R/basilisk.R
In csoneson/geosketchR: 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==0.10.5.post1",
"array-api-compat==1.8",
"blosc==1.21.5",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"c-ares==1.32.3",
"ca-certificates==2024.7.4",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.7.4",
"colorama==0.4.6",
"contourpy==1.2.1",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.53.1",
"freetype==2.12.1",
"giflib==5.2.2",
"h5py==3.8.0",
"hdf5==1.14.0",
"icu==73.2",
"importlib-metadata==8.2.0",
"importlib_metadata==8.2.0",
"joblib==1.1.0",
"jpeg==9e",
"keyutils==1.6.1",
"kiwisolver==1.4.5",
"krb5==1.21.3",
"lcms2==2.12",
"ld_impl_linux-64==2.40",
"legacy-api-wrap==1.4",
"lerc==3.0",
"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==8.8.0",
"libdeflate==1.10",
"libedit==3.1.20191231",
"libev==4.33",
"libffi==3.4.2",
"libgcc-ng==14.1.0",
"libgfortran-ng==14.1.0",
"libgfortran5==14.1.0",
"libgomp==14.1.0",
"libhwloc==2.11.1",
"libiconv==1.17",
"liblapack==3.9.0",
"libllvm11==11.1.0",
"libnghttp2==1.58.0",
"libnsl==2.0.1",
"libopenblas==0.3.25",
"libpng==1.6.43",
"libsqlite==3.46.0",
"libssh2==1.11.0",
"libstdcxx-ng==14.1.0",
"libtiff==4.3.0",
"libuuid==2.38.1",
"libwebp==1.2.2",
"libwebp-base==1.2.2",
"libxcb==1.13",
"libxcrypt==4.4.36",
"libxml2==2.12.7",
"libzlib==1.2.13",
"llvmlite==0.39.1",
"lz4-c==1.9.4",
"lzo==2.10",
"matplotlib-base==3.6.3",
"munkres==1.0.7",
"natsort==8.4.0",
"ncurses==6.5",
"networkx==3.2",
"nomkl==1.0",
"numba==0.56.4",
"numexpr==2.10.0",
"numpy==1.21.5",
"openjpeg==2.5.0",
"openssl==3.3.1",
"packaging==24.1",
"pandas==1.3.5",
"patsy==0.5.6",
"pillow==9.1.1",
"pip==24.1.2",
"pthread-stubs==0.4",
"pynndescent==0.5.13",
"pyparsing==3.1.2",
"pytables==3.7.0",
"python==3.9.19",
"python-dateutil==2.9.0",
"python_abi==3.9",
"pytz==2024.1",
"readline==8.2",
"scanpy==1.7.2",
"scikit-learn==1.0.2",
"scipy==1.7.3",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"setuptools==59.8.0",
"setuptools-scm==8.1.0",
"setuptools_scm==8.1.0",
"sinfo==0.3.1",
"six==1.16.0",
"snappy==1.2.1",
"statsmodels==0.13.5",
"stdlib-list==0.10.0",
"tbb==2021.12.0",
"threadpoolctl==3.0.0",
"tk==8.6.13",
"tomli==2.0.1",
"tqdm==4.66.4",
"typing-extensions==4.12.2",
"typing_extensions==4.12.2",
"tzdata==2024a",
"umap-learn==0.5.6",
"unicodedata2==15.1.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.3",
"xz==5.2.6",
"zipp==3.19.2",
"zlib==1.2.13",
"zstd==1.5.6")
} else if (basilisk.utils::isLinux()) {
.sketchR_dependencies <- c(
"_libgcc_mutex==0.1",
"_openmp_mutex==4.5",
"anndata==0.10.5.post1",
"array-api-compat==1.8",
"blosc==1.21.5",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"c-ares==1.32.3",
"ca-certificates==2024.7.4",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.7.4",
"colorama==0.4.6",
"contourpy==1.2.1",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.53.1",
"freetype==2.12.1",
