R/basilisk.R
In csoneson/sketchR: An R interface for python subsampling/sketching algorithms
#' @importFrom basilisk BasiliskEnvironment
## List of packages exported from working environment
## - pinned versions were obtained from
## https://github.com/csoneson/sketchR_package_list
if (basilisk.utils::isLinuxAarch64()) {
.sketchR_dependencies <- c(
"_openmp_mutex==4.5",
"anndata==0.10.9",
"array-api-compat==1.9",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"c-ares==1.33.1",
"ca-certificates==2024.8.30",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.8.30",
"colorama==0.4.6",
"contourpy==1.3.0",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.54.1",
"freetype==2.12.1",
"get-annotations==0.1.2",
"h5py==3.11.0",
"hdf5==1.14.3",
"icu==75.1",
"joblib==1.4.2",
"keyutils==1.6.1",
"kiwisolver==1.4.7",
"krb5==1.21.3",
"lcms2==2.15",
"ld_impl_linux-64==2.43",
"legacy-api-wrap==1.4",
"lerc==4.0.0",
"libaec==1.1.3",
"libblas==3.9.0",
"libbrotlicommon==1.1.0",
"libbrotlidec==1.1.0",
"libbrotlienc==1.1.0",
"libcblas==3.9.0",
"libcurl==8.10.1",
"libdeflate==1.18",
"libedit==3.1.20191231",
"libev==4.33",
"libexpat==2.6.3",
"libffi==3.4.2",
"libgcc==14.1.0",
"libgcc-ng==14.1.0",
"libgfortran==14.1.0",
"libgfortran-ng==14.1.0",
"libgfortran5==14.1.0",
"libgomp==14.1.0",
"libhwloc==2.11.1",
"libiconv==1.17",
"libjpeg-turbo==2.1.5.1",
"liblapack==3.9.0",
"libllvm14==14.0.6",
"libnghttp2==1.58.0",
"libnsl==2.0.1",
"libopenblas==0.3.27",
"libpng==1.6.44",
"libsqlite==3.46.1",
"libssh2==1.11.0",
"libstdcxx==14.1.0",
"libstdcxx-ng==14.1.0",
"libtiff==4.5.1",
"libuuid==2.38.1",
"libwebp-base==1.4.0",
"libxcb==1.15",
"libxcrypt==4.4.36",
"libxml2==2.12.7",
"libzlib==1.3.1",
"llvmlite==0.43.0",
"matplotlib-base==3.9.2",
"munkres==1.1.4",
"natsort==8.4.0",
"ncurses==6.5",
"networkx==3.3",
"numba==0.60.0",
"numpy==1.26.4",
"openjpeg==2.5.0",
"openssl==3.3.2",
"packaging==24.1",
"pandas==2.2.3",
"patsy==0.5.6",
"pillow==10.0.0",
"pip==24.2",
"pthread-stubs==0.4",
"pynndescent==0.5.13",
"pyparsing==3.1.4",
"python==3.11.10",
"python-dateutil==2.9.0",
"python-tzdata==2024.2",
"python_abi==3.11",
"pytz==2024.1",
"qhull==2020.2",
"readline==8.2",
"scanpy==1.10.3",
"scikit-learn==1.5.2",
"scipy==1.13.1",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"session-info==1.0.0",
"setuptools==75.1.0",
"six==1.16.0",
"statsmodels==0.14.4",
"stdlib-list==0.10.0",
"tbb==2021.13.0",
"threadpoolctl==3.5.0",
"tk==8.6.13",
"tqdm==4.66.5",
"tzdata==2024b",
"umap-learn==0.5.6",
"wheel==0.44.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.5",
"xz==5.2.6",
"zstd==1.5.6")
} else if (basilisk.utils::isLinux()) {
.sketchR_dependencies <- c(
"_libgcc_mutex==0.1",
"_openmp_mutex==4.5",
"anndata==0.10.9",
"array-api-compat==1.9",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"c-ares==1.33.1",
"ca-certificates==2024.8.30",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.8.30",
