Hi,
Cropping is not implemented.
Cropping is no longer necessary for newer versions of Gctf.
If you need to re-extract "older refined coordinates" from cropped
micrographs, please use UCSF MotionCor2 with -Crop.
Best regards,
Takanori Nakane
> Dear all,
>
> ??? in Shawn Zheng's MotionCor2 it was necessary to crop micrographs
> from K2 with the parameter "-crop 3660 3660" during the run to be
> correctly process by Gctf called from Relion-2.
>
> Micrographs preprocessed with the Relion-3 implementation of motioncorr
> are not cropped (i.e. "xmipp_image_header" issues: "Dimensions???? : 1 x
> 1 x 3838 x 3710"), which apparently gives rise to problems when trying
> to re-extract older refined coordinates.
>
> Is there a way of cropping the micrographs in Relion-3 running
> motioncorr? "-crop 3660? 3660" or "--crop 3660 3660" is not accepted by
> "Additional Arguments".
>
> Thank you for help,
>
> bw Dieter
>
> ------------------------------------------------------------------------
> Dieter Blaas,
> Max F. Perutz Laboratories
> Medical University of Vienna,
> Inst. Med. Biochem., Vienna Biocenter (VBC),
> Dr. Bohr Gasse 9/3,
> A-1030 Vienna, Austria,
> Tel: 0043 1 4277 61630,
> Fax: 0043 1 4277 9616,
> e-mail: [log in to unmask]
> ------------------------------------------------------------------------
>
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