"giflib==5.2.2",
"h5py==3.8.0",
"hdf5==1.14.0",
"icu==73.2",
"importlib-metadata==8.2.0",
"importlib_metadata==8.2.0",
"joblib==1.1.0",
"jpeg==9e",
"keyutils==1.6.1",
"kiwisolver==1.4.5",
"krb5==1.21.3",
"lcms2==2.12",
"ld_impl_linux-64==2.40",
"legacy-api-wrap==1.4",
"lerc==3.0",
"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==8.8.0",
"libdeflate==1.10",
"libedit==3.1.20191231",
"libev==4.33",
"libffi==3.4.2",
"libgcc-ng==14.1.0",
"libgfortran-ng==14.1.0",
"libgfortran5==14.1.0",
"libgomp==14.1.0",
"libhwloc==2.11.1",
"libiconv==1.17",
"liblapack==3.9.0",
"libllvm11==11.1.0",
"libnghttp2==1.58.0",
"libnsl==2.0.1",
"libopenblas==0.3.25",
"libpng==1.6.43",
"libsqlite==3.46.0",
"libssh2==1.11.0",
"libstdcxx-ng==14.1.0",
"libtiff==4.3.0",
"libuuid==2.38.1",
"libwebp==1.2.2",
"libwebp-base==1.2.2",
"libxcb==1.13",
"libxcrypt==4.4.36",
"libxml2==2.12.7",
"libzlib==1.2.13",
"llvmlite==0.39.1",
"lz4-c==1.9.4",
"lzo==2.10",
"matplotlib-base==3.6.3",
"munkres==1.0.7",
"natsort==8.4.0",
"ncurses==6.5",
"networkx==3.2",
"nomkl==1.0",
"numba==0.56.4",
"numexpr==2.10.0",
"numpy==1.21.5",
"openjpeg==2.5.0",
"openssl==3.3.1",
"packaging==24.1",
"pandas==1.3.5",
"patsy==0.5.6",
"pillow==9.1.1",
"pip==24.1.2",
"pthread-stubs==0.4",
"pynndescent==0.5.13",
"pyparsing==3.1.2",
"pytables==3.7.0",
"python==3.9.19",
"python-dateutil==2.9.0",
"python_abi==3.9",
"pytz==2024.1",
"readline==8.2",
"scanpy==1.7.2",
"scikit-learn==1.0.2",
"scipy==1.7.3",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"setuptools==59.8.0",
"setuptools-scm==8.1.0",
"setuptools_scm==8.1.0",
"sinfo==0.3.1",
"six==1.16.0",
"snappy==1.2.1",
"statsmodels==0.13.5",
"stdlib-list==0.10.0",
"tbb==2021.12.0",
"threadpoolctl==3.0.0",
"tk==8.6.13",
"tomli==2.0.1",
"tqdm==4.66.4",
"typing-extensions==4.12.2",
"typing_extensions==4.12.2",
"tzdata==2024a",
"umap-learn==0.5.6",
"unicodedata2==15.1.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.3",
"xz==5.2.6",
"zipp==3.19.2",
"zlib==1.2.13",
"zstd==1.5.6")
} else if (basilisk.utils::isMacOSXArm()) {
.sketchR_dependencies <- c(
"anndata==0.10.5.post1",
"array-api-compat==1.8",
"blosc==1.21.5",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"c-ares==1.32.3",
"ca-certificates==2024.7.4",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.7.4",
"colorama==0.4.6",
"contourpy==1.2.1",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.53.1",
"freetype==2.12.1",
"giflib==5.2.2",
"h5py==3.8.0",
"hdf5==1.14.0",
"icu==73.2",
"importlib-metadata==8.2.0",
"importlib_metadata==8.2.0",
"joblib==1.1.0",
"jpeg==9e",
"kiwisolver==1.4.5",
"krb5==1.21.3",
"lcms2==2.12",
"legacy-api-wrap==1.4",
"lerc==3.0",
"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==8.8.0",
"libcxx==18.1.8",
"libdeflate==1.10",
"libedit==3.1.20191231",
"libev==4.33",
"libffi==3.4.2",
"libgfortran==5.0.0",
"libgfortran5==13.2.0",
"libhwloc==2.11.1",
"libiconv==1.17",
