[buster-discuss] AutoBuster refine - permissions problem

[Nicolas Foos]

Dear Antony,

maybe it's mistake, but have you try to define the directory where 
buster write files. More precisely, have you use the -d option ?
I think that it's the place where you write your destination file which 
cause your problem.

Hope to help you.

Nicolas


Le 24/10/12 17:57, Antony Oliver a écrit :
> I am having a little bit of a problem running refine which I can't seem to resolve - see snips from the relevant log files below…
> Could someone help and shine some light on the possible issue?
>
> There is obviously a permissions error - but where?!!!  It all looks okay.
>
> NB: Running on OS X / darwin.
>
> With thanks,
>
> Antony.
>
>
>
>
>
> <snip1 >
>
>     >>> ab_pdb2tnt >>>
>     >>> ab_pdb2tnt >>> Extracted from file BUSTER1/01-BUSTER/Cycle-1/ab_pdb2tnt.log :
>     >>> ab_pdb2tnt >>>
>     >>> ab_pdb2tnt >>> ERROR : [pdb2tnt-0022] unable to save a copy of
>     >>> ab_pdb2tnt >>>         /usr/local/buster/tnt/data/common-compounds/SO4.cif
>     >>> ab_pdb2tnt >>>         into
>     >>> ab_pdb2tnt >>>         BUSTER1/01-BUSTER/Cycle-1/restraint_dictionaries/SO4.cif
>     >>> ab_pdb2tnt >>>
>   
>   ERROR : [run_buster-0032] problems in ab_pdb2tnt - see
>           above and BUSTER1/01-BUSTER/Cycle-1/ab_pdb2tnt.log
>   
>   
>   ERROR : [refine-0057] problems in run_buster: see messages
>           above
>
> </snip 1>
>
>
> <snip 2>
>
>   ###################### 4. processing missing restraints ######################
>   
> cp: chown: BUSTER1/01-BUSTER/Cycle-1/restraint_dictionaries/SO4.cif: Permission denied
>   
>   ESC[1mERRORESC[m : [pdb2tnt-0022] unable to save a copy of
>           /usr/local/buster/tnt/data/common-compounds/SO4.cif
>           into
>           BUSTER1/01-BUSTER/Cycle-1/restraint_dictionaries/SO4.cif
>
> </snip 2>
>
>
>
> ---
> Dr Antony W Oliver
> Senior Research Fellow
> CR-UK DNA Repair Enzymes Group
> Genome Damage and Stability Centre
> Science Park Road
> University of Sussex
> Falmer, Brighton, BN1 9RQ
>
> email: antony.oliver at sussex.ac.uk
> tel (office): +44 (0)1273 678349
> tel (lab): +44 (0)1273 677512
>
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