##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data MACSr
###
##############################################################################
##############################################################################


* checking for file ‘MACSr/DESCRIPTION’ ... OK
* preparing ‘MACSr’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘MACSr.Rmd’ using rmarkdown
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.11.3/MACSr/1.7.0/env_macs

  added / updated specs:
    - python=3.10


The following NEW packages will be INSTALLED:

  bzip2              conda-forge/osx-64::bzip2-1.0.8-h0d85af4_4
  ca-certificates    conda-forge/osx-64::ca-certificates-2022.12.7-h033912b_0
  libffi             conda-forge/osx-64::libffi-3.4.2-h0d85af4_5
  libsqlite          conda-forge/osx-64::libsqlite-3.40.0-ha978bb4_0
  libzlib            conda-forge/osx-64::libzlib-1.2.13-hfd90126_4
  ncurses            conda-forge/osx-64::ncurses-6.3-h96cf925_1
  openssl            conda-forge/osx-64::openssl-3.1.0-hfd90126_0
  pip                conda-forge/noarch::pip-23.0.1-pyhd8ed1ab_0
  python             conda-forge/osx-64::python-3.10.9-he7542f4_0_cpython
  readline           conda-forge/osx-64::readline-8.2-h9e318b2_1
  setuptools         conda-forge/noarch::setuptools-67.6.0-pyhd8ed1ab_0
  tk                 conda-forge/osx-64::tk-8.6.12-h5dbffcc_0
  tzdata             conda-forge/noarch::tzdata-2022g-h191b570_0
  wheel              conda-forge/noarch::wheel-0.40.0-pyhd8ed1ab_0
  xz                 conda-forge/osx-64::xz-5.2.6-h775f41a_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done
Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.11.3/MACSr/1.7.0/env_macs

  added / updated specs:
    - python=3.10


The following packages will be UPDATED:

  ca-certificates    conda-forge::ca-certificates-2022.12.~ --> pkgs/main::ca-certificates-2023.01.10-hecd8cb5_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.1.0

Please update conda by running

    $ conda update -n base -c defaults conda


Collecting package metadata (current_repodata.json): ...working... done
Solving environment: ...working... done

## Package Plan ##

  environment location: /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.11.3/MACSr/1.7.0/env_macs

  added / updated specs:
    - python[version='3.10.*,3.10.*']


The following packages will be SUPERSEDED by a higher-priority channel:

  ca-certificates    pkgs/main::ca-certificates-2023.01.10~ --> conda-forge::ca-certificates-2022.12.7-h033912b_0


Preparing transaction: ...working... done
Verifying transaction: ...working... done
Executing transaction: ...working... done


==> WARNING: A newer version of conda exists. <==
  current version: 4.12.0
  latest version: 23.1.0

Please update conda by running

    $ conda update -n base -c defaults conda


Collecting macs3==3.0.0b1
  Using cached MACS3-3.0.0b1.tar.gz (634 kB)
  Installing build dependencies: started
  Installing build dependencies: still running...
  Installing build dependencies: finished with status 'error'
  error: subprocess-exited-with-error
  
  × pip subprocess to install build dependencies did not run successfully.
  │ exit code: 1
  ╰─> [236 lines of output]
      Collecting pip
        Using cached pip-23.0.1-py3-none-any.whl (2.1 MB)
      Collecting setuptools>=58.0
        Using cached setuptools-67.6.0-py3-none-any.whl (1.1 MB)
      Collecting numpy>=1.23
        Using cached numpy-1.24.2-cp310-cp310-macosx_10_9_x86_64.whl (19.8 MB)
      Collecting cykhash>=2.0
        Using cached cykhash-2.0.1-cp310-cp310-macosx_10_9_x86_64.whl
      Collecting Cython>=0.29
        Using cached Cython-0.29.33-py2.py3-none-any.whl (987 kB)
      Collecting wheel
        Using cached wheel-0.40.0-py3-none-any.whl (64 kB)
      Collecting hmmlearn>=0.2.8
        Using cached hmmlearn-0.2.8.tar.gz (61 kB)
        Preparing metadata (setup.py): started
        Preparing metadata (setup.py): finished with status 'done'
      Collecting scikit-learn>=0.16
        Using cached scikit_learn-1.2.2-cp310-cp310-macosx_10_9_x86_64.whl (9.1 MB)
      Collecting scipy>=0.19
        Using cached scipy-1.10.1-cp310-cp310-macosx_10_9_x86_64.whl (35.1 MB)
      Collecting joblib>=1.1.1
        Using cached joblib-1.2.0-py3-none-any.whl (297 kB)
      Collecting threadpoolctl>=2.0.0
        Using cached threadpoolctl-3.1.0-py3-none-any.whl (14 kB)
      Building wheels for collected packages: hmmlearn
        Building wheel for hmmlearn (setup.py): started
        Building wheel for hmmlearn (setup.py): finished with status 'error'
        error: subprocess-exited-with-error
      
