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||<<TableOfContents>> || {{attachment:ctf.png}} ||
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{{attachment:ctf.png}}
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== CTF in 3 stages ==

To get familiar with how e2ctf.py works, try separating the way you using e2ctf.py into three stages:
== CTF processing in 3 stages ==
To get familiar with how e2ctf.py works, try separating the way you use e2ctf.py into three stages:
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{{{
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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e2ctf.py 1.img --voltage=200 --apix=2 --cs=3.2 --auto_fit e2ctf.py 1.img --gui
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=== 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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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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e2ctf.py *.img --voltage=200 --apix=2 --cs=3.2 --autofit
e2ctf.py *.img --gui
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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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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

e2ctf

ctf.png

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

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