Dear Nick,
Great! It works! Many thanks! Cheers!
Jin
On 14-Aug-15 6:11 PM, Nick Papior wrote:
You shouldn't need to rename the files, nor delete files, try first
and do the straightforward thing. Do them separately in their own
directories:
FCrun_11-11
FCrun_12-12
Then do
Phonons --FCwildcard="./FCrun_*" ...
This should work fine.
2015-08-14 8:26 GMT+00:00 Jingxian Yu <[email protected]
<mailto:[email protected]>>:
Dear All,
I need to calculate force constants for a large system (containing
more than 300 atoms). It would take more than 1000 hours on a
16-core node. So I attempt to divide the large job into small
pieces. My plan is to divide device atoms into 10 consecutive
sections, and calculate the Hamiltonian (TSHS files) for each
section. Then I will rename them, so they can link together.
I had a test with the AuH2 example. Unfortunately, my idea was not
successful.
In brief, I set the following lines to calculate the Hamiltonian
for the atom 11,
MD.FCfirst 11
MD.FClast 11
then I set the following lines to calculate the Hamiltonian for
the atom 12,
MD.FCfirst 12
MD.FClast 12
After two jobs completed, I renamed "Chain 12 1.TSHS" to
"Chain 11 7.TSHS", and so on. Also, I deleted the file "Chain
12 0.TSHS".
Regarding overlap calculations, I followed the setting suggested
on the tutorial.
However I got the following message when I ran "Phonons -c
--DeviceFirst=10 --DeviceLast=13 --FCfirst=11 --FClast=12 PHrun",
...
Phonons.GetFileLists: WARNING - Inconsistent number of *.TSHS
files in directory ./FCrun
...
ValueError: could not broadcast input array from shape (0,3) into
shape (22,3)
...
Is my idea too naive? Your comments will be appreciated! Cheers!
Jin
--
Kind regards Nick