        × python setup.py bdist_wheel did not run successfully.
        │ exit code: 1
        ╰─> [89 lines of output]
            /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.11.3/MACSr/1.7.0/env_macs/lib/python3.10/site-packages/setuptools/config/setupcfg.py:516: SetuptoolsDeprecationWarning: The license_file parameter is deprecated, use license_files instead.
              warnings.warn(msg, warning_class)
            /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.11.3/MACSr/1.7.0/env_macs/lib/python3.10/site-packages/setuptools/__init__.py:85: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`.
              dist.fetch_build_eggs(dist.setup_requires)
            /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.11.3/MACSr/1.7.0/env_macs/lib/python3.10/site-packages/setuptools/config/setupcfg.py:516: SetuptoolsDeprecationWarning: The license_file parameter is deprecated, use license_files instead.
              warnings.warn(msg, warning_class)
            running bdist_wheel
            running build
            running build_py
            creating build
            creating build/lib.macosx-10.9-x86_64-cpython-310
            creating build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn
            copying lib/hmmlearn/__init__.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn
            copying lib/hmmlearn/_utils.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn
            copying lib/hmmlearn/_version.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn
            copying lib/hmmlearn/base.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn
            copying lib/hmmlearn/hmm.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn
            copying lib/hmmlearn/stats.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn
            copying lib/hmmlearn/utils.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn
            creating build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/__init__.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/conftest.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_base.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_categorical_hmm.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_gaussian_hmm.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_gmm_hmm.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_gmm_hmm_multisequence.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_gmm_hmm_new.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_multinomial_hmm.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_poisson_hmm.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_utils.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            running build_ext
            building 'hmmlearn._hmmc' extension
            creating build/temp.macosx-10.9-x86_64-cpython-310
            creating build/temp.macosx-10.9-x86_64-cpython-310/src
            clang -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.11.3/MACSr/1.7.0/env_macs/include -fPIC -O2 -isystem /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.11.3/MACSr/1.7.0/env_macs/include -I/private/tmp/pip-install-2fetvyz5/hmmlearn_16a74c4f137e46f1abdf66fbc7fef149/.eggs/pybind11-2.10.4-py3.10.egg/pybind11/include -I/Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.11.3/MACSr/1.7.0/env_macs/include/python3.10 -c src/_hmmc.cpp -o build/temp.macosx-10.9-x86_64-cpython-310/src/_hmmc.o -fvisibility=hidden -g0 -stdlib=libc++ -std=c++11 -mmacosx-version-min=10.9
            src/_hmmc.cpp:35:34: warning: braces around scalar initializer [-Wbraced-scalar-init]
              auto log = py::array_t<double>{{n}};
                                             ^~~
            src/_hmmc.cpp:63:39: warning: braces around scalar initializer [-Wbraced-scalar-init]
              auto scaling_ = py::array_t<double>{{ns}};
                                                  ^~~~
            src/_hmmc.cpp:66:8: error: call to deleted constructor of 'pybind11::gil_scoped_release'