"liblapack==3.9.0",
"libllvm11==11.1.0",
"libnghttp2==1.58.0",
"libopenblas==0.3.25",
"libpng==1.6.43",
"libsqlite==3.46.0",
"libssh2==1.11.0",
"libtiff==4.3.0",
"libwebp==1.2.2",
"libwebp-base==1.2.2",
"libxcb==1.13",
"libxml2==2.12.7",
"libzlib==1.2.13",
"llvm-openmp==18.1.8",
"llvmlite==0.39.1",
"lz4-c==1.9.4",
"matplotlib-base==3.6.3",
"munkres==1.0.7",
"natsort==8.4.0",
"ncurses==6.5",
"networkx==3.2",
"numba==0.56.4",
"numexpr==2.10.0",
"numpy==1.21.5",
"openjpeg==2.5.0",
"openssl==3.3.1",
"packaging==24.1",
"pandas==1.3.5",
"patsy==0.5.6",
"pillow==9.1.1",
"pip==24.1.2",
"pthread-stubs==0.4",
"pynndescent==0.5.13",
"pyparsing==3.1.2",
"pytables==3.7.0",
"python==3.9.19",
"python-dateutil==2.9.0",
"python_abi==3.9",
"pytz==2024.1",
"readline==8.2",
"scanpy==1.7.2",
"scikit-learn==1.0.2",
"scipy==1.7.3",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"setuptools==59.8.0",
"setuptools-scm==8.1.0",
"setuptools_scm==8.1.0",
"sinfo==0.3.1",
"six==1.16.0",
"snappy==1.2.1",
"statsmodels==0.13.5",
"stdlib-list==0.10.0",
"tbb==2021.12.0",
"threadpoolctl==3.0.0",
"tk==8.6.13",
"tomli==2.0.1",
"tqdm==4.66.4",
"typing-extensions==4.12.2",
"typing_extensions==4.12.2",
"tzdata==2024a",
"umap-learn==0.5.5",
"unicodedata2==15.1.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.3",
"xz==5.2.6",
"zipp==3.19.2",
"zlib==1.2.13",
"zstd==1.5.6")
} else if (basilisk.utils::isMacOSX()) {
.sketchR_dependencies <- c(
"anndata==0.10.5.post1",
"array-api-compat==1.8",
"blosc==1.21.5",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"c-ares==1.32.3",
"ca-certificates==2024.7.4",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.7.4",
"colorama==0.4.6",
"contourpy==1.2.1",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.53.1",
"freetype==2.12.1",
"giflib==5.2.2",
"h5py==3.8.0",
"hdf5==1.14.0",
"icu==73.2",
"importlib-metadata==8.2.0",
"importlib_metadata==8.2.0",
"joblib==1.1.0",
"jpeg==9e",
"kiwisolver==1.4.5",
"krb5==1.21.3",
"lcms2==2.12",
"legacy-api-wrap==1.4",
"lerc==3.0",
"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==8.8.0",
"libcxx==18.1.8",
"libdeflate==1.10",
"libedit==3.1.20191231",
"libev==4.33",
"libffi==3.4.2",
"libgfortran==5.0.0",
"libgfortran5==13.2.0",
"libhwloc==2.11.1",
"libiconv==1.17",
"liblapack==3.9.0",
"libllvm11==11.1.0",
"libnghttp2==1.58.0",
"libopenblas==0.3.25",
"libpng==1.6.43",
"libsqlite==3.46.0",
"libssh2==1.11.0",
"libtiff==4.3.0",
"libwebp==1.2.2",
"libwebp-base==1.2.2",
"libxcb==1.13",
"libxml2==2.12.7",
"libzlib==1.2.13",
"llvm-openmp==18.1.8",
"llvmlite==0.39.1",
"lz4-c==1.9.4",
"matplotlib-base==3.6.3",
"munkres==1.0.7",
"natsort==8.4.0",
"ncurses==6.5",
"networkx==3.2",
"numba==0.56.4",
"numexpr==2.10.0",
"numpy==1.21.5",
"openjpeg==2.5.0",
"openssl==3.3.1",
"packaging==24.1",
"pandas==1.3.5",
"patsy==0.5.6",
"pillow==9.1.1",
"pip==24.1.2",
"pthread-stubs==0.4",
"pynndescent==0.5.13",
