Quitting pySR

[shikharmittal04]

Describe the bug I have been trying the example given in the introduction section. Equations were printed after the command model.fit(X, y). However, I am facing the relatively simple issue of quitting the run. As given in the docs, I type q and press enter but nothing happens after that. Am I misinterpreting something?

The following message appeared before equations were printed Message `` /home/shikhar/.local/lib/python3.8/site-packages/pysr/sr.py:291: UserWarning: Your Python version is statically linked to libpython. For example, this could be the python included with conda, or maybe your system's built-in python. This will still work, but the precompilation cache for Julia will be turned off, which may result in slower startup times on the initial pysr() call.

To install a Python version that is dynamically linked to libpython, pyenv is recommended (https://github.com/pyenv/pyenv).

To silence this warning, you can run pysr.silence_julia_warning() after importing pysr. warnings.warn(

Activating project at /tmp/tmpqggvkrhd Updating /tmp/tmpqggvkrhd/Project.toml [8254be44] + SymbolicRegression v0.7.6 Updating /tmp/tmpqggvkrhd/Manifest.toml [c3fe647b] + AbstractAlgebra v0.12.0 [4fba245c] + ArrayInterface v4.0.2 [d360d2e6] + ChainRulesCore v1.12.0 [9e997f8a] + ChangesOfVariables v0.1.2 [861a8166] + Combinatorics v1.0.2 [bbf7d656] + CommonSubexpressions v0.3.0 [34da2185] + Compat v3.41.0 [9a962f9c] + DataAPI v1.9.0 [864edb3b] + DataStructures v0.18.11 [163ba53b] + DiffResults v1.0.3 [b552c78f] + DiffRules v1.9.1 [ffbed154] + DocStringExtensions v0.8.6 [e2ba6199] + ExprTools v0.1.8 [1a297f60] + FillArrays v0.12.7 [6a86dc24] + FiniteDiff v2.10.0 [f6369f11] + ForwardDiff v0.10.25 [ff7dd447] + FromFile v0.1.2 [615f187c] + IfElse v0.1.1 [3587e190] + InverseFunctions v0.1.2 [92d709cd] + IrrationalConstants v0.1.1 [692b3bcd] + JLLWrappers v1.4.1 [0f8b85d8] + JSON3 v1.9.2 [7f8f8fb0] + LearnBase v0.4.1 [d3d80556] + LineSearches v7.1.1 [2ab3a3ac] + LogExpFunctions v0.3.6 [30fc2ffe] + LossFunctions v0.7.2 [1914dd2f] + MacroTools v0.5.9 [e1d29d7a] + Missings v1.0.2 [d41bc354] + NLSolversBase v7.8.2 [77ba4419] + NaNMath v0.3.7 [429524aa] + Optim v1.6.0 [bac558e1] + OrderedCollections v1.4.1 [d96e819e] + Parameters v0.12.3 [69de0a69] + Parsers v2.2.1 [85a6dd25] + PositiveFactorizations v0.2.4 [21216c6a] + Preferences v1.2.3 [fb686558] + RandomExtensions v0.4.3 [3cdcf5f2] + RecipesBase v1.2.1 [189a3867] + Reexport v1.2.2 [ae029012] + Requires v1.3.0 [a2af1166] + SortingAlgorithms v1.0.1 [276daf66] + SpecialFunctions v1.8.1 [aedffcd0] + Static v0.5.1 [90137ffa] + StaticArrays v1.3.3 [82ae8749] + StatsAPI v1.2.0 [2913bbd2] + StatsBase v0.33.14 [856f2bd8] + StructTypes v1.8.1 [8254be44] + SymbolicRegression v0.7.6 [d1185830] + SymbolicUtils v0.6.3 [a759f4b9] + TimerOutputs v0.5.15 [3a884ed6] + UnPack v1.0.2 [efe28fd5] + OpenSpecFun_jll v0.5.5+0 [0dad84c5] + ArgTools [56f22d72] + Artifacts [2a0f44e3] + Base64 [ade2ca70] + Dates [8bb1440f] + DelimitedFiles [8ba89e20] + Distributed [f43a241f] + Downloads [b77e0a4c] + InteractiveUtils [b27032c2] + LibCURL [76f85450] + LibGit2 [8f399da3] + Libdl [37e2e46d] + LinearAlgebra [56ddb016] + Logging [d6f4376e] + Markdown [a63ad114] + Mmap [ca575930] + NetworkOptions [44cfe95a] + Pkg [de0858da] + Printf [3fa0cd96] + REPL [9a3f8284] + Random [ea8e919c] + SHA [9e88b42a] + Serialization [1a1011a3] + SharedArrays [6462fe0b] + Sockets [2f01184e] + SparseArrays [10745b16] + Statistics [fa267f1f] + TOML [a4e569a6] + Tar [8dfed614] + Test [cf7118a7] + UUIDs [4ec0a83e] + Unicode [e66e0078] + CompilerSupportLibraries_jll [deac9b47] + LibCURL_jll [29816b5a] + LibSSH2_jll [c8ffd9c3] + MbedTLS_jll [14a3606d] + MozillaCACerts_jll [4536629a] + OpenBLAS_jll [05823500] + OpenLibm_jll [83775a58] + Zlib_jll [8e850b90] + libblastrampoline_jll [8e850ede] + nghttp2_jll [3f19e933] + p7zip_jll ┌ Warning: vendor() is deprecated, use BLAS.get_config() and inspect the output instead │ caller = npyinitialize() at numpy.jl:67 └ @ PyCall ~/.julia/packages/PyCall/L0fLP/src/numpy.jl:67 Started!

``

Version Ubuntu 20.04 julia 1.7.1

Additional context I am trying this example on the terminal directly.

[MilesCranmer]

Is this in ipython or python?

Could you try typing q, then \<enter> multiple times?

I note that the quit won't happen immediately; it will take up to a couple seconds to quit, so that the backend has time to collect the current populations.

[MilesCranmer]

I also wonder if it could be because your python is statically linked to libpython - maybe julia can't read stdin when this happens? If other things don't work, you could try setting up a dynamically linked python with:

PYTHON_CONFIGURE_OPTS="--enable-shared" pyenv install 3.9.10

(after installing pyenv).

[shikharmittal04]

I am using python. Thanks for the suggestions. I installed pyenv following the procedure on the page https://www.liquidweb.com/kb/how-to-install-pyenv-on-ubuntu-18-04/. I also did PYTHON_CONFIGURE_OPTS="--enable-shared" pyenv install 3.9.10 but I still get the same warning. And q +enter doesn't quit the run.

[MilesCranmer]

I'm not sure where this error is coming from, sorry. If I could reproduce it I could take a look at this but I don't see this behavior on any of my machines so I'm not sure where to start. Maybe you could try to write a python unittest for this?

Here are the current tests: https://github.com/MilesCranmer/PySR/blob/master/test/test.py

The run on ubuntu, macOS, and Windows. If a test breaks on one of these systems, I can try to debug it from there?

[shikharmittal04]

Hi, I have to run this code as it is, right? Should there be any output or something, because the code did run with no errors?

[MilesCranmer]

Oh, sorry, what I mean is to try to add a new test to test.py that tests the behavior you've seen. It would basically need to manually send 'q' through stdin to stop a test early. This is a bit of work but I don't have the time to add it right now. I can look later, but in the meantime, if you would like, you could try setting this up?