[3dem] 3dem Digest, Vol 197, Issue 12

[Qiang Guo]

Dear Philipp,

We have a similar issue with Motioncor 2 and Warp when reading the gain
file, it is a TIF format file, and converting it to MRC format solves the
issue.

Best,
Q




<3dem-request at ncmir.ucsd.edu> 于2024年1月11日周四 18:58写道：

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>    1. Question regarding eer .gain files and defects
>       (Philipp Sebastian Erdmann)
>
>
> ----------------------------------------------------------------------
>
> Message: 1
> Date: Thu, 11 Jan 2024 10:57:29 +0000
> From: Philipp Sebastian Erdmann <philipp.erdmann at fht.org>
> To: "3dem at ncmir.ucsd.edu" <3dem at ncmir.ucsd.edu>
> Subject: [3dem] Question regarding eer .gain files and defects
> Message-ID: <E489D09B-F277-44DF-9C5C-C0F7BCE1C96A at fht.org>
> Content-Type: text/plain; charset="utf-8"
>
> Dear All,
>
> I recently tried reading the defects from the .gain file of our Falcon4i.
>
> However, the xml embedded in the .gain reads as:
>
> <defects><!-- Defects file not present --></defects>
>
> Is the is bug in the software? Maybe it is not yet implemented by TFS?
>
> Are there other ways to extract it?
>
> I know the .gain zeros are the defects, but is this not an issue if you
> take the reciprocal?
>
> 1/0 = ?
>
> We?re trying to figure out which software does best in processing .eer
> files of tomograms.
>
> (Low dose; ca 3 e/?2)
>
> Relion looks perfect but does not produce 1/2 stacks for denoising.
>
> Warp and MC3 produce 1/2 stacks, but I can see artifacts in the pixel
> substitution.
>
>
> Thanks for your help!
>
>
> Philipp.
>
>
> Philipp Sebastian Erdmann
> Research Group Leader
> Erdmann Group,
> Structural Biology Research Centre
> Human Technopole
> Palazzo Italia
> Viale Rita Levi Montalcini, 1
> 20157 Milan, Italy
> M. +39 3452453710
> E. philipp.erdmann at fht.org
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> End of 3dem Digest, Vol 197, Issue 12
> *************************************
>


-- 
Qiang (John) Guo
Department of Molecular Structural Biology
Max Planck Institute of Biochemistry
Am Klopferspitz 18
82152 Martinsried
Germany
Email: guoq.tiger at gmail.com
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