Re: [scipion-users] K3 tiff format movies

[Gregory S. <sha...@gm...>]

Hi,

K3 gain/dark reference stability is still a problem I believe (especially
in CDS mode), so I am not surprised that you do it every gridsquare.
Acquiring a new gain takes 15-20 min on K3.

The workaround in scipion would be to import every gridsqaure separately
and run motioncor2, then join the outputs.

Best regards,
Grigory

--------------------------------------------------------------------------------
Grigory Sharov, Ph.D.

MRC Laboratory of Molecular Biology,
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On Tue, Sep 24, 2019 at 11:00 PM Carlos Oscar S. Sorzano <co...@cn...>
wrote:

> Dear Nora,
>
>
> the current Scipion model does not allow for several gain images. Have you
> found a situation where this is needed or customary? We understand that
> collecting the gain image takes about 1h, if not more, is that correct?
>
>
> Kind regards, Carlos Oscar
>
>
> El 23/09/2019 a las 16:49, Nora Cronin escribió:
>
> Hi
>
> I am attempting to process K3 "tiff LZW non gain normalised" movies in
> Scipion.     There is one gain reference file included in each gridsquare
> directory.       In the import GUI I input the name of the directory
> /Gridsquare*/Data   and for the Pattern "*_fractions.tiff ".
> Since the name of the gain is different in each Gridsquare - how do I
> input the gain There is one gain reference for all the movies in that
> particular grid square    Inputing the one gain reference in the
> Gridsquare/Data subdirectory did not work - motioncorr did not find the
> gain reference after the first movie.
>
> Should I use the gain reference directly form DM (the .dm4) file and if so
> how should I convert it?
>
> Best regards
>
>
> Nora
>
> Nora Cronin
> LonCEM Facility Manager
>
> The Francis Crick Institute
>
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>
> London NW1 1AT
>
>
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>
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> Carlos Oscar Sánchez Sorzano                  e-mail:   co...@cn...
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