Hi Paul,
Thanks for the suggestion, it looks map segmentation and coot do not work
well with each other, see the tests I did below:

1. .mrc map directly from relion:
in Chimera: OK
in Coot: OK

2. segmented map generated from Chimera:
in Chimera: OK
in Coot: displayed as replicates

When I segment the map, the box dimensions and map threshold level were
changed, would these cause problems?

Best,
Qiuye

On Sun, Sep 20, 2020 at 10:24 AM Paul Emsley <pems...@mrc-lmb.cam.ac.uk>
wrote:

>
> That looks odd. I wonder if the problem lies with Coot or the program
> that generated the map. How does this map look in PyMOL or Chimera (for
> example)?
>
>
> Paul.
>
>
>

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