Run CI on macos-14 (ARM)

[jeromekelleher]

Basic attempt at #215 to see what breaks

[jeromekelleher]

Hit into immediate problems here with cyvcf2:

==================================== ERRORS ====================================
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______________________ ERROR collecting tests/test_cli.py ______________________
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ImportError while importing test module '/Users/runner/work/bio2zarr/bio2zarr/tests/test_cli.py'.
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Hint: make sure your test modules/packages have valid Python names.
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Traceback:
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/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/importlib/__init__.py:126: in import_module
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    return _bootstrap._gcd_import(name[level:], package, level)
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tests/test_cli.py:9: in <module>
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    from bio2zarr import __main__ as main
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bio2zarr/__main__.py:3: in <module>
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    from . import cli
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bio2zarr/cli.py:11: in <module>
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    from . import plink, provenance, vcf2zarr, vcf_utils
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bio2zarr/vcf2zarr/__init__.py:1: in <module>
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    from .icf import (
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bio2zarr/vcf2zarr/icf.py:16: in <module>
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    from .. import constants, core, provenance, vcf_utils
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bio2zarr/vcf_utils.py:11: in <module>
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    import cyvcf2
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/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/cyvcf2/__init__.py:1: in <module>
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    from .cyvcf2 import (VCF, Variant, Writer, r_ as r_unphased, par_relatedness,
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E   ImportError: dlopen(/Library/Frameworks/Python.framework/Versions/3.11/lib/python3.11/site-packages/cyvcf2/cyvcf2.cpython-311-darwin.so, 0x0002): symbol not found in flat namespace '_bcf_float_missing'

[jeromekelleher]

@tomwhite - how do you get cyvcf2 running on ARM? Did we get around this by using conda packages on sgkit?

[tomwhite]

There have been macos arm packages for cyvcf2 for a while now (https://github.com/sgkit-dev/sgkit/issues/655#issuecomment-953691531), so installing using pip should work.

Bioconda doesn't have macos arm packages unfortunately (see https://anaconda.org/bioconda/cyvcf2).

(BTW I often use Rosetta to emulate intel to avoid these errors.)

[jeromekelleher]

I've been thrashing around a bit here to see if I can get cyvcf2 working @tomwhite - basically, the binary packages don't seem to work because of the symbol resolution problem, and compiling doesn't seem to be an easy option either.

Any suggestions?

[coveralls]

coverage: 98.874%. remained the same when pulling f122d3317716df24b98893caede7fa859be030c3 on jeromekelleher:run-on-arm into c2fde100a4649d5a866c0eb0e7c70bc10188838c on sgkit-dev:main.