Re: [scipion-users] Improving the workflow that was done

[Jose M. de la R. T. <del...@gm...>]

Dear Dmitry,

What version of Scipion are you using? v1.0.x ?

In that version cross-correlation global alignment (CC) was in the same
protocol of optical flow local alignment (OF).
In the devel version we have decoupled different movie alignment protocols,
but this will be for the next release.
If you used the v1.0, you will need to relaunch a "copy" of the movie
alignment job and then combine both CC + OF.

If you have already estimated the CTF for the first workflow, then you
could reuse that when re-extracting particles
from the new aligned micrographs. Or you can just re-estimate with Xmipp or
any other program if you like...you should
start a new job as usual and use the new micrographs as input.

Hope this helps
Jose Miguel


On Tue, Nov 22, 2016 at 11:04 AM, Dmitry Semchonok <sem...@gm...>
wrote:

> Dear colleagues,
>
>
> I used protocol xmipp3 - movie alignment but only cross-correlation
> correction.
>
> But now I would like to add optical correction.
>
> Is there a way to redo this step?
>
> I already processed till the final 3d model....
>
>
> Also I would like to incert xmipp - ctf extimation protocol inbetween
>
> grigotieflab and particle picking
>
> Is that any possible?
>
>
>
>
> Sincerely,
> Dmitry
>
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