              auto nogil = py::gil_scoped_release{};
                   ^       ~~~~~~~~~~~~~~~~~~~~~~~~
            /private/tmp/pip-install-2fetvyz5/hmmlearn_16a74c4f137e46f1abdf66fbc7fef149/.eggs/pybind11-2.10.4-py3.10.egg/pybind11/include/pybind11/gil.h:155:5: note: 'gil_scoped_release' has been explicitly marked deleted here
                gil_scoped_release(const gil_scoped_release &) = delete;
                ^
            src/_hmmc.cpp:120:8: error: call to deleted constructor of 'pybind11::gil_scoped_release'
              auto nogil = py::gil_scoped_release{};
                   ^       ~~~~~~~~~~~~~~~~~~~~~~~~
            /private/tmp/pip-install-2fetvyz5/hmmlearn_16a74c4f137e46f1abdf66fbc7fef149/.eggs/pybind11-2.10.4-py3.10.egg/pybind11/include/pybind11/gil.h:155:5: note: 'gil_scoped_release' has been explicitly marked deleted here
                gil_scoped_release(const gil_scoped_release &) = delete;
                ^
            src/_hmmc.cpp:154:8: error: call to deleted constructor of 'pybind11::gil_scoped_release'
              auto nogil = py::gil_scoped_release{};
                   ^       ~~~~~~~~~~~~~~~~~~~~~~~~
            /private/tmp/pip-install-2fetvyz5/hmmlearn_16a74c4f137e46f1abdf66fbc7fef149/.eggs/pybind11-2.10.4-py3.10.egg/pybind11/include/pybind11/gil.h:155:5: note: 'gil_scoped_release' has been explicitly marked deleted here
                gil_scoped_release(const gil_scoped_release &) = delete;
                ^
            src/_hmmc.cpp:188:8: error: call to deleted constructor of 'pybind11::gil_scoped_release'
              auto nogil = py::gil_scoped_release{};
                   ^       ~~~~~~~~~~~~~~~~~~~~~~~~
            /private/tmp/pip-install-2fetvyz5/hmmlearn_16a74c4f137e46f1abdf66fbc7fef149/.eggs/pybind11-2.10.4-py3.10.egg/pybind11/include/pybind11/gil.h:155:5: note: 'gil_scoped_release' has been explicitly marked deleted here
                gil_scoped_release(const gil_scoped_release &) = delete;
                ^
            src/_hmmc.cpp:222:8: error: call to deleted constructor of 'pybind11::gil_scoped_release'
              auto nogil = py::gil_scoped_release{};
                   ^       ~~~~~~~~~~~~~~~~~~~~~~~~
            /private/tmp/pip-install-2fetvyz5/hmmlearn_16a74c4f137e46f1abdf66fbc7fef149/.eggs/pybind11-2.10.4-py3.10.egg/pybind11/include/pybind11/gil.h:155:5: note: 'gil_scoped_release' has been explicitly marked deleted here
                gil_scoped_release(const gil_scoped_release &) = delete;
                ^
            src/_hmmc.cpp:258:8: error: call to deleted constructor of 'pybind11::gil_scoped_release'
              auto nogil = py::gil_scoped_release{};
                   ^       ~~~~~~~~~~~~~~~~~~~~~~~~
            /private/tmp/pip-install-2fetvyz5/hmmlearn_16a74c4f137e46f1abdf66fbc7fef149/.eggs/pybind11-2.10.4-py3.10.egg/pybind11/include/pybind11/gil.h:155:5: note: 'gil_scoped_release' has been explicitly marked deleted here
                gil_scoped_release(const gil_scoped_release &) = delete;
                ^
            src/_hmmc.cpp:289:47: warning: braces around scalar initializer [-Wbraced-scalar-init]
              auto state_sequence_ = py::array_t<ssize_t>{{ns}};
                                                          ^~~~
            src/_hmmc.cpp:293:8: error: call to deleted constructor of 'pybind11::gil_scoped_release'
              auto nogil = py::gil_scoped_release{};
                   ^       ~~~~~~~~~~~~~~~~~~~~~~~~
            /private/tmp/pip-install-2fetvyz5/hmmlearn_16a74c4f137e46f1abdf66fbc7fef149/.eggs/pybind11-2.10.4-py3.10.egg/pybind11/include/pybind11/gil.h:155:5: note: 'gil_scoped_release' has been explicitly marked deleted here
                gil_scoped_release(const gil_scoped_release &) = delete;
                ^
            3 warnings and 7 errors generated.
            error: command '/usr/bin/clang' failed with exit code 1
            [end of output]
      
