Hello,
Is it possible to do 2 neb paths in one run itself? Or if i want to break a path into two parts, is it possible? (for eg: site 1 to site 3 is broken up as first half being site 1 to site 2 and second half being site 2 to site 3)
Thank you.
Search found 39 matches
- Tue Oct 03, 2023 12:07 am
- Forum: VTSTTools
- Topic: Combining two neb paths into one
- Replies: 1
- Views: 67958
- Mon Jul 31, 2023 5:44 pm
- Forum: VTSTTools
- Topic: Error with nebmovie.pl script
- Replies: 1
- Views: 68176
Error with nebmovie.pl script
Dear Prof. Henkelman,
I get an error while using the nebmovie.pl script. I looked at the solution mentioned in the other post but i still get the same error: Illegal division by zero at /home/anandak4/bin/pos2con.pl line 160.
Illegal division by zero at /home/anandak4/bin/Vasp.pm line 168.
Could ...
I get an error while using the nebmovie.pl script. I looked at the solution mentioned in the other post but i still get the same error: Illegal division by zero at /home/anandak4/bin/pos2con.pl line 160.
Illegal division by zero at /home/anandak4/bin/Vasp.pm line 168.
Could ...
- Wed Jul 26, 2023 9:34 pm
- Forum: VTSTTools
- Topic: Movies in .xyz format
- Replies: 9
- Views: 176333
Re: Movies in .xyz format
Thanks for your reply.
If you meant just going to bin/nebmovie.pl and manually changing the value from 0 to 1, yes i tried that. But im still getting the same error as before.
If you meant just going to bin/nebmovie.pl and manually changing the value from 0 to 1, yes i tried that. But im still getting the same error as before.
- Sun Jul 16, 2023 11:55 pm
- Forum: VTSTTools
- Topic: Movies in .xyz format
- Replies: 9
- Views: 176333
Re: Movies in .xyz format
Could you let me know how did you do it?
I tried the same (turned back on) but get an error: Illegal division by zero at /home/anandak4/bin/pos2con.pl line 160.
Illegal division by zero at /home/anandak4/bin/Vasp.pm line 168.
Thank you.
I tried the same (turned back on) but get an error: Illegal division by zero at /home/anandak4/bin/pos2con.pl line 160.
Illegal division by zero at /home/anandak4/bin/Vasp.pm line 168.
Thank you.
- Mon Jun 26, 2023 7:32 pm
- Forum: VTSTTools
- Topic: Movies in .xyz format
- Replies: 9
- Views: 176333
Re: Movies in .xyz format
Dear Prof. Henkelman,
Surprisingly i also have an issue with making the movie. When i used nebmovie.pl, i got files such as p0.xyz, p1.xyz and p2.xyz instead of the earlier movie.xyz file. Could you please help with this?
Thank you
Surprisingly i also have an issue with making the movie. When i used nebmovie.pl, i got files such as p0.xyz, p1.xyz and p2.xyz instead of the earlier movie.xyz file. Could you please help with this?
Thank you
- Wed Jun 07, 2023 12:59 am
- Forum: VTSTTools
- Topic: Stuck NEB calculation
- Replies: 10
- Views: 167709
Re: Stuck NEB calculation
Dear Prof. Henkelman, i had a followup question.
I tried using the nebmake.py script but am running into the following error: File "/home/anandak4/bin/nebmake.py", line 3, in <module>
from aselite import read_vasp, write_vasp, NEB
ImportError: cannot import name NEB. I already installed ase.
I tried using the nebmake.py script but am running into the following error: File "/home/anandak4/bin/nebmake.py", line 3, in <module>
from aselite import read_vasp, write_vasp, NEB
ImportError: cannot import name NEB. I already installed ase.
- Tue Jun 06, 2023 9:45 pm
- Forum: VTSTTools
- Topic: Stuck NEB calculation
- Replies: 10
- Views: 167709
Re: Stuck NEB calculation
Thank you Prof. Henkelman
- Tue Jun 06, 2023 6:43 pm
- Forum: VTSTTools
- Topic: Stuck NEB calculation
- Replies: 10
- Views: 167709
Re: Stuck NEB calculation
Thank you for your reply.
Do i use the nebmake.py in the same way as the nebmake.pl script? i.e have the initial images generated using nebmake.py and then run the calculation as i would a normal vasp calulation? Also how different is IDPP from linear interpolation?
Do i use the nebmake.py in the same way as the nebmake.pl script? i.e have the initial images generated using nebmake.py and then run the calculation as i would a normal vasp calulation? Also how different is IDPP from linear interpolation?
- Sun Jun 04, 2023 5:46 am
- Forum: VTSTTools
- Topic: Stuck NEB calculation
- Replies: 10
- Views: 167709
Re: Stuck NEB calculation
Sorry for the inconvenience, i had only sent the input files. Here is main directory. Thank you.
- Sun Jun 04, 2023 12:45 am
- Forum: VTSTTools
- Topic: Stuck NEB calculation
- Replies: 10
- Views: 167709
Re: Stuck NEB calculation
Dear Prof. Henkelman,
thank you for your quick reply. Here is the file for the calculation. It is to study the migration of vacancy from one site to another.
thank you for your quick reply. Here is the file for the calculation. It is to study the migration of vacancy from one site to another.
- Sun Jun 04, 2023 12:08 am
- Forum: VTSTTools
- Topic: Stuck NEB calculation
- Replies: 10
- Views: 167709
Stuck NEB calculation
Hello,
One of my NEB calculations is stuck at and not running beyond 16 electronic steps within the first ionic cycle itself. It is at this state for the past 60 minutes. What can possibly be wrong?
One of my NEB calculations is stuck at and not running beyond 16 electronic steps within the first ionic cycle itself. It is at this state for the past 60 minutes. What can possibly be wrong?
- Fri May 26, 2023 7:01 pm
- Forum: VTSTTools
- Topic: Vacancy migration
- Replies: 6
- Views: 113773
Re: Vacancy migration
Got it, thanks very much for your reply
- Thu May 25, 2023 11:06 pm
- Forum: VTSTTools
- Topic: Vacancy migration
- Replies: 6
- Views: 113773
Re: Vacancy migration
Sorry if its a simple question but I just want to understand better. I am not able to get the difference between vacancy formation energy and the structure with 1 vacancy defect. Do you mean that the vacancy formation energy = (energy of perfect structure - energy of defected structure) ? And that i ...
- Thu May 25, 2023 10:35 pm
- Forum: VTSTTools
- Topic: Vacancy migration
- Replies: 6
- Views: 113773
Re: Vacancy migration
Thank you for your reply. Yes i meant that removing 1 atom from the structure, the formation energy of the structure is still negative.
But I am not able to understand how then the migration barrier is extremely high.
But I am not able to understand how then the migration barrier is extremely high.
- Wed May 24, 2023 7:58 pm
- Forum: VTSTTools
- Topic: Vacancy migration
- Replies: 6
- Views: 113773
Vacancy migration
Dear Prof. Henkelman,
I just had a general conceptual question wrt vacancy migration in a structure. The vacancy formation energies are negative and favourable, however the energy barrier for vacancy migration between the two sites is extremely high (~ 7 eV). I am not sure if this would make sense ...
I just had a general conceptual question wrt vacancy migration in a structure. The vacancy formation energies are negative and favourable, however the energy barrier for vacancy migration between the two sites is extremely high (~ 7 eV). I am not sure if this would make sense ...