"colorama==0.4.6",
"contourpy==1.3.0",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.54.1",
"freetype==2.12.1",
"get-annotations==0.1.2",
"h5py==3.11.0",
"hdf5==1.14.3",
"icu==75.1",
"joblib==1.4.2",
"keyutils==1.6.1",
"kiwisolver==1.4.7",
"krb5==1.21.3",
"lcms2==2.15",
"ld_impl_linux-64==2.43",
"legacy-api-wrap==1.4",
"lerc==4.0.0",
"libaec==1.1.3",
"libblas==3.9.0",
"libbrotlicommon==1.1.0",
"libbrotlidec==1.1.0",
"libbrotlienc==1.1.0",
"libcblas==3.9.0",
"libcurl==8.10.1",
"libdeflate==1.18",
"libedit==3.1.20191231",
"libev==4.33",
"libexpat==2.6.3",
"libffi==3.4.2",
"libgcc==14.1.0",
"libgcc-ng==14.1.0",
"libgfortran==14.1.0",
"libgfortran-ng==14.1.0",
"libgfortran5==14.1.0",
"libgomp==14.1.0",
"libhwloc==2.11.1",
"libiconv==1.17",
"libjpeg-turbo==2.1.5.1",
"liblapack==3.9.0",
"libllvm14==14.0.6",
"libnghttp2==1.58.0",
"libnsl==2.0.1",
"libopenblas==0.3.27",
"libpng==1.6.44",
"libsqlite==3.46.1",
"libssh2==1.11.0",
"libstdcxx==14.1.0",
"libstdcxx-ng==14.1.0",
"libtiff==4.5.1",
"libuuid==2.38.1",
"libwebp-base==1.4.0",
"libxcb==1.15",
"libxcrypt==4.4.36",
"libxml2==2.12.7",
"libzlib==1.3.1",
"llvmlite==0.43.0",
"matplotlib-base==3.9.2",
"munkres==1.1.4",
"natsort==8.4.0",
"ncurses==6.5",
"networkx==3.3",
"numba==0.60.0",
"numpy==1.26.4",
"openjpeg==2.5.0",
"openssl==3.3.2",
"packaging==24.1",
"pandas==2.2.3",
"patsy==0.5.6",
"pillow==10.0.0",
"pip==24.2",
"pthread-stubs==0.4",
"pynndescent==0.5.13",
"pyparsing==3.1.4",
"python==3.11.10",
"python-dateutil==2.9.0",
"python-tzdata==2024.2",
"python_abi==3.11",
"pytz==2024.1",
"qhull==2020.2",
"readline==8.2",
"scanpy==1.10.3",
"scikit-learn==1.5.2",
"scipy==1.13.1",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"session-info==1.0.0",
"setuptools==75.1.0",
"six==1.16.0",
"statsmodels==0.14.4",
"stdlib-list==0.10.0",
"tbb==2021.13.0",
"threadpoolctl==3.5.0",
"tk==8.6.13",
"tqdm==4.66.5",
"tzdata==2024b",
"umap-learn==0.5.6",
"wheel==0.44.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.5",
"xz==5.2.6",
"zstd==1.5.6")
} else if (basilisk.utils::isMacOSXArm()) {
.sketchR_dependencies <- c(
"anndata==0.10.9",
"array-api-compat==1.9",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"c-ares==1.33.1",
"ca-certificates==2024.8.30",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.8.30",
"colorama==0.4.6",
"contourpy==1.3.0",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.54.1",
"freetype==2.12.1",
"get-annotations==0.1.2",
"h5py==3.11.0",
"hdf5==1.14.3",
"icu==75.1",
"joblib==1.4.2",
"kiwisolver==1.4.7",
"krb5==1.21.3",
"lcms2==2.15",
"legacy-api-wrap==1.4",
"lerc==4.0.0",
"libaec==1.1.3",
"libblas==3.9.0",
"libbrotlicommon==1.1.0",
"libbrotlidec==1.1.0",
"libbrotlienc==1.1.0",
"libcblas==3.9.0",
"libcurl==8.10.1",
"libcxx==19.1.1",
"libdeflate==1.18",
"libedit==3.1.20191231",
"libev==4.33",
"libexpat==2.6.3",
"libffi==3.4.2",
"libgfortran==5.0.0",
"libgfortran5==13.2.0",
