[Python] Conda Environment Update Fails Due to PyQt5 Metadata Generation Error on macOS (ARM)

System Details:

macOS Version: macOS 13 Chip: Apple M2 Conda Version: 23.7.4 Python Version: 3.11 RELION Version: 5.0 PyQt5 Version: 5.15.9 Questions:

Why is PyQt5 failing to build metadata, and how can I fix this issue? Do I need to install qt or sip differently on macOS (ARM)? Is this related to the Conda environment using Python 3.11 instead of 3.10?

melchua@MacBook-Air ~ % conda activate relion
/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_streaming/package_streaming.py:25: UserWarning: zstandard could not be imported. Running without .conda support.
warnings.warn("zstandard could not be imported. Running without .conda support.")
/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_handling/api.py:29: UserWarning: Install zstandard Python bindings for .conda support
_warnings.warn("Install zstandard Python bindings for .conda support")
(relion) melchua@MacBook-Air ~ % cd relion
(relion) melchua@MacBook-Air relion % conda env update -f environment.yml
/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_streaming/package_streaming.py:25: UserWarning: zstandard could not be imported. Running without .conda support.
warnings.warn("zstandard could not be imported. Running without .conda support.")
/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_handling/api.py:29: UserWarning: Install zstandard Python bindings for .conda support
_warnings.warn("Install zstandard Python bindings for .conda support")
Collecting package metadata (repodata.json): done
Solving environment: done
Installing pip dependencies: - Ran pip subprocess with arguments:
['/Users/melchua/miniconda3/envs/relion-5.0/bin/python', '-m', 'pip', 'install', '-U', '-r', '/Users/melchua/relion/condaenv.a1274g1p.requirements.txt', '--exists-action=b']
Pip subprocess output:
Collecting git+https://github.com/3dem/relion-classranker (from -r /Users/melchua/relion/condaenv.a1274g1p.requirements.txt (line 22))
Cloning https://github.com/3dem/relion-classranker to /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-5jmt46is
Resolved https://github.com/3dem/relion-classranker to commit 8727e78cf00ffcbb0cb3dd5918db987a13cf4f3a
Preparing metadata (setup.py): started
Preparing metadata (setup.py): finished with status 'done'
Collecting git+https://github.com/3dem/relion-blush (from -r /Users/melchua/relion/condaenv.a1274g1p.requirements.txt (line 23))
Cloning https://github.com/3dem/relion-blush to /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-xjjpylws
Resolved https://github.com/3dem/relion-blush to commit 7889199242ab8227c628df72ea396826ed50185e
Preparing metadata (setup.py): started
Preparing metadata (setup.py): finished with status 'done'
Collecting git+https://github.com/3dem/DynaMight (from -r /Users/melchua/relion/condaenv.a1274g1p.requirements.txt (line 24))
Cloning https://github.com/3dem/DynaMight to /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-evq469a8
Resolved https://github.com/3dem/DynaMight to commit d7d75e888635d5997b6183af77790d08cc6c7f26
Installing build dependencies: started
