[ase-users] EOFError: Ran out of input

[Jakob Schiøtz]

Hi Hassan

Great that it works.  Please remember to answer on the mailing list too, so others who have a similar problem can see the solution.

Best regards

Jakob

--
Jakob Schiøtz, professor, Ph.D.
Department of Physics
Technical University of Denmark
DK-2800 Kongens Lyngby, Denmark




> On 13 Feb 2022, at 02.22, Hasan Al-Mahayni <hasanalmahayni at gmail.com> wrote:
> 
> Hi,
> 
> Thank you for your help. Indeed, there was one empty pickl file. I have deleted it and restarted the job, hopefully it works!
> 
> Thank,
> Hasan Al-Mahayni
> 
> 
> On Sat, Feb 12, 2022 at 5:07 AM Jakob Schiøtz <schiotz at fysik.dtu.dk> wrote:
> Hi,
> 
> It looks like one of the pickle files it tries to read is defective.  Perhaps a previous calculation crashed while it was writing a file, or you ran out of diskspace writing the file.
> 
> Best regards
> 
> Jakob
> 
> --
> Jakob Schiøtz, professor, Ph.D.
> Department of Physics
> Technical University of Denmark
> DK-2800 Kongens Lyngby, Denmark
> 
> 
> 
> 
> > On 12 Feb 2022, at 00.16, Hasan Al-Mahayni via ase-users <ase-users at listserv.fysik.dtu.dk> wrote:
> > 
> > Also, here is my inputfile:
> > 
> > Hasan Al-Mahayni
> > 
> > 
> > On Fri, Feb 11, 2022 at 6:15 PM Hasan Al-Mahayni <hasanalmahayni at gmail.com> wrote:
> > Hello Everyone, 
> > 
> > I am getting the following error :
> > 
> > Traceback (most recent call last):
> >   File "run.py", line 133, in <module>
> >     vib.summary(log='vib.txt')
> >   File "/home/hasan99/.local/lib/python3.7/site-packages/ase/vibrations/vibrations.py", line 400, in summary
> >     hnu = self.get_energies(method, direction)
> >   File "/home/hasan99/.local/lib/python3.7/site-packages/ase/vibrations/vibrations.py", line 364, in get_energies
> >     self.read(method, direction, **kw)
> >   File "/home/hasan99/.local/lib/python3.7/site-packages/ase/vibrations/vibrations.py", line 317, in read
> >     fminus = load(name + '-.pckl', combined_data)
> >   File "/home/hasan99/.local/lib/python3.7/site-packages/ase/vibrations/vibrations.py", line 293, in load
> >     f = pickleload(fl)
> > EOFError: Ran out of input
> > 
> > I have never seen this error before, and I have been running vibrational analysis (deltaG) for 1 month now and never got this error. My code runs fine and generates all the "vib." files until I get to "vib.summary(log='vib.txt')". I attached the python script as well as the submission file. Please let me know if you have any idea!
> > 
> > Thanks,
> > 
> > Hasan Al-Mahayni
> > <input.xyz>_______________________________________________
> > ase-users mailing list
> > ase-users at listserv.fysik.dtu.dk
> > https://listserv.fysik.dtu.dk/mailman/listinfo/ase-users
>