Differences between revisions 10 and 20 (spanning 10 versions)

e2ctf

Contents

e2ctf

CTF processing in 3 stages

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

Auto fitting

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

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. Also, you can supply more than one image as input to e2ctf.py.

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 10 as of 2009-03-02 20:55:35 → 
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+   ← Revision 20 as of 2009-03-02 21:28:43 → ⇥
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  Editor: DavidWoolford
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-{{attachment:ctf.png}}
+||<<TableOfContents>>||{{attachment:ctf.png}}||
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-== CTF in 3 stages ==
+== CTF processing in 3 stages ==
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-e2ctf.py  1.img --voltage=200 --apix=2 --cs=3.2 --auto_fit
+e2ctf.py 1.img --voltage=200 --apix=2 --cs=3.2 --auto_fit
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+This runs auto CTF parameter determination, storing the result in a local database.
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+Line 19:
-(save any changes you make with the Save Parms button)
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+Line 21:
-e2ctf.py  1.img --gui
+e2ctf.py 1.img --gui
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+Line 23:
+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 31:
-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. Also, you can supply more than one image as input to e2ctf.py.
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+Line 39:
+e2ctf.py *.img --voltage=200 --apix=2 --cs=3.2 --auto_fit
e2ctf.py *.img --gui
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+Line 46:
-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 49:
-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