"pyparsing==3.1.2",
"pytables==3.7.0",
"python==3.9.19",
"python-dateutil==2.9.0",
"python_abi==3.9",
"pytz==2024.1",
"readline==8.2",
"scanpy==1.7.2",
"scikit-learn==1.0.2",
"scipy==1.7.3",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"setuptools==59.8.0",
"setuptools-scm==8.1.0",
"setuptools_scm==8.1.0",
"sinfo==0.3.1",
"six==1.16.0",
"snappy==1.2.1",
"statsmodels==0.13.5",
"stdlib-list==0.10.0",
"tbb==2021.12.0",
"threadpoolctl==3.0.0",
"tk==8.6.13",
"tomli==2.0.1",
"tqdm==4.66.4",
"typing-extensions==4.12.2",
"typing_extensions==4.12.2",
"tzdata==2024a",
"umap-learn==0.5.5",
"unicodedata2==15.1.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.3",
"xz==5.2.6",
"zipp==3.19.2",
"zlib==1.2.13",
"zstd==1.5.6")
} else if (basilisk.utils::isWindows()) {
.sketchR_dependencies <- c(
"anndata==0.10.5.post1",
"array-api-compat==1.8",
"blosc==1.21.5",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"ca-certificates==2024.7.4",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.7.4",
"colorama==0.4.6",
"contourpy==1.2.1",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.53.1",
"freetype==2.12.1",
"h5py==3.8.0",
"hdf5==1.14.0",
"importlib-metadata==8.2.0",
"importlib_metadata==8.2.0",
"intel-openmp==2024.2.0",
"joblib==1.1.0",
"jpeg==9e",
"kiwisolver==1.4.5",
"krb5==1.21.3",
"lcms2==2.12",
"legacy-api-wrap==1.4",
"lerc==3.0",
"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==8.8.0",
"libdeflate==1.10",
"libffi==3.4.2",
"libhwloc==2.11.1",
"libiconv==1.17",
"liblapack==3.9.0",
"libpng==1.6.43",
"libsqlite==3.46.0",
"libssh2==1.11.0",
"libtiff==4.3.0",
"libwebp==1.4.0",
"libwebp-base==1.4.0",
"libxcb==1.13",
"libxml2==2.12.7",
"libzlib==1.2.13",
"llvmlite==0.39.1",
"lz4-c==1.9.4",
"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==3.6.3",
"mkl==2024.1.0",
"msys2-conda-epoch==20160418",
"munkres==1.0.7",
"natsort==8.4.0",
"networkx==3.2",
"numba==0.56.4",
"numexpr==2.7.3",
"numpy==1.21.5",
"openjpeg==2.5.0",
"openssl==3.3.1",
"packaging==24.1",
"pandas==1.3.5",
"patsy==0.5.6",
"pillow==9.1.1",
"pip==24.1.2",
"pthread-stubs==0.4",
"pthreads-win32==2.9.1",
"pynndescent==0.5.13",
"pyparsing==3.1.2",
"pytables==3.7.0",
"python==3.9.19",
"python-dateutil==2.9.0",
"python_abi==3.9",
"pytz==2024.1",
"scanpy==1.7.2",
"scikit-learn==1.0.2",
"scipy==1.7.3",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"setuptools==59.8.0",
"setuptools-scm==8.1.0",
"setuptools_scm==8.1.0",
"sinfo==0.3.1",
"six==1.16.0",
"snappy==1.2.1",
"statsmodels==0.13.5",
"stdlib-list==0.10.0",
"tbb==2021.12.0",
"threadpoolctl==3.0.0",
"tk==8.6.13",
"tomli==2.0.1",
"tqdm==4.66.4",
"typing-extensions==4.12.2",
"typing_extensions==4.12.2",
"tzdata==2024a",
"ucrt==10.0.22621.0",
"umap-learn==0.5.6",
"unicodedata2==15.1.0",
"vc==14.3",
"vc14_runtime==14.40.33810",
"vs2015_runtime==14.40.33810",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.3",
