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This has been happening since 0.30.14 (0.30.12 works fine). It looks like this is due to #231.
% pip install cyvcf2==0.30.16 Collecting cyvcf2==0.30.16 Downloading cyvcf2-0.30.16-cp38-cp38-macosx_11_0_arm64.whl (1.4 MB) ━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 1.4/1.4 MB 2.1 MB/s eta 0:00:00 Collecting coloredlogs Using cached coloredlogs-15.0.1-py2.py3-none-any.whl (46 kB) Collecting numpy Using cached numpy-1.23.3-cp38-cp38-macosx_11_0_arm64.whl (13.3 MB) Collecting click Using cached click-8.1.3-py3-none-any.whl (96 kB) Collecting humanfriendly>=9.1 Using cached humanfriendly-10.0-py2.py3-none-any.whl (86 kB) Installing collected packages: numpy, humanfriendly, click, coloredlogs, cyvcf2 Successfully installed click-8.1.3 coloredlogs-15.0.1 cyvcf2-0.30.16 humanfriendly-10.0 numpy-1.23.3 % cyvcf2 --help Traceback (most recent call last): File "/Users/tom/miniforge3/envs/cyvcf-numpy-test-arm64/bin/cyvcf2", line 5, in <module> from cyvcf2.__main__ import cli File "/Users/tom/miniforge3/envs/cyvcf-numpy-test-arm64/lib/python3.8/site-packages/cyvcf2/__init__.py", line 1, in <module> from .cyvcf2 import (VCF, Variant, Writer, r_ as r_unphased, par_relatedness, ImportError: dlopen(/Users/tom/miniforge3/envs/cyvcf-numpy-test-arm64/lib/python3.8/site-packages/cyvcf2/cyvcf2.cpython-38-darwin.so, 0x0002): symbol not found in flat namespace (_libdeflate_alloc_compressor)
The text was updated successfully, but these errors were encountered:
I'm not sure how to fix this, so I'm looking at how to disable libdeflate for macos arm64.
Sorry, something went wrong.
sounds good. where does libdeflate go on OSX? since
CIBW_ENVIRONMENT: "CYTHONIZE=1 LIBDEFLATE=1 C_INCLUDE_PATH='/usr/local/include' LIBRARY_PATH='/usr/local/lib'"
in not sufficient.
I don't know 😄 The existing build works fine on macos x86, it's just on arm64 that libdeflate is not being found.
I've got a PR at #253.
Successfully merging a pull request may close this issue.
This has been happening since 0.30.14 (0.30.12 works fine). It looks like this is due to #231.
The text was updated successfully, but these errors were encountered: