LooseLab / readfish

CLI tool for flexible and fast adaptive sampling on ONT sequencers
https://looselab.github.io/readfish/
GNU General Public License v3.0
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read-until version is missing from docs #281

Closed satriobio closed 12 months ago

satriobio commented 12 months ago

Unfortunately i cannot found the required read-until version from docs.

The read_until package version installed through pip is 3.0.0, which i think still using python 3.8. This will throw error form numpy compilation (with ubuntu 20.04):

...
      [end of output]

  note: This error originates from a subprocess, and is likely not a problem with pip.
  ERROR: Failed building wheel for numpy
  Running setup.py clean for numpy
  error: subprocess-exited-with-error

  × python setup.py clean did not run successfully.
  │ exit code: 1
  ╰─> [10 lines of output]
      Running from numpy source directory.

      `setup.py clean` is not supported, use one of the following instead:

        - `git clean -xdf` (cleans all files)
        - `git clean -Xdf` (cleans all versioned files, doesn't touch
                            files that aren't checked into the git repo)

      Add `--force` to your command to use it anyway if you must (unsupported).

      [end of output]

  note: This error originates from a subprocess, and is likely not a problem with pip.
  ERROR: Failed cleaning build dir for numpy
Failed to build numpy
ERROR: Could not build wheels for numpy, which is required to install pyproject.toml-based projects

Workaround. install the latest (v3.4.1)

pip install git+https://github.com/nanoporetech/read_until_api@v3.4.1
github-actions[bot] commented 12 months ago

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mattloose commented 12 months ago

This is now resolved in the most recent release.