Dear Jon,
yes indeed, as it was figured out with Eugene, it is my case. The
problem was PDB ID XXXX in the header, which was putted there by
refmac5. Removing or changing to PDB ID 1XXX solves the problem.
Thank you both for help.
Best regards
Jan
Dne 12. 1. 2015 v 17:28 Jon Agirre napsal(a):
Hi Jan,
Privateer relies on Clipper-minimol, which in turn uses MMDB.
According to MMDB's error code description list
(https://www.ebi.ac.uk/pdbe/docs/cldoc/object/cl_obj_irets.html) :
Error_WrongEntryID 3 A PDB or mmCIF record that ought to
display this entry's ID, shows an ID contradicting to that in header.
I've been able to replicate the error by opening a PDB file downloaded
from PDBe and changing the HEADER line to show a different PDB ID. Is
that your case?
Thanks for your interest,
Jon
On 12 January 2015 at 15:59, Jan Stransky <[email protected]
<mailto:[email protected]>> wrote:
Dear all,
I am experiencing some troubles with running Privateer. It seems
to fail to read a PDB file. The Error message:
Reading xxx.pdb... MMDBfile: read_file error: xxx.pdb : 3
terminate called after throwing an instance of
'clipper::Message_fatal'
Aborted
Any ideas?
Best regards,
Jan
--
Dr Jon Agirre
York Structural Biology Laboratory / Department of Chemistry
University of York, Heslington, YO10 5DD, York, England
http://www.york.ac.uk/chemistry/research/ysbl/people/research/jagirre/
+44 (0) 1904 32 8253