Installing build dependencies: finished with status 'done'
Getting requirements to build wheel: started
Getting requirements to build wheel: finished with status 'done'
Preparing metadata (pyproject.toml): started
Preparing metadata (pyproject.toml): finished with status 'done'
Collecting git+https://github.com/3dem/topaz (from -r /Users/melchua/relion/condaenv.a1274g1p.requirements.txt (line 25))
Cloning https://github.com/3dem/topaz to /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-8npt2q95
Resolved https://github.com/3dem/topaz to commit 14b2bc331768b67b3267397523de57c707fa1253
Preparing metadata (setup.py): started
Preparing metadata (setup.py): finished with status 'done'
Collecting git+https://github.com/3dem/model-angelo (from -r /Users/melchua/relion/condaenv.a1274g1p.requirements.txt (line 26))
Cloning https://github.com/3dem/model-angelo to /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-0owgggtt
Resolved https://github.com/3dem/model-angelo to commit ddd969038045c28c5f281353dd62e98afb57859c
Preparing metadata (setup.py): started
Preparing metadata (setup.py): finished with status 'done'
Processing /Users/melchua/relion
Installing build dependencies: started
Installing build dependencies: finished with status 'done'
Getting requirements to build wheel: started
Getting requirements to build wheel: finished with status 'done'
Preparing metadata (pyproject.toml): started
Preparing metadata (pyproject.toml): finished with status 'done'
Collecting torch==2.0.1
Using cached torch-2.0.1-cp310-none-macosx_11_0_arm64.whl (55.8 MB)
Collecting torchvision==0.15.2
Using cached torchvision-0.15.2-cp310-cp310-macosx_11_0_arm64.whl (1.4 MB)
Collecting tqdm==4.65.0
Using cached tqdm-4.65.0-py3-none-any.whl (77 kB)
Collecting mrcfile==1.4.3
Using cached mrcfile-1.4.3-py2.py3-none-any.whl (43 kB)
Collecting starfile>=0.5.6
Using cached starfile-0.5.12-py3-none-any.whl (10 kB)
Collecting loguru==0.7.0
Using cached loguru-0.7.0-py3-none-any.whl (59 kB)
Collecting scikit-learn==1.3.0
Using cached scikit_learn-1.3.0-cp310-cp310-macosx_12_0_arm64.whl (9.5 MB)
Collecting umap-learn==0.5.3
Using cached umap-learn-0.5.3.tar.gz (88 kB)
Preparing metadata (setup.py): started
Preparing metadata (setup.py): finished with status 'done'
Collecting matplotlib==3.7.2
Using cached matplotlib-3.7.2-cp310-cp310-macosx_11_0_arm64.whl (7.3 MB)
Collecting morphosamplers==0.0.13
Using cached morphosamplers-0.0.13-py3-none-any.whl (29 kB)
Collecting pydantic==1.10.18
Using cached pydantic-1.10.18-cp310-cp310-macosx_11_0_arm64.whl (2.3 MB)
Collecting napari[all]==0.4.18
Using cached napari-0.4.18-py3-none-any.whl (2.6 MB)
Collecting tsnecuda==3.0.1
Using cached tsnecuda-3.0.1-py3-none-any.whl (53.2 MB)
Collecting PyQt5==5.15.9
Using cached PyQt5-5.15.9.tar.gz (3.2 MB)
Installing build dependencies: started
Installing build dependencies: finished with status 'done'
Getting requirements to build wheel: started
Getting requirements to build wheel: finished with status 'done'
Preparing metadata (pyproject.toml): started
Preparing metadata (pyproject.toml): finished with status 'error'

