Hi,
I copied the file Paul recommended into
lib/python2.7/site-packages/coot and I'm now able to download
coordinates and maps from EBI from within 0.9.8.1 again. Thanks.
This file doesn't work in 1.0.01 because that program uses python 3.8.
Dale Tronrud
On 6/8/2023 3:55 AM, Paul Emsley wrote:
Hi Dale,
Without testing, I guess that you can replace get_ebi.py with this one
https://github.com/pemsley/coot/blob/refinement/python/get_ebi.py
(use Raw of course)
Paul.
On 08/06/2023 08:35, Sameer Velankar wrote:
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Hi Dale
The correct url for accessing files are as follows -
1. PDB file - https://www.ebi.ac.uk/pdbe/entry-files/pdb1cbs.ent
2. mmCIF file - https://www.ebi.ac.uk/pdbe/entry-files/1cbs.cif
Kind regards
Sameer
On 8 Jun 2023, at 07:25, Dale Tronrud <de...@daletronrud.com> wrote:
Hi,
When I click on "Fetch PDB entry using Accession Code..." or "Fetch
PDB & Map using EDS..." I get
PDB Accession Code: 3eoj
DEBUG:: extracted accession code handle mode n 1
BL WARNING:: retrieve of url
https://www.ebi.ac.uk/pdbe-srv/view/files/3eoj.ent failed
handle_read_draw_molecule_with_recentre ("coot-download/3eoj.pdb.ent".1)
WARNING:: Error reading coot-download/3eoj.pdb.ent
That web site, indeed, does not exist and I presume the PDBe has
moved the data.
To the best of my knowledge this is the most recent version of
WinCoot. I've downloaded the "unstable" version 1.0.01 and it fails
in the same way (but does show a very pretty display when downloading
from PDB Redo).
I've done my best to search the "coot" and "ccp4bb" archives and
don't see mention of this problem, but my search skills are limited.
What do I do to download PDB's and maps again?
Dale Tronrud
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