"libhwloc==2.11.1",
"libiconv==1.17",
"libjpeg-turbo==2.1.5.1",
"liblapack==3.9.0",
"libllvm14==14.0.6",
"libnghttp2==1.58.0",
"libopenblas==0.3.27",
"libpng==1.6.44",
"libsqlite==3.46.1",
"libssh2==1.11.0",
"libtiff==4.5.1",
"libwebp-base==1.4.0",
"libxcb==1.15",
"libxml2==2.12.7",
"libzlib==1.3.1",
"llvm-openmp==19.1.0",
"llvmlite==0.43.0",
"matplotlib-base==3.9.2",
"munkres==1.1.4",
"natsort==8.4.0",
"ncurses==6.5",
"networkx==3.3",
"numba==0.60.0",
"numpy==1.26.4",
"openjpeg==2.5.0",
"openssl==3.3.2",
"packaging==24.1",
"pandas==2.2.3",
"patsy==0.5.6",
"pillow==10.0.0",
"pip==24.2",
"pthread-stubs==0.4",
"pynndescent==0.5.13",
"pyparsing==3.1.4",
"python==3.11.10",
"python-dateutil==2.9.0",
"python-tzdata==2024.2",
"python_abi==3.11",
"pytz==2024.1",
"qhull==2020.2",
"readline==8.2",
"scanpy==1.10.3",
"scikit-learn==1.5.2",
"scipy==1.13.1",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"session-info==1.0.0",
"setuptools==75.1.0",
"six==1.16.0",
"statsmodels==0.14.4",
"stdlib-list==0.10.0",
"tbb==2021.13.0",
"threadpoolctl==3.5.0",
"tk==8.6.13",
"tqdm==4.66.5",
"tzdata==2024b",
"umap-learn==0.5.6",
"wheel==0.44.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.5",
"xz==5.2.6",
"zstd==1.5.6")
} else if (basilisk.utils::isMacOSX()) {
.sketchR_dependencies <- c(
"anndata==0.10.9",
"array-api-compat==1.9",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"c-ares==1.33.1",
"ca-certificates==2024.8.30",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.8.30",
"colorama==0.4.6",
"contourpy==1.3.0",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.54.1",
"freetype==2.12.1",
"get-annotations==0.1.2",
"h5py==3.11.0",
"hdf5==1.14.3",
"icu==75.1",
"joblib==1.4.2",
"kiwisolver==1.4.7",
"krb5==1.21.3",
"lcms2==2.15",
"legacy-api-wrap==1.4",
"lerc==4.0.0",
"libaec==1.1.3",
"libblas==3.9.0",
"libbrotlicommon==1.1.0",
"libbrotlidec==1.1.0",
"libbrotlienc==1.1.0",
"libcblas==3.9.0",
"libcurl==8.10.1",
"libcxx==19.1.1",
"libdeflate==1.18",
"libedit==3.1.20191231",
"libev==4.33",
"libexpat==2.6.3",
"libffi==3.4.2",
"libgfortran==5.0.0",
"libgfortran5==13.2.0",
"libhwloc==2.11.1",
"libiconv==1.17",
"libjpeg-turbo==2.1.5.1",
"liblapack==3.9.0",
"libllvm14==14.0.6",
"libnghttp2==1.58.0",
"libopenblas==0.3.27",
"libpng==1.6.44",
"libsqlite==3.46.1",
"libssh2==1.11.0",
"libtiff==4.5.1",
"libwebp-base==1.4.0",
"libxcb==1.15",
"libxml2==2.12.7",
"libzlib==1.3.1",
"llvm-openmp==19.1.0",
"llvmlite==0.43.0",
"matplotlib-base==3.9.2",
"munkres==1.1.4",
"natsort==8.4.0",
"ncurses==6.5",
"networkx==3.3",
"numba==0.60.0",
"numpy==1.26.4",
"openjpeg==2.5.0",
"openssl==3.3.2",
"packaging==24.1",
"pandas==2.2.3",
"patsy==0.5.6",
"pillow==10.0.0",
"pip==24.2",
"pthread-stubs==0.4",
"pynndescent==0.5.13",
"pyparsing==3.1.4",
"python==3.11.10",
"python-dateutil==2.9.0",
"python-tzdata==2024.2",
"python_abi==3.11",
"pytz==2024.1",
"qhull==2020.2",
"readline==8.2",