Pip subprocess error:
/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_streaming/package_streaming.py:25: UserWarning: zstandard could not be imported. Running without .conda support.
warnings.warn("zstandard could not be imported. Running without .conda support.")
/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_handling/api.py:29: UserWarning: Install zstandard Python bindings for .conda support
_warnings.warn("Install zstandard Python bindings for .conda support")
/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_streaming/package_streaming.py:25: UserWarning: zstandard could not be imported. Running without .conda support.
warnings.warn("zstandard could not be imported. Running without .conda support.")
/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_handling/api.py:29: UserWarning: Install zstandard Python bindings for .conda support
_warnings.warn("Install zstandard Python bindings for .conda support")
Running command git clone --filter=blob:none --quiet https://github.com/3dem/relion-classranker /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-5jmt46is
Running command git clone --filter=blob:none --quiet https://github.com/3dem/relion-blush /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-xjjpylws
Running command git clone --filter=blob:none --quiet https://github.com/3dem/DynaMight /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-evq469a8
Running command git clone --filter=blob:none --quiet https://github.com/3dem/topaz /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-8npt2q95
Running command git clone --filter=blob:none --quiet https://github.com/3dem/model-angelo /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-0owgggtt
error: subprocess-exited-with-error

× Preparing metadata (pyproject.toml) did not run successfully.
│ exit code: 1
╰─> [25 lines of output]
pyproject.toml: line 7: using '[tool.sip.metadata]' to specify the project metadata is deprecated and will be removed in SIP v7.0.0, use '[project]' instead
Querying qmake about your Qt installation...
Traceback (most recent call last):
File "/Users/melchua/miniconda3/envs/relion-5.0/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 144, in prepare_metadata_for_build_wheel
hook = backend.prepare_metadata_for_build_wheel
AttributeError: module 'sipbuild.api' has no attribute 'prepare_metadata_for_build_wheel'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
File "/Users/melchua/miniconda3/envs/relion-5.0/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 351, in <module>
main()
File "/Users/melchua/miniconda3/envs/relion-5.0/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 333, in main
json_out['return_val'] = hook(**hook_input['kwargs'])
File "/Users/melchua/miniconda3/envs/relion-5.0/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 148, in prepare_metadata_for_build_wheel
whl_basename = backend.build_wheel(metadata_directory, config_settings)
File "/private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-build-env-tw3k0el0/overlay/lib/python3.10/site-packages/sipbuild/api.py", line 28, in build_wheel
project = AbstractProject.bootstrap('wheel',
File "/private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-build-env-tw3k0el0/overlay/lib/python3.10/site-packages/sipbuild/abstract_project.py", line 74, in bootstrap
project.setup(pyproject, tool, tool_description)
File "/private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-build-env-tw3k0el0/overlay/lib/python3.10/site-packages/sipbuild/project.py", line 645, in setup
self.update(tool)
File "/private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-install-8irt7wi9/pyqt5_fd2e5c57a5ea41b7914af6e97a8d3460/project.py", line 165, in update
raise UserException(
sipbuild.exceptions.UserException
[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.

failed

CondaEnvException: Pip failed

(relion) melchua@MacBook-Air relion % conda install -c conda-forge zstandard

/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_streaming/package_streaming.py:25: UserWarning: zstandard could not be imported. Running without .conda support.
warnings.warn("zstandard could not be imported. Running without .conda support.")
/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_handling/api.py:29: UserWarning: Install zstandard Python bindings for .conda support
_warnings.warn("Install zstandard Python bindings for .conda support")
Collecting package metadata (repodata.json): done
Solving environment: done

## Package Plan ##

environment location: /Users/melchua/miniconda3/envs/relion

added / updated specs:
- zstandard


The following packages will be downloaded:

package | build
---------------------------|-----------------
cffi-1.15.1 | py311hae827db_2 276 KB conda-forge
pycparser-2.21 | pyhd8ed1ab_0 100 KB conda-forge
python-3.11.0 |h93c2e33_0_cpython 14.9 MB conda-forge
python_abi-3.11 | 2_cp311 5 KB conda-forge
setuptools-65.5.1 | pyhd8ed1ab_0 731 KB conda-forge
zstandard-0.19.0 | py311he2be06e_0 562 KB conda-forge
------------------------------------------------------------
Total: 16.5 MB

The following NEW packages will be INSTALLED:

bzip2 conda-forge/osx-arm64::bzip2-1.0.8-h3422bc3_4
ca-certificates conda-forge/osx-arm64::ca-certificates-2022.9.24-h4653dfc_0
cffi conda-forge/osx-arm64::cffi-1.15.1-py311hae827db_2
libffi conda-forge/osx-arm64::libffi-3.4.2-h3422bc3_5
libsqlite conda-forge/osx-arm64::libsqlite-3.40.0-h76d750c_0
libzlib conda-forge/osx-arm64::libzlib-1.2.13-h03a7124_4
ncurses conda-forge/osx-arm64::ncurses-6.3-h07bb92c_1
openssl conda-forge/osx-arm64:penssl-3.0.7-h03a7124_0
pip conda-forge/noarch:ip-22.3.1-pyhd8ed1ab_0
pycparser conda-forge/noarch:ycparser-2.21-pyhd8ed1ab_0
python conda-forge/osx-arm64:ython-3.11.0-h93c2e33_0_cpython
python_abi conda-forge/osx-arm64:ython_abi-3.11-2_cp311
readline conda-forge/osx-arm64::readline-8.1.2-h46ed386_0
setuptools conda-forge/noarch::setuptools-65.5.1-pyhd8ed1ab_0
tk conda-forge/osx-arm64::tk-8.6.12-he1e0b03_0
tzdata conda-forge/noarch::tzdata-2022f-h191b570_0
wheel conda-forge/noarch::wheel-0.38.4-pyhd8ed1ab_0
xz conda-forge/osx-arm64::xz-5.2.6-h57fd34a_0
zstandard conda-forge/osx-arm64::zstandard-0.19.0-py311he2be06e_0