        note: This error originates from a subprocess, and is likely not a problem with pip.
        ERROR: Failed building wheel for hmmlearn
        Running setup.py clean for hmmlearn
      Failed to build hmmlearn
      Installing collected packages: cykhash, wheel, threadpoolctl, setuptools, pip, numpy, joblib, Cython, scipy, scikit-learn, hmmlearn
        Running setup.py install for hmmlearn: started
        Running setup.py install for hmmlearn: finished with status 'error'
        error: subprocess-exited-with-error
      
        × Running setup.py install for hmmlearn did not run successfully.
        │ exit code: 1
        ╰─> [91 lines of output]
            /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.11.3/MACSr/1.7.0/env_macs/lib/python3.10/site-packages/setuptools/config/setupcfg.py:516: SetuptoolsDeprecationWarning: The license_file parameter is deprecated, use license_files instead.
              warnings.warn(msg, warning_class)
            /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.11.3/MACSr/1.7.0/env_macs/lib/python3.10/site-packages/setuptools/__init__.py:85: _DeprecatedInstaller: setuptools.installer and fetch_build_eggs are deprecated. Requirements should be satisfied by a PEP 517 installer. If you are using pip, you can try `pip install --use-pep517`.
              dist.fetch_build_eggs(dist.setup_requires)
            /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.11.3/MACSr/1.7.0/env_macs/lib/python3.10/site-packages/setuptools/config/setupcfg.py:516: SetuptoolsDeprecationWarning: The license_file parameter is deprecated, use license_files instead.
              warnings.warn(msg, warning_class)
            running install
            /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.11.3/MACSr/1.7.0/env_macs/lib/python3.10/site-packages/setuptools/command/install.py:34: SetuptoolsDeprecationWarning: setup.py install is deprecated. Use build and pip and other standards-based tools.
              warnings.warn(
            running build
            running build_py
            creating build
            creating build/lib.macosx-10.9-x86_64-cpython-310
            creating build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn
            copying lib/hmmlearn/__init__.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn
            copying lib/hmmlearn/_utils.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn
            copying lib/hmmlearn/_version.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn
            copying lib/hmmlearn/base.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn
            copying lib/hmmlearn/hmm.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn
            copying lib/hmmlearn/stats.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn
            copying lib/hmmlearn/utils.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn
            creating build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/__init__.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/conftest.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_base.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_categorical_hmm.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_gaussian_hmm.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_gmm_hmm.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_gmm_hmm_multisequence.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_gmm_hmm_new.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_multinomial_hmm.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_poisson_hmm.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            copying lib/hmmlearn/tests/test_utils.py -> build/lib.macosx-10.9-x86_64-cpython-310/hmmlearn/tests
            running build_ext
            building 'hmmlearn._hmmc' extension
            creating build/temp.macosx-10.9-x86_64-cpython-310
            creating build/temp.macosx-10.9-x86_64-cpython-310/src
            clang -Wno-unused-result -Wsign-compare -Wunreachable-code -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.11.3/MACSr/1.7.0/env_macs/include -fPIC -O2 -isystem /Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.11.3/MACSr/1.7.0/env_macs/include -I/private/tmp/pip-install-2fetvyz5/hmmlearn_16a74c4f137e46f1abdf66fbc7fef149/.eggs/pybind11-2.10.4-py3.10.egg/pybind11/include -I/Users/biocbuild/Library/Caches/org.R-project.R/R/basilisk/1.11.3/MACSr/1.7.0/env_macs/include/python3.10 -c src/_hmmc.cpp -o build/temp.macosx-10.9-x86_64-cpython-310/src/_hmmc.o -fvisibility=hidden -g0 -stdlib=libc++ -std=c++11 -mmacosx-version-min=10.9
            src/_hmmc.cpp:35:34: warning: braces around scalar initializer [-Wbraced-scalar-init]
              auto log = py::array_t<double>{{n}};
                                             ^~~
            src/_hmmc.cpp:63:39: warning: braces around scalar initializer [-Wbraced-scalar-init]
              auto scaling_ = py::array_t<double>{{ns}};
                                                  ^~~~