"scanpy==1.10.3",
"scikit-learn==1.5.2",
"scipy==1.13.1",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"session-info==1.0.0",
"setuptools==75.1.0",
"six==1.16.0",
"statsmodels==0.14.4",
"stdlib-list==0.10.0",
"tbb==2021.13.0",
"threadpoolctl==3.5.0",
"tk==8.6.13",
"tqdm==4.66.5",
"tzdata==2024b",
"umap-learn==0.5.6",
"wheel==0.44.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.5",
"xz==5.2.6",
"zstd==1.5.6")
} else if (basilisk.utils::isWindows()) {
.sketchR_dependencies <- c(
"anndata==0.10.9",
"array-api-compat==1.9",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"ca-certificates==2024.8.30",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.8.30",
"colorama==0.4.6",
"contourpy==1.3.0",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.54.1",
"freetype==2.12.1",
"get-annotations==0.1.2",
"h5py==3.11.0",
"hdf5==1.14.3",
"intel-openmp==2024.2.1",
"joblib==1.4.2",
"kiwisolver==1.4.7",
"krb5==1.21.3",
"lcms2==2.15",
"legacy-api-wrap==1.4",
"lerc==4.0.0",
"libaec==1.1.3",
"libblas==3.9.0",
"libbrotlicommon==1.1.0",
"libbrotlidec==1.1.0",
"libbrotlienc==1.1.0",
"libcblas==3.9.0",
"libcurl==8.10.1",
"libdeflate==1.18",
"libexpat==2.6.3",
"libffi==3.4.2",
"libhwloc==2.11.1",
"libiconv==1.17",
"libjpeg-turbo==2.1.5.1",
"liblapack==3.9.0",
"libpng==1.6.44",
"libsqlite==3.46.1",
"libssh2==1.11.0",
"libtiff==4.5.1",
"libwebp-base==1.4.0",
"libxcb==1.15",
"libxml2==2.12.7",
"libzlib==1.3.1",
"llvmlite==0.43.0",
"m2w64-gcc-libgfortran==5.3.0",
"m2w64-gcc-libs==5.3.0",
"m2w64-gcc-libs-core==5.3.0",
"m2w64-gmp==6.1.0",
"m2w64-libwinpthread-git==5.0.0.4634.697f757",
"matplotlib-base==3.9.2",
"mkl==2024.1.0",
"msys2-conda-epoch==20160418",
"munkres==1.1.4",
"natsort==8.4.0",
"networkx==3.3",
"numba==0.60.0",
"numpy==1.26.4",
"openjpeg==2.5.0",
"openssl==3.3.2",
"packaging==24.1",
"pandas==2.2.3",
"patsy==0.5.6",
"pillow==10.0.0",
"pip==24.2",
"pthread-stubs==0.4",
"pthreads-win32==2.9.1",
"pynndescent==0.5.13",
"pyparsing==3.1.4",
"python==3.11.10",
"python-dateutil==2.9.0",
"python-tzdata==2024.2",
"python_abi==3.11",
"pytz==2024.1",
"qhull==2020.2",
"scanpy==1.10.3",
"scikit-learn==1.5.2",
"scipy==1.13.1",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"session-info==1.0.0",
"setuptools==75.1.0",
"six==1.16.0",
"statsmodels==0.14.4",
"stdlib-list==0.10.0",
"tbb==2021.13.0",
"threadpoolctl==3.5.0",
"tk==8.6.13",
"tqdm==4.66.5",
"tzdata==2024b",
"ucrt==10.0.22621.0",
"umap-learn==0.5.6",
"vc==14.3",
"vc14_runtime==14.40.33810",
"vs2015_runtime==14.40.33810",
"wheel==0.44.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.3",
"xz==5.2.6",
"zstd==1.5.6")
}
universalenv <- BasiliskEnvironment(
envname = "universal", pkgname = "sketchR",
packages = .sketchR_dependencies,
channels = c("bioconda", "conda-forge"),
pip = c("fbpca==1.0", "geosketch==1.2", "scsampler==1.0.2")
)
csoneson/sketchR documentation built on Dec. 24, 2024, 2:05 p.m.
