Add Windows support

[enryH]

Does installing require a rust installation?

pip install vamb
Collecting vamb
  Using cached vamb-4.1.3.tar.gz (143 kB)
  Installing build dependencies ... done
  Getting requirements to build wheel ... done
  Installing backend dependencies ... done
  Preparing metadata (pyproject.toml) ... done
Collecting numpy==1.24.2 (from vamb)
  Downloading numpy-1.24.2-cp39-cp39-win_amd64.whl (14.9 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 14.9/14.9 MB 9.6 MB/s eta 0:00:00
Collecting torch==1.13.1 (from vamb)
  Downloading torch-1.13.1-cp39-cp39-win_amd64.whl (162.5 MB)
     ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 162.5/162.5 MB 4.0 MB/s eta 0:00:00
Collecting pycoverm==0.6.0 (from vamb)
  Downloading pycoverm-0.6.0.tar.gz (16 kB)
  Installing build dependencies ... done
  Getting requirements to build wheel ... done
  Preparing metadata (pyproject.toml) ... error
  error: subprocess-exited-with-error
  
  × Preparing metadata (pyproject.toml) did not run successfully.
  │ exit code: 1
  ╰─> [6 lines of output]
      
      Cargo, the Rust package manager, is not installed or is not on PATH.
      This package requires Rust and Cargo to compile extensions. Install it through
      the system's package manager or via https://rustup.rs/
     
      Checking for Rust toolchain....
      [end of output]

  note: This error originates from a subprocess, and is likely not a problem with pip.
error: metadata-generation-failed

× Encountered error while generating package metadata.
╰─> See above for output.

note: This is an issue with the package mentioned above, not pip.
hint: See above for details.

Additionally: I got nowhere with a python 3.11 and then switched to 3.9

[jakobnissen]

It shouldn't. Are you running Windows? It looks like the dependency has no precompiled binaries for Windows. I can try to add those.

[enryH]

I am running it on Windows, indeed. Looking at the error it might be an issue with the toml package description. Ruff is mentioned there.

vamb/pyproject.toml

Lines 39 to 40 in f37b5fd

	[tool.ruff]
	ignore = ["E722", "E501"]

I also go problem with the dynamic = ["version"] attribute when I try to install the latest version locally...

[enryH]

So exactly the same error for both pip install . and pip install vamb.

[enryH]

I got it now. You think it's a pycoverm issue?

So indeed:

>>> pip install pycoverm
Collecting pycoverm
  Using cached pycoverm-0.6.0.tar.gz (16 kB)
  Installing build dependencies ... done
  Getting requirements to build wheel ... done
  Preparing metadata (pyproject.toml) ... error
  error: subprocess-exited-with-error

  × Preparing metadata (pyproject.toml) did not run successfully.
  │ exit code: 1
  ╰─> [6 lines of output]
     
      Cargo, the Rust package manager, is not installed or is not on PATH.
      This package requires Rust and Cargo to compile extensions. Install it through
      the system's package manager or via https://rustup.rs/
     
      Checking for Rust toolchain....
      [end of output]

  note: This error originates from a subprocess, and is likely not a problem with pip.
error: metadata-generation-failed

× Encountered error while generating package metadata.
╰─> See above for output.

note: This is an issue with the package mentioned above, not pip.
hint: See above for details.

[jakobnissen]

Yeah. I believe that, because there are no precompiled binaries available for pycoverm for Windows, it defaults to trying to compile it yourself. This is confusing, because the dependencies for compiling Rust is not mentioned anywhere in Vamb's dependencies.

The solution should be for pycoverm to provide binaries, if possible.

[jakobnissen]

For future me: Vamb transitively depends on the Rust crate rust-htslib which fails to compile on Windows.