            src/_hmmc.cpp:66:8: error: call to deleted constructor of 'pybind11::gil_scoped_release'
              auto nogil = py::gil_scoped_release{};
                   ^       ~~~~~~~~~~~~~~~~~~~~~~~~
            /private/tmp/pip-install-2fetvyz5/hmmlearn_16a74c4f137e46f1abdf66fbc7fef149/.eggs/pybind11-2.10.4-py3.10.egg/pybind11/include/pybind11/gil.h:155:5: note: 'gil_scoped_release' has been explicitly marked deleted here
                gil_scoped_release(const gil_scoped_release &) = delete;
                ^
            src/_hmmc.cpp:120:8: error: call to deleted constructor of 'pybind11::gil_scoped_release'
              auto nogil = py::gil_scoped_release{};
                   ^       ~~~~~~~~~~~~~~~~~~~~~~~~
            /private/tmp/pip-install-2fetvyz5/hmmlearn_16a74c4f137e46f1abdf66fbc7fef149/.eggs/pybind11-2.10.4-py3.10.egg/pybind11/include/pybind11/gil.h:155:5: note: 'gil_scoped_release' has been explicitly marked deleted here
                gil_scoped_release(const gil_scoped_release &) = delete;
                ^
            src/_hmmc.cpp:154:8: error: call to deleted constructor of 'pybind11::gil_scoped_release'
              auto nogil = py::gil_scoped_release{};
                   ^       ~~~~~~~~~~~~~~~~~~~~~~~~
            /private/tmp/pip-install-2fetvyz5/hmmlearn_16a74c4f137e46f1abdf66fbc7fef149/.eggs/pybind11-2.10.4-py3.10.egg/pybind11/include/pybind11/gil.h:155:5: note: 'gil_scoped_release' has been explicitly marked deleted here
                gil_scoped_release(const gil_scoped_release &) = delete;
                ^
            src/_hmmc.cpp:188:8: error: call to deleted constructor of 'pybind11::gil_scoped_release'
              auto nogil = py::gil_scoped_release{};
                   ^       ~~~~~~~~~~~~~~~~~~~~~~~~
            /private/tmp/pip-install-2fetvyz5/hmmlearn_16a74c4f137e46f1abdf66fbc7fef149/.eggs/pybind11-2.10.4-py3.10.egg/pybind11/include/pybind11/gil.h:155:5: note: 'gil_scoped_release' has been explicitly marked deleted here
                gil_scoped_release(const gil_scoped_release &) = delete;
                ^
            src/_hmmc.cpp:222:8: error: call to deleted constructor of 'pybind11::gil_scoped_release'
              auto nogil = py::gil_scoped_release{};
                   ^       ~~~~~~~~~~~~~~~~~~~~~~~~
            /private/tmp/pip-install-2fetvyz5/hmmlearn_16a74c4f137e46f1abdf66fbc7fef149/.eggs/pybind11-2.10.4-py3.10.egg/pybind11/include/pybind11/gil.h:155:5: note: 'gil_scoped_release' has been explicitly marked deleted here
                gil_scoped_release(const gil_scoped_release &) = delete;
                ^
            src/_hmmc.cpp:258:8: error: call to deleted constructor of 'pybind11::gil_scoped_release'
              auto nogil = py::gil_scoped_release{};
                   ^       ~~~~~~~~~~~~~~~~~~~~~~~~
            /private/tmp/pip-install-2fetvyz5/hmmlearn_16a74c4f137e46f1abdf66fbc7fef149/.eggs/pybind11-2.10.4-py3.10.egg/pybind11/include/pybind11/gil.h:155:5: note: 'gil_scoped_release' has been explicitly marked deleted here
                gil_scoped_release(const gil_scoped_release &) = delete;
                ^
            src/_hmmc.cpp:289:47: warning: braces around scalar initializer [-Wbraced-scalar-init]
              auto state_sequence_ = py::array_t<ssize_t>{{ns}};
                                                          ^~~~
            src/_hmmc.cpp:293:8: error: call to deleted constructor of 'pybind11::gil_scoped_release'
              auto nogil = py::gil_scoped_release{};
                   ^       ~~~~~~~~~~~~~~~~~~~~~~~~
            /private/tmp/pip-install-2fetvyz5/hmmlearn_16a74c4f137e46f1abdf66fbc7fef149/.eggs/pybind11-2.10.4-py3.10.egg/pybind11/include/pybind11/gil.h:155:5: note: 'gil_scoped_release' has been explicitly marked deleted here
                gil_scoped_release(const gil_scoped_release &) = delete;
                ^
            3 warnings and 7 errors generated.
            error: command '/usr/bin/clang' failed with exit code 1
            [end of output]
      
        note: This error originates from a subprocess, and is likely not a problem with pip.
      error: legacy-install-failure
      
      × Encountered error while trying to install package.
      ╰─> hmmlearn
      
      note: This is an issue with the package mentioned above, not pip.
      hint: See above for output from the failure.
      [end of output]
  
  note: This error originates from a subprocess, and is likely not a problem with pip.
error: subprocess-exited-with-error

× pip subprocess to install build dependencies did not run successfully.
│ exit code: 1
╰─> See above for output.

note: This error originates from a subprocess, and is likely not a problem with pip.
Quitting from lines 86-92 (MACSr.Rmd) 
Error: processing vignette 'MACSr.Rmd' failed with diagnostics:
failed to install additional packages via pip
--- failed re-building ‘MACSr.Rmd’

SUMMARY: processing the following file failed:
  ‘MACSr.Rmd’

Error: Vignette re-building failed.
Execution halted