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#' @importFrom basilisk BasiliskEnvironment
## List of packages exported from working environment
## - pinned versions were obtained from
## https://github.com/csoneson/sketchR_package_list
if (basilisk.utils::isLinuxAarch64()) {
.sketchR_dependencies <- c(
"_openmp_mutex==4.5",
"anndata==0.10.9",
"array-api-compat==1.9",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"c-ares==1.33.1",
"ca-certificates==2024.8.30",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.8.30",
"colorama==0.4.6",
"contourpy==1.3.0",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.54.1",
"freetype==2.12.1",
"get-annotations==0.1.2",
"h5py==3.11.0",
"hdf5==1.14.3",
"icu==75.1",
"joblib==1.4.2",
"keyutils==1.6.1",
"kiwisolver==1.4.7",
"krb5==1.21.3",
"lcms2==2.15",
"ld_impl_linux-64==2.43",
"legacy-api-wrap==1.4",
"lerc==4.0.0",
"libaec==1.1.3",
"libblas==3.9.0",
"libbrotlicommon==1.1.0",
"libbrotlidec==1.1.0",
"libbrotlienc==1.1.0",
"libcblas==3.9.0",
"libcurl==8.10.1",
"libdeflate==1.18",
"libedit==3.1.20191231",
"libev==4.33",
"libexpat==2.6.3",
"libffi==3.4.2",
"libgcc==14.1.0",
"libgcc-ng==14.1.0",
"libgfortran==14.1.0",
"libgfortran-ng==14.1.0",
"libgfortran5==14.1.0",
"libgomp==14.1.0",
"libhwloc==2.11.1",
"libiconv==1.17",
"libjpeg-turbo==2.1.5.1",
"liblapack==3.9.0",
"libllvm14==14.0.6",
"libnghttp2==1.58.0",
"libnsl==2.0.1",
"libopenblas==0.3.27",
"libpng==1.6.44",
"libsqlite==3.46.1",
"libssh2==1.11.0",
"libstdcxx==14.1.0",
"libstdcxx-ng==14.1.0",
"libtiff==4.5.1",
"libuuid==2.38.1",
"libwebp-base==1.4.0",
"libxcb==1.15",
"libxcrypt==4.4.36",
"libxml2==2.12.7",
"libzlib==1.3.1",
"llvmlite==0.43.0",
"matplotlib-base==3.9.2",
"munkres==1.1.4",
"natsort==8.4.0",
"ncurses==6.5",
"networkx==3.3",
"numba==0.60.0",
"numpy==1.26.4",
"openjpeg==2.5.0",
"openssl==3.3.2",
"packaging==24.1",
"pandas==2.2.3",
"patsy==0.5.6",
"pillow==10.0.0",
"pip==24.2",
"pthread-stubs==0.4",
"pynndescent==0.5.13",
"pyparsing==3.1.4",
"python==3.11.10",
"python-dateutil==2.9.0",
"python-tzdata==2024.2",
"python_abi==3.11",
"pytz==2024.1",
"qhull==2020.2",
"readline==8.2",
"scanpy==1.10.3",
"scikit-learn==1.5.2",
"scipy==1.13.1",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"session-info==1.0.0",
"setuptools==75.1.0",
"six==1.16.0",
"statsmodels==0.14.4",
"stdlib-list==0.10.0",
"tbb==2021.13.0",
"threadpoolctl==3.5.0",
"tk==8.6.13",
"tqdm==4.66.5",
"tzdata==2024b",
"umap-learn==0.5.6",
"wheel==0.44.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.5",
"xz==5.2.6",
"zstd==1.5.6")
} else if (basilisk.utils::isLinux()) {
.sketchR_dependencies <- c(
"_libgcc_mutex==0.1",
"_openmp_mutex==4.5",
"anndata==0.10.9",
"array-api-compat==1.9",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"c-ares==1.33.1",
"ca-certificates==2024.8.30",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.8.30",
"colorama==0.4.6",