"xz==5.2.6",
"zipp==3.19.2",
"zlib==1.2.13",
"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/geosketchR documentation built on Aug. 28, 2024, 4:34 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==0.10.5.post1",
"array-api-compat==1.8",
"blosc==1.21.5",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"c-ares==1.32.3",
"ca-certificates==2024.7.4",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.7.4",
"colorama==0.4.6",
"contourpy==1.2.1",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.53.1",
"freetype==2.12.1",
"giflib==5.2.2",
"h5py==3.8.0",
"hdf5==1.14.0",
"icu==73.2",
"importlib-metadata==8.2.0",
"importlib_metadata==8.2.0",
"joblib==1.1.0",
"jpeg==9e",
"keyutils==1.6.1",
"kiwisolver==1.4.5",
"krb5==1.21.3",
"lcms2==2.12",
"ld_impl_linux-64==2.40",
"legacy-api-wrap==1.4",
"lerc==3.0",
"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==8.8.0",
"libdeflate==1.10",
"libedit==3.1.20191231",
"libev==4.33",
"libffi==3.4.2",
"libgcc-ng==14.1.0",
"libgfortran-ng==14.1.0",
"libgfortran5==14.1.0",
"libgomp==14.1.0",
"libhwloc==2.11.1",
"libiconv==1.17",
"liblapack==3.9.0",
"libllvm11==11.1.0",
"libnghttp2==1.58.0",
"libnsl==2.0.1",
"libopenblas==0.3.25",
"libpng==1.6.43",
"libsqlite==3.46.0",
"libssh2==1.11.0",
"libstdcxx-ng==14.1.0",
"libtiff==4.3.0",
"libuuid==2.38.1",
"libwebp==1.2.2",
"libwebp-base==1.2.2",
"libxcb==1.13",
"libxcrypt==4.4.36",
"libxml2==2.12.7",
"libzlib==1.2.13",
"llvmlite==0.39.1",
"lz4-c==1.9.4",
"lzo==2.10",
"matplotlib-base==3.6.3",
"munkres==1.0.7",
"natsort==8.4.0",
"ncurses==6.5",
"networkx==3.2",
"nomkl==1.0",
"numba==0.56.4",
"numexpr==2.10.0",
"numpy==1.21.5",
"openjpeg==2.5.0",
"openssl==3.3.1",
"packaging==24.1",
"pandas==1.3.5",
"patsy==0.5.6",
"pillow==9.1.1",
"pip==24.1.2",
"pthread-stubs==0.4",
"pynndescent==0.5.13",
"pyparsing==3.1.2",
"pytables==3.7.0",
"python==3.9.19",
"python-dateutil==2.9.0",
"python_abi==3.9",
"pytz==2024.1",
"readline==8.2",
"scanpy==1.7.2",
"scikit-learn==1.0.2",
"scipy==1.7.3",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"setuptools==59.8.0",
"setuptools-scm==8.1.0",
"setuptools_scm==8.1.0",
"sinfo==0.3.1",
"six==1.16.0",
"snappy==1.2.1",
"statsmodels==0.13.5",
"stdlib-list==0.10.0",
"tbb==2021.12.0",
"threadpoolctl==3.0.0",
"tk==8.6.13",
"tomli==2.0.1",
"tqdm==4.66.4",
"typing-extensions==4.12.2",
"typing_extensions==4.12.2",
"tzdata==2024a",
"umap-learn==0.5.6",
"unicodedata2==15.1.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.3",
"xz==5.2.6",
"zipp==3.19.2",
"zlib==1.2.13",
"zstd==1.5.6")
} else if (basilisk.utils::isLinux()) {
.sketchR_dependencies <- c(
"_libgcc_mutex==0.1",
"_openmp_mutex==4.5",
"anndata==0.10.5.post1",
"array-api-compat==1.8",
"blosc==1.21.5",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"c-ares==1.32.3",
"ca-certificates==2024.7.4",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.7.4",
