fbpic
rust-numpy
fbpic | rust-numpy | |
---|---|---|
2 | 10 | |
165 | 1,016 | |
-0.6% | 2.1% | |
8.1 | 8.0 | |
9 days ago | 17 days ago | |
Python | Rust | |
GNU General Public License v3.0 or later | BSD 2-clause "Simplified" License |
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fbpic
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Numba: A High Performance Python Compiler
When I wrote my bachelor thesis years back I worked on a particle-in-cell code [1] that makes heavy use of numba for GPU kernels. At the time it was the most convenient way to do that from python. I remember spending weeks to optimizing these kernels to eek out every last bit of performance I could (which interestingly enough did eventually involve using atomic operations and introducing a lot of variables[2] instead of using arrays everywhere to keep things in registers instead of slower caches).
I remember the team being really responsive to feature requests back then and I had a lot of fun working with it. IIRC compared to using numpy we managed to get speedups of up to 60x for the most critical pieces of code.
[1]: https://github.com/fbpic/fbpic
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Faster Python calculations with Numba: 2 lines of code, 13× speed-up
We used numba to accelerate the code and most importantly write GPU kernels for the heavy parts. I remember spending hours optimising my code to eek out the most performance possible (which eventually meant using atomics and manually unrolling many loops because somehow this was giving us the best performance) but honestly I was really happy that I didn't need to write cuda kernels in C and generally it was pretty easy to work with. I remember back then the documentation was sometimes a little rough around the edges but the numba team was incredibly helpful and responsive. Overall I had a great time.
[0] https://github.com/fbpic/fbpic
rust-numpy
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Numba: A High Performance Python Compiler
On the contrary, it can use and interface with numpy quite easily: https://github.com/PyO3/rust-numpy
- Carefully exploring Rust as a Python developer
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Hmm
Once I figured out the right tools, it was easy. Its just "maturin new". It automatically converts python floats and strings. Numpy arrays come through as a special Pyarray type, that you need to unwrap, but that's just one builtin function. Using pyo3, maturin and numpy, https://github.com/PyO3/rust-numpy it's fairly easy.
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Man, I love this language.
If I'm understanding this documentation correctly then you may be able to pass the numpy array directly with func(df['col'].to_numpy) which may save some conversion.
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[D] Is Rust stable/mature enough to be used for production ML? Is making Rust-based python wrappers a good choice for performance heavy uses and internal ML dependencies in 2021?
Otherwise, though, Rust is an excellent choice. The many advantages of Rust (great package manager, memory safety, modern language features, ...) are already well documented so I won't repeat them here. Specifically for writing Python libraries, check out PyO3, maturin, and rust-numpy, which allow for seamless integration with the Python scientific computing ecosystem. Dockerizing/packaging is a non-issue, with the aforementioned libraries you can easily publish Rust libraries as pip packages or compile them from source as part of your docker build. We have several successful production deployments of Rust code at OpenAI, and I have personally found it to be a joy to work with.
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Writing Rust libraries for the Python scientific computing ecosystem
Integration with numpy uses the rust-numpy crate: Example of method that accepts numpy arrays as arguments Example of a method that returns a numpy array to Python (this performs a copy, there ought to be a way to avoid it but the current implementation has been plenty fast for my use case so far)
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Feasibility of Using a Python Image Super Resolution Library in My Rust App
This example maybe helpful.
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Julia is the better language for extending Python
Given that it's via pyO3, you could even pass the numpy arrays using https://github.com/PyO3/rust-numpy and get ndarrays at the other side.
Same no copy, slightly more user friendly approach.
Further criticism of the actual approach - even if we didn't do zero copy, there's no preallocation for the vector despite the size being known upfront, and nested vectors are very slow by default.
So you could speed up the entire thing by passing it to ndarray, and then running a single call to sum over the 2D array you'd find at the other end. (https://docs.rs/ndarray/0.15.1/ndarray/struct.ArrayBase.html...)
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Parsing PDF Documents in Rust
I believe converting between pandas Series (e.g. columns) and numpy ndarrays can be pretty cheap, right? Once they're in that format, you can use rust to work directly on the numpy memory buffer with rust-numpy. Otherwise, feather is a format designed for IPC of columnar data; pyarrow is in pandas (might be an optional dependency) and may be pretty quick for that, and rust has an arrow implementation too.
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PyO3: Rust Bindings for the Python Interpreter
https://github.com/PyO3/rust-numpy
What are some alternatives?
WarpX - WarpX is an advanced, time-based electromagnetic & electrostatic Particle-In-Cell code.
RustPython - A Python Interpreter written in Rust
simsopt - Simons Stellarator Optimizer Code
julia - The Julia Programming Language
pure_numba_alias_sampling - Pure numba version of Alias sampling algorithm from L. Devroye's, "Non-Uniform Random Random Variate Generation"
polars - Dataframes powered by a multithreaded, vectorized query engine, written in Rust
autograd - Efficiently computes derivatives of numpy code.
rayon - Rayon: A data parallelism library for Rust
ndarray_comparison - Benchmark of toy calculation on an n-dimensional array using python, numba, cython, pythran and rust
image-super-resolution - 🔎 Super-scale your images and run experiments with Residual Dense and Adversarial Networks.
nodevectors - Fastest network node embeddings in the west
PyO3 - Rust bindings for the Python interpreter