[buster-discuss] problem with pdb2tnt

Thomas Krey tkrey at pasteur.fr
Wed Dec 5 19:17:35 CET 2012


Dear gphl-team,

I am having a little problem when running buster (since the update on Mountain Lion - Mac OS X 10.8).
I am getting the follloowing error message :

   >>> ab_pdb2tnt >>>
   >>> ab_pdb2tnt >>> Extracted from file 1/01-BUSTER/Rigid-1/ab_pdb2tnt.log : 
   >>> ab_pdb2tnt >>>
   >>> ab_pdb2tnt >>> ERROR : [pdb2tnt-0014] empty file after running "pdbtools
   >>> ab_pdb2tnt >>>         --silent -p
   >>> ab_pdb2tnt >>>         /tmp/tkrey-BUSTER/tkrey-1354713549-ab_pdb2tnt__42754.pdb
   >>> ab_pdb2tnt >>>         -o
   >>> ab_pdb2tnt >>>         /tmp/tkrey-BUSTER/tkrey-1354713549-ab_pdb2tnt__42754.pdb1
   >>> ab_pdb2tnt >>>         -Task GetBestResidue -NoCell"
   >>> ab_pdb2tnt >>>
 
 ERROR : [run_buster-0032] problems in ab_pdb2tnt - see
         above and 1/01-BUSTER/Rigid-1/ab_pdb2tnt.log
 
 
 ERROR : [refine-0055] problems in run_buster: see messages
         above
 

Any help would be greatly appreciated.

Thanks so much in advance

Cheers
Thomas


 
Dr. Thomas Krey
Institut Pasteur
Structural Virology Unit
25-28 Rue du Docteur Roux
75015 Paris
France
tkrey at pasteur.fr





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