"contourpy==1.3.0",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.54.1",
"freetype==2.12.1",
"get-annotations==0.1.2",
"h5py==3.11.0",
"hdf5==1.14.3",
"icu==75.1",
"joblib==1.4.2",
"keyutils==1.6.1",
"kiwisolver==1.4.7",
"krb5==1.21.3",
"lcms2==2.15",
"ld_impl_linux-64==2.43",
"legacy-api-wrap==1.4",
"lerc==4.0.0",
"libaec==1.1.3",
"libblas==3.9.0",
"libbrotlicommon==1.1.0",
"libbrotlidec==1.1.0",
"libbrotlienc==1.1.0",
"libcblas==3.9.0",
"libcurl==8.10.1",
"libdeflate==1.18",
"libedit==3.1.20191231",
"libev==4.33",
"libexpat==2.6.3",
"libffi==3.4.2",
"libgcc==14.1.0",
"libgcc-ng==14.1.0",
"libgfortran==14.1.0",
"libgfortran-ng==14.1.0",
"libgfortran5==14.1.0",
"libgomp==14.1.0",
"libhwloc==2.11.1",
"libiconv==1.17",
"libjpeg-turbo==2.1.5.1",
"liblapack==3.9.0",
"libllvm14==14.0.6",
"libnghttp2==1.58.0",
"libnsl==2.0.1",
"libopenblas==0.3.27",
"libpng==1.6.44",
"libsqlite==3.46.1",
"libssh2==1.11.0",
"libstdcxx==14.1.0",
"libstdcxx-ng==14.1.0",
"libtiff==4.5.1",
"libuuid==2.38.1",
"libwebp-base==1.4.0",
"libxcb==1.15",
"libxcrypt==4.4.36",
"libxml2==2.12.7",
"libzlib==1.3.1",
"llvmlite==0.43.0",
"matplotlib-base==3.9.2",
"munkres==1.1.4",
"natsort==8.4.0",
"ncurses==6.5",
"networkx==3.3",
"numba==0.60.0",
"numpy==1.26.4",
"openjpeg==2.5.0",
"openssl==3.3.2",
"packaging==24.1",
"pandas==2.2.3",
"patsy==0.5.6",
"pillow==10.0.0",
"pip==24.2",
"pthread-stubs==0.4",
"pynndescent==0.5.13",
"pyparsing==3.1.4",
"python==3.11.10",
"python-dateutil==2.9.0",
"python-tzdata==2024.2",
"python_abi==3.11",
"pytz==2024.1",
"qhull==2020.2",
"readline==8.2",
"scanpy==1.10.3",
"scikit-learn==1.5.2",
"scipy==1.13.1",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"session-info==1.0.0",
"setuptools==75.1.0",
"six==1.16.0",
"statsmodels==0.14.4",
"stdlib-list==0.10.0",
"tbb==2021.13.0",
"threadpoolctl==3.5.0",
"tk==8.6.13",
"tqdm==4.66.5",
"tzdata==2024b",
"umap-learn==0.5.6",
"wheel==0.44.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.5",
"xz==5.2.6",
"zstd==1.5.6")
} else if (basilisk.utils::isMacOSXArm()) {
.sketchR_dependencies <- c(
"anndata==0.10.9",
"array-api-compat==1.9",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"c-ares==1.33.1",
"ca-certificates==2024.8.30",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.8.30",
"colorama==0.4.6",
"contourpy==1.3.0",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.54.1",
"freetype==2.12.1",
"get-annotations==0.1.2",
"h5py==3.11.0",
"hdf5==1.14.3",
"icu==75.1",
"joblib==1.4.2",
"kiwisolver==1.4.7",
"krb5==1.21.3",
"lcms2==2.15",
"legacy-api-wrap==1.4",
"lerc==4.0.0",
"libaec==1.1.3",
"libblas==3.9.0",
"libbrotlicommon==1.1.0",
"libbrotlidec==1.1.0",
"libbrotlienc==1.1.0",
"libcblas==3.9.0",
"libcurl==8.10.1",
"libcxx==19.1.1",
"libdeflate==1.18",
"libedit==3.1.20191231",
"libev==4.33",
"libexpat==2.6.3",
"libffi==3.4.2",
"libgfortran==5.0.0",
"libgfortran5==13.2.0",