Proceed ([y]/n)? y


Downloading and Extracting Packages:

Preparing transaction: done
Verifying transaction: done
Executing transaction: done
/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_streaming/package_streaming.py:25: UserWarning: zstandard could not be imported. Running without .conda support.
warnings.warn("zstandard could not be imported. Running without .conda support.")
/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_handling/api.py:29: UserWarning: Install zstandard Python bindings for .conda support
_warnings.warn("Install zstandard Python bindings for .conda support")
(relion) melchua@MacBook-Air relion % pip install --upgrade sip

Collecting sip
Using cached sip-6.10.0-1-py3-none-any.whl (2.6 MB)
Collecting packaging
Using cached packaging-24.2-py3-none-any.whl (65 kB)
Collecting setuptools>=69.5
Using cached setuptools-76.0.0-py3-none-any.whl (1.2 MB)
Installing collected packages: setuptools, packaging, sip
Attempting uninstall: setuptools
Found existing installation: setuptools 65.5.1
Uninstalling setuptools-65.5.1:
Successfully uninstalled setuptools-65.5.1
Successfully installed packaging-24.2 setuptools-76.0.0 sip-6.10.0
(relion) melchua@MacBook-Air relion % pip install PyQt5

Collecting PyQt5
Downloading PyQt5-5.15.11-cp38-abi3-macosx_11_0_arm64.whl (6.6 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 6.6/6.6 MB 2.6 MB/s eta 0:00:00
Collecting PyQt5-sip<13,>=12.15
Downloading PyQt5_sip-12.17.0-cp311-cp311-macosx_10_9_universal2.whl (122 kB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 122.7/122.7 kB 4.3 MB/s eta 0:00:00
Collecting PyQt5-Qt5<5.16.0,>=5.15.2
Downloading PyQt5_Qt5-5.15.16-py3-none-macosx_11_0_arm64.whl (37.1 MB)
━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━━ 37.1/37.1 MB 5.9 MB/s eta 0:00:00
Installing collected packages: PyQt5-Qt5, PyQt5-sip, PyQt5
Successfully installed PyQt5-5.15.11 PyQt5-Qt5-5.15.16 PyQt5-sip-12.17.0
(relion) melchua@MacBook-Air relion % conda env update -f environment.yml
/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_streaming/package_streaming.py:25: UserWarning: zstandard could not be imported. Running without .conda support.
warnings.warn("zstandard could not be imported. Running without .conda support.")
/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_handling/api.py:29: UserWarning: Install zstandard Python bindings for .conda support
_warnings.warn("Install zstandard Python bindings for .conda support")
Collecting package metadata (repodata.json): done
Solving environment: done
Installing pip dependencies: - Ran pip subprocess with arguments:
['/Users/melchua/miniconda3/envs/relion-5.0/bin/python', '-m', 'pip', 'install', '-U', '-r', '/Users/melchua/relion/condaenv.sbi0htct.requirements.txt', '--exists-action=b']
Pip subprocess output:
Collecting git+https://github.com/3dem/relion-classranker (from -r /Users/melchua/relion/condaenv.sbi0htct.requirements.txt (line 22))
Cloning https://github.com/3dem/relion-classranker to /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-vffw4mxz
Resolved https://github.com/3dem/relion-classranker to commit 8727e78cf00ffcbb0cb3dd5918db987a13cf4f3a
Preparing metadata (setup.py): started
Preparing metadata (setup.py): finished with status 'done'
Collecting git+https://github.com/3dem/relion-blush (from -r /Users/melchua/relion/condaenv.sbi0htct.requirements.txt (line 23))
Cloning https://github.com/3dem/relion-blush to /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-idx5vvk7
Resolved https://github.com/3dem/relion-blush to commit 7889199242ab8227c628df72ea396826ed50185e
