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attachment:ctf.png = e2ctf =
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= e2ctf = ||<<TableOfContents>>||{{attachment:ctf.png}}||

== CTF processing in 3 stages ==
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== Auto fitting == === Auto fitting ===
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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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== Fine tuning ==
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(save any changes you make with the Save Parms button) This runs auto CTF parameter determination, storing the result in a local database.

=== Fine tuning ===

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e2ctf.py  1.img --gui e2ctf.py 1.img --gui
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== Write output ==
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 ===
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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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You can combine more than command would have worked if you had used a command like this: 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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e2ctf.py 1.img --voltage=200 --apix=2 --cs=3.2 --auto_fit --gui == 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
}}}

e2ctf

ctf.png

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

EMAN2/Programs/e2ctf (last edited 2010-06-17 19:16:50 by SteveLudtke)