+e2ctf.py 1.img --gui
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+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
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+Line 21:
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+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.
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+Line 27:
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+Line 30:
+e2ctf.py *.img --voltage=200 --apix=2 --cs=3.2 --autofit
e2ctf.py *.img --gui
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+Line 34:
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+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:
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+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 --autofit --gui
e2ctf.py *.img --voltage=200 --apix=2 --cs=3.2 --autofit --gui