"colorama==0.4.6",
"contourpy==1.2.1",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.53.1",
"freetype==2.12.1",
"giflib==5.2.2",
"h5py==3.8.0",
"hdf5==1.14.0",
"icu==73.2",
"importlib-metadata==8.2.0",
"importlib_metadata==8.2.0",
"joblib==1.1.0",
"jpeg==9e",
"keyutils==1.6.1",
"kiwisolver==1.4.5",
"krb5==1.21.3",
"lcms2==2.12",
"ld_impl_linux-64==2.40",
"legacy-api-wrap==1.4",
"lerc==3.0",
"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==8.8.0",
"libdeflate==1.10",
"libedit==3.1.20191231",
"libev==4.33",
"libffi==3.4.2",
"libgcc-ng==14.1.0",
"libgfortran-ng==14.1.0",
"libgfortran5==14.1.0",
"libgomp==14.1.0",
"libhwloc==2.11.1",
"libiconv==1.17",
"liblapack==3.9.0",
"libllvm11==11.1.0",
"libnghttp2==1.58.0",
"libnsl==2.0.1",
"libopenblas==0.3.25",
"libpng==1.6.43",
"libsqlite==3.46.0",
"libssh2==1.11.0",
"libstdcxx-ng==14.1.0",
"libtiff==4.3.0",
"libuuid==2.38.1",
"libwebp==1.2.2",
"libwebp-base==1.2.2",
"libxcb==1.13",
"libxcrypt==4.4.36",
"libxml2==2.12.7",
"libzlib==1.2.13",
"llvmlite==0.39.1",
"lz4-c==1.9.4",
"lzo==2.10",
"matplotlib-base==3.6.3",
"munkres==1.0.7",
"natsort==8.4.0",
"ncurses==6.5",
"networkx==3.2",
"nomkl==1.0",
"numba==0.56.4",
"numexpr==2.10.0",
"numpy==1.21.5",
"openjpeg==2.5.0",
"openssl==3.3.1",
"packaging==24.1",
"pandas==1.3.5",
"patsy==0.5.6",
"pillow==9.1.1",
"pip==24.1.2",
"pthread-stubs==0.4",
"pynndescent==0.5.13",
"pyparsing==3.1.2",
"pytables==3.7.0",
"python==3.9.19",
"python-dateutil==2.9.0",
"python_abi==3.9",
"pytz==2024.1",
"readline==8.2",
"scanpy==1.7.2",
"scikit-learn==1.0.2",
"scipy==1.7.3",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"setuptools==59.8.0",
"setuptools-scm==8.1.0",
"setuptools_scm==8.1.0",
"sinfo==0.3.1",
"six==1.16.0",
"snappy==1.2.1",
"statsmodels==0.13.5",
"stdlib-list==0.10.0",
"tbb==2021.12.0",
"threadpoolctl==3.0.0",
"tk==8.6.13",
"tomli==2.0.1",
"tqdm==4.66.4",
"typing-extensions==4.12.2",
"typing_extensions==4.12.2",
"tzdata==2024a",
"umap-learn==0.5.6",
"unicodedata2==15.1.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.3",
"xz==5.2.6",
"zipp==3.19.2",
"zlib==1.2.13",
"zstd==1.5.6")
} else if (basilisk.utils::isMacOSXArm()) {
.sketchR_dependencies <- c(
"anndata==0.10.5.post1",
"array-api-compat==1.8",
"blosc==1.21.5",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"c-ares==1.32.3",
"ca-certificates==2024.7.4",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.7.4",
"colorama==0.4.6",
"contourpy==1.2.1",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.53.1",
"freetype==2.12.1",
"giflib==5.2.2",
"h5py==3.8.0",
"hdf5==1.14.0",
"icu==73.2",
"importlib-metadata==8.2.0",
"importlib_metadata==8.2.0",
"joblib==1.1.0",
"jpeg==9e",
"kiwisolver==1.4.5",
"krb5==1.21.3",
"lcms2==2.12",
"legacy-api-wrap==1.4",
"lerc==3.0",
"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==8.8.0",
"libcxx==18.1.8",
"libdeflate==1.10",
"libedit==3.1.20191231",