"libhwloc==2.11.1",
"libiconv==1.17",
"libjpeg-turbo==2.1.5.1",
"liblapack==3.9.0",
"libllvm14==14.0.6",
"libnghttp2==1.58.0",
"libopenblas==0.3.27",
"libpng==1.6.44",
"libsqlite==3.46.1",
"libssh2==1.11.0",
"libtiff==4.5.1",
"libwebp-base==1.4.0",
"libxcb==1.15",
"libxml2==2.12.7",
"libzlib==1.3.1",
"llvm-openmp==19.1.0",
"llvmlite==0.43.0",
"matplotlib-base==3.9.2",
"munkres==1.1.4",
"natsort==8.4.0",
"ncurses==6.5",
"networkx==3.3",
"numba==0.60.0",
"numpy==1.26.4",
"openjpeg==2.5.0",
"openssl==3.3.2",
"packaging==24.1",
"pandas==2.2.3",
"patsy==0.5.6",
"pillow==10.0.0",
"pip==24.2",
"pthread-stubs==0.4",
"pynndescent==0.5.13",
"pyparsing==3.1.4",
"python==3.11.10",
"python-dateutil==2.9.0",
"python-tzdata==2024.2",
"python_abi==3.11",
"pytz==2024.1",
"qhull==2020.2",
"readline==8.2",
"scanpy==1.10.3",
"scikit-learn==1.5.2",
"scipy==1.13.1",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"session-info==1.0.0",
"setuptools==75.1.0",
"six==1.16.0",
"statsmodels==0.14.4",
"stdlib-list==0.10.0",
"tbb==2021.13.0",
"threadpoolctl==3.5.0",
"tk==8.6.13",
"tqdm==4.66.5",
"tzdata==2024b",
"umap-learn==0.5.6",
"wheel==0.44.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.5",
"xz==5.2.6",
"zstd==1.5.6")
} else if (basilisk.utils::isMacOSX()) {
.sketchR_dependencies <- c(
"anndata==0.10.9",
"array-api-compat==1.9",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"c-ares==1.33.1",
"ca-certificates==2024.8.30",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.8.30",
"colorama==0.4.6",
"contourpy==1.3.0",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.54.1",
"freetype==2.12.1",
"get-annotations==0.1.2",
"h5py==3.11.0",
"hdf5==1.14.3",
"icu==75.1",
"joblib==1.4.2",
"kiwisolver==1.4.7",
"krb5==1.21.3",
"lcms2==2.15",
"legacy-api-wrap==1.4",
"lerc==4.0.0",
"libaec==1.1.3",
"libblas==3.9.0",
"libbrotlicommon==1.1.0",
"libbrotlidec==1.1.0",
"libbrotlienc==1.1.0",
"libcblas==3.9.0",
"libcurl==8.10.1",
"libcxx==19.1.1",
"libdeflate==1.18",
"libedit==3.1.20191231",
"libev==4.33",
"libexpat==2.6.3",
"libffi==3.4.2",
"libgfortran==5.0.0",
"libgfortran5==13.2.0",
"libhwloc==2.11.1",
"libiconv==1.17",
"libjpeg-turbo==2.1.5.1",
"liblapack==3.9.0",
"libllvm14==14.0.6",
"libnghttp2==1.58.0",
"libopenblas==0.3.27",
"libpng==1.6.44",
"libsqlite==3.46.1",
"libssh2==1.11.0",
"libtiff==4.5.1",
"libwebp-base==1.4.0",
"libxcb==1.15",
"libxml2==2.12.7",
"libzlib==1.3.1",
"llvm-openmp==19.1.0",
"llvmlite==0.43.0",
"matplotlib-base==3.9.2",
"munkres==1.1.4",
"natsort==8.4.0",
"ncurses==6.5",
"networkx==3.3",
"numba==0.60.0",
"numpy==1.26.4",
"openjpeg==2.5.0",
"openssl==3.3.2",
"packaging==24.1",
"pandas==2.2.3",
"patsy==0.5.6",
"pillow==10.0.0",
"pip==24.2",
"pthread-stubs==0.4",
"pynndescent==0.5.13",
"pyparsing==3.1.4",
"python==3.11.10",
"python-dateutil==2.9.0",
"python-tzdata==2024.2",
"python_abi==3.11",
"pytz==2024.1",
"qhull==2020.2",
"readline==8.2",
