Hi Xavier,
I appreciate your help! I updated my code to the following but now I receive an error that traces back to the Random_sites line and says that the list index is out of range. If I attempt to print sites2 then the output is an empty list. This is a bit confusing to me, is it because the system is not yet finalized? Once again thank you so much for your help!
def make_syst(r=30, t=-1, a=1):
syst = kwant.Builder()
lat = kwant.lattice.honeycomb(a, norbs=1)
sites2 = list(syst.sites())
Random_sites = random.choices(sites2, k = 10)
def onsite(site):
return 0.5 * kwant.digest.uniform(repr(Random_sites)) + 0.5
def circle(pos):
x, y = pos
return x ** 2 + y ** 2 < r ** 2
syst[lat.shape(circle, Random_sites)] = onsite
syst[lat.neighbors()] = t
syst.eradicate_dangling()
return syst
From: Xavier Waintal
Sent: Thursday, May 12, 2022 2:25 AM
To: Blackwell, Raymond
Cc: kwant-discuss@python.org
Subject: Re: [Kwant] Help: Inputting Random Potential on Graphene
Dear Raymond,
I think that the problem comes from the last line of your code.
syst[lat.shape(circle, (0, 0))] = onsite(bytes(3),bytes(3))
calls the function onsite with the 2 arguments you provided and then assign the result to all the sites.
What you want to do is
syst[lat.shape(circle, (0, 0))] = onsite
In that case, when iterating over the sites, kwant will call the onsite function for each site.
See the documentation for providing the salt parameter, e.g. https://kwant-project.org/doc/1/tutorial/spin_potential_shapehttps://urldefense.com/v3/__https:/kwant-project.org/doc/1/tutorial/spin_pot... in the quantum_well.py example.
Best regards,
Xavier
Le 12 mai 2022 à 00:26, Blackwell, Raymond mailto:rblackwel@bnl.gov> a écrit :
Hello,
My name is Raymond Blackwell and I am attempting to use Kwant to simulate some experimental data. Our data involves dopant atoms intercalated under graphene, so I would like to simulate the LDOS but with a potential that randomly varies at several points within the system. I am trying to modify the code for the kernel_polynominal_method, but I cannot seem to get a random potential. I have used a similar method to randomly select a few points and modify the hopping parameter, but I am struggling with the seemingly more simple case where the potential varies.
The relevant portion of my code is below.
def make_syst(r=30, t=-1, a=1):
syst = kwant.Builder()
lat = kwant.lattice.honeycomb(a, norbs=1)
def circle(pos):
x, y = pos
return x ** 2 + y ** 2 < r ** 2
sites2 = list(syst.sites())
Random_sites= random.choices(sites2, k=10)
def onsite(site, salt):
return 0.5 * kwant.digest.gauss(repr(Random_sites), salt)
syst[lat.shape(circle, (0, 0))] = onsite(bytes(3),bytes(3))
Any help is greatly appreciated!
Best,
-Raymond