"libev==4.33",
"libffi==3.4.2",
"libgfortran==5.0.0",
"libgfortran5==13.2.0",
"libhwloc==2.11.1",
"libiconv==1.17",
"liblapack==3.9.0",
"libllvm11==11.1.0",
"libnghttp2==1.58.0",
"libopenblas==0.3.25",
"libpng==1.6.43",
"libsqlite==3.46.0",
"libssh2==1.11.0",
"libtiff==4.3.0",
"libwebp==1.2.2",
"libwebp-base==1.2.2",
"libxcb==1.13",
"libxml2==2.12.7",
"libzlib==1.2.13",
"llvm-openmp==18.1.8",
"llvmlite==0.39.1",
"lz4-c==1.9.4",
"matplotlib-base==3.6.3",
"munkres==1.0.7",
"natsort==8.4.0",
"ncurses==6.5",
"networkx==3.2",
"numba==0.56.4",
"numexpr==2.10.0",
"numpy==1.21.5",
"openjpeg==2.5.0",
"openssl==3.3.1",
"packaging==24.1",
"pandas==1.3.5",
"patsy==0.5.6",
"pillow==9.1.1",
"pip==24.1.2",
"pthread-stubs==0.4",
"pynndescent==0.5.13",
"pyparsing==3.1.2",
"pytables==3.7.0",
"python==3.9.19",
"python-dateutil==2.9.0",
"python_abi==3.9",
"pytz==2024.1",
"readline==8.2",
"scanpy==1.7.2",
"scikit-learn==1.0.2",
"scipy==1.7.3",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"setuptools==59.8.0",
"setuptools-scm==8.1.0",
"setuptools_scm==8.1.0",
"sinfo==0.3.1",
"six==1.16.0",
"snappy==1.2.1",
"statsmodels==0.13.5",
"stdlib-list==0.10.0",
"tbb==2021.12.0",
"threadpoolctl==3.0.0",
"tk==8.6.13",
"tomli==2.0.1",
"tqdm==4.66.4",
"typing-extensions==4.12.2",
"typing_extensions==4.12.2",
"tzdata==2024a",
"umap-learn==0.5.5",
"unicodedata2==15.1.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.3",
"xz==5.2.6",
"zipp==3.19.2",
"zlib==1.2.13",
"zstd==1.5.6")
} else if (basilisk.utils::isMacOSX()) {
.sketchR_dependencies <- c(
"anndata==0.10.5.post1",
"array-api-compat==1.8",
"blosc==1.21.5",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"c-ares==1.32.3",
"ca-certificates==2024.7.4",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.7.4",
"colorama==0.4.6",
"contourpy==1.2.1",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.53.1",
"freetype==2.12.1",
"giflib==5.2.2",
"h5py==3.8.0",
"hdf5==1.14.0",
"icu==73.2",
"importlib-metadata==8.2.0",
"importlib_metadata==8.2.0",
"joblib==1.1.0",
"jpeg==9e",
"kiwisolver==1.4.5",
"krb5==1.21.3",
"lcms2==2.12",
"legacy-api-wrap==1.4",
"lerc==3.0",
"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==8.8.0",
"libcxx==18.1.8",
"libdeflate==1.10",
"libedit==3.1.20191231",
"libev==4.33",
"libffi==3.4.2",
"libgfortran==5.0.0",
"libgfortran5==13.2.0",
"libhwloc==2.11.1",
"libiconv==1.17",
"liblapack==3.9.0",
"libllvm11==11.1.0",
"libnghttp2==1.58.0",
"libopenblas==0.3.25",
"libpng==1.6.43",
"libsqlite==3.46.0",
"libssh2==1.11.0",
"libtiff==4.3.0",
"libwebp==1.2.2",
"libwebp-base==1.2.2",
"libxcb==1.13",
"libxml2==2.12.7",
"libzlib==1.2.13",
"llvm-openmp==18.1.8",
"llvmlite==0.39.1",
"lz4-c==1.9.4",
"matplotlib-base==3.6.3",
"munkres==1.0.7",
"natsort==8.4.0",
"ncurses==6.5",
"networkx==3.2",
"numba==0.56.4",
"numexpr==2.10.0",
"numpy==1.21.5",
"openjpeg==2.5.0",
"openssl==3.3.1",
"packaging==24.1",
