One of our researchers sent an email describing some confusion between our code/comments and his expectations.
There seems to be a transpose typo somewhere in Aspire v0.11.1 when creating FFBBasis3D. I am not sure if this has been corrected since that version, so I just wanted to run it by you before submitting an issue.
MWE:
import numpy as np
from aspire.basis import *
M = 32
L = 8
py_basis = FFBBasis3D((M,M,M), ell_max = L, dtype=np.float32)
py_basis.r0
The last line displays ragged lists that are the transpose of what it should be, in order for py_basis.r0[0] to be the list of zeros corresponding to j_0, i.e., to access what should be py_basis.r0[0], I need to run
[py_basis.r0[i][0] for i in range(len(py_basis.r0))]
which outputs
[3.1415927, 6.2831855, 9.424778, 12.566371, 15.707963, 18.849556, 21.991148, 25.132742, 28.274334, 31.415926, 34.557518, 37.699112, 40.840706, 43.982296, 47.12389]
(which in particular has length py_basis.k_max[0])
Sorry if I am misinterpreting the syntax somewhere and if this has already been fixed in the latest aspire versions, but it seems from lines 49-51 in [https://github.com/ComputationalCryoEM/ASPIRE-Python/blob/main/src/aspire/basis/fb.py](https://nam12.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgithub.com%2FComputationalCryoEM%2FASPIRE-Python%2Fblob%2Fmain%2Fsrc%2Faspire%2Fbasis%2Ffb.py&data=05%7C02%7Cgbwright%40princeton.edu%7C775f1e9d45424947d45e08dc95501828%7C2ff601167431425db5af077d7791bda4%7C0%7C0%7C638549418428279534%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C0%7C%7C%7C&sdata=YmXmWCNQn%2BlDKqpR8kfuQBTxVA8feX1D7srXhHrnFQk%3D&reserved=0) that this should be the interpretation.
So far I tracked it back to this commit removing several m_ methods.
One of our researchers sent an email describing some confusion between our code/comments and his expectations.
So far I tracked it back to this commit removing several
m_methods.https://github.com/ComputationalCryoEM/ASPIRE-Python/commit/cb39a8af17d4524e7127dcab35245e8e077b9fdd