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askap-vast / vast-tools

A collection of tools that are useful for the VAST project and for exploration of results from the VAST Pipeline.
https://vast-survey.org/vast-tools/
MIT License
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Bump numpy from 1.21.1 to 1.22.4 #378

Closed dependabot[bot] closed 2 years ago

dependabot[bot] commented 2 years ago

Bumps numpy from 1.21.1 to 1.22.0.

Release notes

Sourced from numpy's releases.

v1.22.0

NumPy 1.22.0 Release Notes

NumPy 1.22.0 is a big release featuring the work of 153 contributors spread over 609 pull requests. There have been many improvements, highlights are:

  • Annotations of the main namespace are essentially complete. Upstream is a moving target, so there will likely be further improvements, but the major work is done. This is probably the most user visible enhancement in this release.
  • A preliminary version of the proposed Array-API is provided. This is a step in creating a standard collection of functions that can be used across application such as CuPy and JAX.
  • NumPy now has a DLPack backend. DLPack provides a common interchange format for array (tensor) data.
  • New methods for quantile, percentile, and related functions. The new methods provide a complete set of the methods commonly found in the literature.
  • A new configurable allocator for use by downstream projects.

These are in addition to the ongoing work to provide SIMD support for commonly used functions, improvements to F2PY, and better documentation.

The Python versions supported in this release are 3.8-3.10, Python 3.7 has been dropped. Note that 32 bit wheels are only provided for Python 3.8 and 3.9 on Windows, all other wheels are 64 bits on account of Ubuntu, Fedora, and other Linux distributions dropping 32 bit support. All 64 bit wheels are also linked with 64 bit integer OpenBLAS, which should fix the occasional problems encountered by folks using truly huge arrays.

Expired deprecations

Deprecated numeric style dtype strings have been removed

Using the strings "Bytes0", "Datetime64", "Str0", "Uint32", and "Uint64" as a dtype will now raise a TypeError.

(gh-19539)

Expired deprecations for loads, ndfromtxt, and mafromtxt in npyio

numpy.loads was deprecated in v1.15, with the recommendation that users use pickle.loads instead. ndfromtxt and mafromtxt were both deprecated in v1.17 - users should use numpy.genfromtxt instead with the appropriate value for the usemask parameter.

(gh-19615)

... (truncated)

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ajstewart commented 2 years ago

numpy v1.22.0 introduced the following bug: https://github.com/numpy/numpy/issues/20699 which was fixed in 1.22.1.

Solution here is to set the numpy dependency to ~1.22.1.

Can't upgrade to 1.23 as np.asscaler has been removed that is used extensively somewhere (all tests fail), possibly astropy. Likely solved by #334.

marxide commented 2 years ago

I was bitten by this today. Numpy was updated to 1.23 and various Astropy-related things failed since numpy.asscalar is gone. astropy>=5.0.1 appears fixed.

ajstewart commented 2 years ago

I was bitten by this today. Numpy was updated to 1.23 and various Astropy-related things failed since numpy.asscalar is gone. astropy>=5.0.1 appears fixed.

At this point you probably want to just (now update) and merge #334. It was held back because I think there was going to be a release but it might as well go in as a maintenance commit and deal with anything it breaks as it's found.

marxide commented 2 years ago

At this point you probably want to just (now update) and merge #334.

I agree -- #334 appears to have a lot of fixes for the issues I'm having, but I'm not fully aware of the things blocking it from being merged so I don't want to do it myself. I'll take what I need to fix the dev branch and put it in a new PR and close this one. It's going well beyond the scope of dependabot now.

dependabot[bot] commented 2 years ago

OK, I won't notify you again about this release, but will get in touch when a new version is available. If you'd rather skip all updates until the next major or minor version, let me know by commenting @dependabot ignore this major version or @dependabot ignore this minor version.

If you change your mind, just re-open this PR and I'll resolve any conflicts on it.