Preparing metadata (setup.py): started
Preparing metadata (setup.py): finished with status 'done'
Collecting git+https://github.com/3dem/DynaMight (from -r /Users/melchua/relion/condaenv.sbi0htct.requirements.txt (line 24))
Cloning https://github.com/3dem/DynaMight to /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-vkp2a_ix
Resolved https://github.com/3dem/DynaMight to commit d7d75e888635d5997b6183af77790d08cc6c7f26
Installing build dependencies: started
Installing build dependencies: finished with status 'done'
Getting requirements to build wheel: started
Getting requirements to build wheel: finished with status 'done'
Preparing metadata (pyproject.toml): started
Preparing metadata (pyproject.toml): finished with status 'done'
Collecting git+https://github.com/3dem/topaz (from -r /Users/melchua/relion/condaenv.sbi0htct.requirements.txt (line 25))
Cloning https://github.com/3dem/topaz to /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-slmc2x98
Resolved https://github.com/3dem/topaz to commit 14b2bc331768b67b3267397523de57c707fa1253
Preparing metadata (setup.py): started
Preparing metadata (setup.py): finished with status 'done'
Collecting git+https://github.com/3dem/model-angelo (from -r /Users/melchua/relion/condaenv.sbi0htct.requirements.txt (line 26))
Cloning https://github.com/3dem/model-angelo to /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-z8sca1_6
Resolved https://github.com/3dem/model-angelo to commit ddd969038045c28c5f281353dd62e98afb57859c
Preparing metadata (setup.py): started
Preparing metadata (setup.py): finished with status 'done'
Processing /Users/melchua/relion
Installing build dependencies: started
Installing build dependencies: finished with status 'done'
Getting requirements to build wheel: started
Getting requirements to build wheel: finished with status 'done'
Preparing metadata (pyproject.toml): started
Preparing metadata (pyproject.toml): finished with status 'done'
Collecting torch==2.0.1
Using cached torch-2.0.1-cp310-none-macosx_11_0_arm64.whl (55.8 MB)
Collecting torchvision==0.15.2
Using cached torchvision-0.15.2-cp310-cp310-macosx_11_0_arm64.whl (1.4 MB)
Collecting tqdm==4.65.0
Using cached tqdm-4.65.0-py3-none-any.whl (77 kB)
Collecting mrcfile==1.4.3
Using cached mrcfile-1.4.3-py2.py3-none-any.whl (43 kB)
Collecting starfile>=0.5.6
Using cached starfile-0.5.12-py3-none-any.whl (10 kB)
Collecting loguru==0.7.0
Using cached loguru-0.7.0-py3-none-any.whl (59 kB)
Collecting scikit-learn==1.3.0
Using cached scikit_learn-1.3.0-cp310-cp310-macosx_12_0_arm64.whl (9.5 MB)
Collecting umap-learn==0.5.3
Using cached umap-learn-0.5.3.tar.gz (88 kB)
Preparing metadata (setup.py): started
Preparing metadata (setup.py): finished with status 'done'
Collecting matplotlib==3.7.2
Using cached matplotlib-3.7.2-cp310-cp310-macosx_11_0_arm64.whl (7.3 MB)
Collecting morphosamplers==0.0.13
Using cached morphosamplers-0.0.13-py3-none-any.whl (29 kB)
Collecting pydantic==1.10.18
Using cached pydantic-1.10.18-cp310-cp310-macosx_11_0_arm64.whl (2.3 MB)
Collecting napari[all]==0.4.18
Using cached napari-0.4.18-py3-none-any.whl (2.6 MB)
Collecting tsnecuda==3.0.1
Using cached tsnecuda-3.0.1-py3-none-any.whl (53.2 MB)
Collecting PyQt5==5.15.9
Using cached PyQt5-5.15.9.tar.gz (3.2 MB)
Installing build dependencies: started
Installing build dependencies: finished with status 'done'
Getting requirements to build wheel: started
Getting requirements to build wheel: finished with status 'done'
Preparing metadata (pyproject.toml): started
Preparing metadata (pyproject.toml): finished with status 'error'

