Yes, I am sure, the file has that name and is contained in the
directory I'm working in.
Elisa
On Mon, Jan 18, 2016 at 10:24 PM, Jason Swails <jason.swails.gmail.com> wrote:
> On Mon, Jan 18, 2016 at 7:34 AM, Elisa Pieri <elisa.pieri90.gmail.com>
> wrote:
>
>> Dear all,
>>
>> I know that my problem is more technical and (apparently) concerns my
>> python libraries, but I could not find anything helping online. I
>> successfully installed AmberTools15, and everything seems to work
>> fine. I am following the tutorial B5, but at the very first step, when
>> I try to use the pdb4amber, I get this error:
>>
>> elisa.agachon:~/tutorials$ /home/elisa/amber14/bin/pdb4amber -i
>> 1EMA.pdb -o gfp.pdb --dry --reduce
>> Traceback (most recent call last):
>> File "/home/elisa/amber14/bin/pdb4amber", line 904, in <module>
>> opt.constantph, opt.mostpop, opt.reduce, opt.model)
>> File "/home/elisa/amber14/bin/pdb4amber", line 807, in run
>> stdout=subprocess.PIPE, stderr=subprocess.PIPE)
>> File "/usr/lib/python2.7/subprocess.py", line 710, in __init__
>> errread, errwrite)
>> File "/usr/lib/python2.7/subprocess.py", line 1327, in _execute_child
>> raise child_exception
>> OSError: [Errno 2] No such file or directory
>>
>
> It looks like one of the input files (1EMA.pdb) doesn't exist... Are you
> sure you are running this in the same directory that contains 1EMA.pdb?
> And that the PDB file has that name?
>
> HTH,
> Jason
>
> --
> Jason M. Swails
> BioMaPS,
> Rutgers University
> Postdoctoral Researcher
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Received on Tue Jan 19 2016 - 01:00:02 PST