"scanpy==1.10.3",
"scikit-learn==1.5.2",
"scipy==1.13.1",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"session-info==1.0.0",
"setuptools==75.1.0",
"six==1.16.0",
"statsmodels==0.14.4",
"stdlib-list==0.10.0",
"tbb==2021.13.0",
"threadpoolctl==3.5.0",
"tk==8.6.13",
"tqdm==4.66.5",
"tzdata==2024b",
"umap-learn==0.5.6",
"wheel==0.44.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.5",
"xz==5.2.6",
"zstd==1.5.6")
} else if (basilisk.utils::isWindows()) {
.sketchR_dependencies <- c(
"anndata==0.10.9",
"array-api-compat==1.9",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"ca-certificates==2024.8.30",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.8.30",
"colorama==0.4.6",
"contourpy==1.3.0",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.54.1",
"freetype==2.12.1",
"get-annotations==0.1.2",
"h5py==3.11.0",
"hdf5==1.14.3",
"intel-openmp==2024.2.1",
"joblib==1.4.2",
"kiwisolver==1.4.7",
"krb5==1.21.3",
"lcms2==2.15",
"legacy-api-wrap==1.4",
"lerc==4.0.0",
"libaec==1.1.3",
"libblas==3.9.0",
"libbrotlicommon==1.1.0",
"libbrotlidec==1.1.0",
"libbrotlienc==1.1.0",
"libcblas==3.9.0",
"libcurl==8.10.1",
"libdeflate==1.18",
"libexpat==2.6.3",
"libffi==3.4.2",
"libhwloc==2.11.1",
"libiconv==1.17",
"libjpeg-turbo==2.1.5.1",
"liblapack==3.9.0",
"libpng==1.6.44",
"libsqlite==3.46.1",
"libssh2==1.11.0",
"libtiff==4.5.1",
"libwebp-base==1.4.0",
"libxcb==1.15",
"libxml2==2.12.7",
"libzlib==1.3.1",
"llvmlite==0.43.0",
"m2w64-gcc-libgfortran==5.3.0",
"m2w64-gcc-libs==5.3.0",
"m2w64-gcc-libs-core==5.3.0",
"m2w64-gmp==6.1.0",
"m2w64-libwinpthread-git==5.0.0.4634.697f757",
"matplotlib-base==3.9.2",
"mkl==2024.1.0",
"msys2-conda-epoch==20160418",
"munkres==1.1.4",
"natsort==8.4.0",
"networkx==3.3",
"numba==0.60.0",
"numpy==1.26.4",
"openjpeg==2.5.0",
"openssl==3.3.2",
"packaging==24.1",
"pandas==2.2.3",
"patsy==0.5.6",
"pillow==10.0.0",
"pip==24.2",
"pthread-stubs==0.4",
"pthreads-win32==2.9.1",
"pynndescent==0.5.13",
"pyparsing==3.1.4",
"python==3.11.10",
"python-dateutil==2.9.0",
"python-tzdata==2024.2",
"python_abi==3.11",
"pytz==2024.1",
"qhull==2020.2",
"scanpy==1.10.3",
"scikit-learn==1.5.2",
"scipy==1.13.1",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"session-info==1.0.0",
"setuptools==75.1.0",
"six==1.16.0",
"statsmodels==0.14.4",
"stdlib-list==0.10.0",
"tbb==2021.13.0",
"threadpoolctl==3.5.0",
"tk==8.6.13",
"tqdm==4.66.5",
"tzdata==2024b",
"ucrt==10.0.22621.0",
"umap-learn==0.5.6",
"vc==14.3",
"vc14_runtime==14.40.33810",
"vs2015_runtime==14.40.33810",
"wheel==0.44.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.3",
"xz==5.2.6",
"zstd==1.5.6")
}
universalenv <- BasiliskEnvironment(
envname = "universal", pkgname = "sketchR",
packages = .sketchR_dependencies,
channels = c("bioconda", "conda-forge"),
pip = c("fbpca==1.0", "geosketch==1.2", "scsampler==1.0.2")
)
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