On 19/03/2025 05:39, Auffinger Pascal wrote:
Apparently the "set_difference_map_peaks_max_closeness()" parameter
is working only for difference maps and has no effect on the "map_peaks"
command.
Ah. How frustrating.
Thus, it cannot be used for cryo-EM maps.
As a work-around, you could copy the map, set the copy to a difference
map and search for positive peaks.
Is there another way to get access to the "max_closeness" parameter ?
I looked at the "peak-search.cc" code and the max-closeness is set to 2.0 Å
that is too large for some metal atoms.
The max closeness was set because I wanted to provide a list of "useful
things to look at" and I wanted to avoid duplicates - but that isn't
really what you want. Easy to fix though. If you want to use homebrew
Coot, you can use --HEAD and get the updates in a day or so.
Paul.
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