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attachment:ctf.png ||<<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.
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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.

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)