Pip subprocess error:
/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_streaming/package_streaming.py:25: UserWarning: zstandard could not be imported. Running without .conda support.
warnings.warn("zstandard could not be imported. Running without .conda support.")
/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_handling/api.py:29: UserWarning: Install zstandard Python bindings for .conda support
_warnings.warn("Install zstandard Python bindings for .conda support")
/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_streaming/package_streaming.py:25: UserWarning: zstandard could not be imported. Running without .conda support.
warnings.warn("zstandard could not be imported. Running without .conda support.")
/Users/melchua/miniconda3/lib/python3.12/site-packages/conda_package_handling/api.py:29: UserWarning: Install zstandard Python bindings for .conda support
_warnings.warn("Install zstandard Python bindings for .conda support")
Running command git clone --filter=blob:none --quiet https://github.com/3dem/relion-classranker /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-vffw4mxz
Running command git clone --filter=blob:none --quiet https://github.com/3dem/relion-blush /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-idx5vvk7
Running command git clone --filter=blob:none --quiet https://github.com/3dem/DynaMight /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-vkp2a_ix
Running command git clone --filter=blob:none --quiet https://github.com/3dem/topaz /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-slmc2x98
Running command git clone --filter=blob:none --quiet https://github.com/3dem/model-angelo /private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-req-build-z8sca1_6
error: subprocess-exited-with-error

× Preparing metadata (pyproject.toml) did not run successfully.
│ exit code: 1
╰─> [25 lines of output]
pyproject.toml: line 7: using '[tool.sip.metadata]' to specify the project metadata is deprecated and will be removed in SIP v7.0.0, use '[project]' instead
Querying qmake about your Qt installation...
Traceback (most recent call last):
File "/Users/melchua/miniconda3/envs/relion-5.0/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 144, in prepare_metadata_for_build_wheel
hook = backend.prepare_metadata_for_build_wheel
AttributeError: module 'sipbuild.api' has no attribute 'prepare_metadata_for_build_wheel'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
File "/Users/melchua/miniconda3/envs/relion-5.0/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 351, in <module>
main()
File "/Users/melchua/miniconda3/envs/relion-5.0/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 333, in main
json_out['return_val'] = hook(**hook_input['kwargs'])
File "/Users/melchua/miniconda3/envs/relion-5.0/lib/python3.10/site-packages/pip/_vendor/pep517/in_process/_in_process.py", line 148, in prepare_metadata_for_build_wheel
whl_basename = backend.build_wheel(metadata_directory, config_settings)
File "/private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-build-env-uym50ri9/overlay/lib/python3.10/site-packages/sipbuild/api.py", line 28, in build_wheel
project = AbstractProject.bootstrap('wheel',
File "/private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-build-env-uym50ri9/overlay/lib/python3.10/site-packages/sipbuild/abstract_project.py", line 74, in bootstrap
project.setup(pyproject, tool, tool_description)
File "/private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-build-env-uym50ri9/overlay/lib/python3.10/site-packages/sipbuild/project.py", line 645, in setup
self.update(tool)
File "/private/var/folders/3s/2xryx8316mj8fwbryxd0z7d40000gp/T/pip-install-in2203ks/pyqt5_42cc4e87898340ef9325f1fdcca53288/project.py", line 165, in update
raise UserException(
sipbuild.exceptions.UserException
[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.

failed

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