"pandas==1.3.5",
"patsy==0.5.6",
"pillow==9.1.1",
"pip==24.1.2",
"pthread-stubs==0.4",
"pynndescent==0.5.13",
"pyparsing==3.1.2",
"pytables==3.7.0",
"python==3.9.19",
"python-dateutil==2.9.0",
"python_abi==3.9",
"pytz==2024.1",
"readline==8.2",
"scanpy==1.7.2",
"scikit-learn==1.0.2",
"scipy==1.7.3",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"setuptools==59.8.0",
"setuptools-scm==8.1.0",
"setuptools_scm==8.1.0",
"sinfo==0.3.1",
"six==1.16.0",
"snappy==1.2.1",
"statsmodels==0.13.5",
"stdlib-list==0.10.0",
"tbb==2021.12.0",
"threadpoolctl==3.0.0",
"tk==8.6.13",
"tomli==2.0.1",
"tqdm==4.66.4",
"typing-extensions==4.12.2",
"typing_extensions==4.12.2",
"tzdata==2024a",
"umap-learn==0.5.5",
"unicodedata2==15.1.0",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.3",
"xz==5.2.6",
"zipp==3.19.2",
"zlib==1.2.13",
"zstd==1.5.6")
} else if (basilisk.utils::isWindows()) {
.sketchR_dependencies <- c(
"anndata==0.10.5.post1",
"array-api-compat==1.8",
"blosc==1.21.5",
"brotli==1.1.0",
"brotli-bin==1.1.0",
"bzip2==1.0.8",
"ca-certificates==2024.7.4",
"cached-property==1.5.2",
"cached_property==1.5.2",
"certifi==2024.7.4",
"colorama==0.4.6",
"contourpy==1.2.1",
"cycler==0.12.1",
"exceptiongroup==1.2.2",
"fonttools==4.53.1",
"freetype==2.12.1",
"h5py==3.8.0",
"hdf5==1.14.0",
"importlib-metadata==8.2.0",
"importlib_metadata==8.2.0",
"intel-openmp==2024.2.0",
"joblib==1.1.0",
"jpeg==9e",
"kiwisolver==1.4.5",
"krb5==1.21.3",
"lcms2==2.12",
"legacy-api-wrap==1.4",
"lerc==3.0",
"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==8.8.0",
"libdeflate==1.10",
"libffi==3.4.2",
"libhwloc==2.11.1",
"libiconv==1.17",
"liblapack==3.9.0",
"libpng==1.6.43",
"libsqlite==3.46.0",
"libssh2==1.11.0",
"libtiff==4.3.0",
"libwebp==1.4.0",
"libwebp-base==1.4.0",
"libxcb==1.13",
"libxml2==2.12.7",
"libzlib==1.2.13",
"llvmlite==0.39.1",
"lz4-c==1.9.4",
"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==3.6.3",
"mkl==2024.1.0",
"msys2-conda-epoch==20160418",
"munkres==1.0.7",
"natsort==8.4.0",
"networkx==3.2",
"numba==0.56.4",
"numexpr==2.7.3",
"numpy==1.21.5",
"openjpeg==2.5.0",
"openssl==3.3.1",
"packaging==24.1",
"pandas==1.3.5",
"patsy==0.5.6",
"pillow==9.1.1",
"pip==24.1.2",
"pthread-stubs==0.4",
"pthreads-win32==2.9.1",
"pynndescent==0.5.13",
"pyparsing==3.1.2",
"pytables==3.7.0",
"python==3.9.19",
"python-dateutil==2.9.0",
"python_abi==3.9",
"pytz==2024.1",
"scanpy==1.7.2",
"scikit-learn==1.0.2",
"scipy==1.7.3",
"seaborn==0.13.2",
"seaborn-base==0.13.2",
"setuptools==59.8.0",
"setuptools-scm==8.1.0",
"setuptools_scm==8.1.0",
"sinfo==0.3.1",
"six==1.16.0",
"snappy==1.2.1",
"statsmodels==0.13.5",
"stdlib-list==0.10.0",
"tbb==2021.12.0",
"threadpoolctl==3.0.0",
"tk==8.6.13",
"tomli==2.0.1",
"tqdm==4.66.4",
"typing-extensions==4.12.2",
"typing_extensions==4.12.2",
"tzdata==2024a",
"ucrt==10.0.22621.0",
"umap-learn==0.5.6",
"unicodedata2==15.1.0",
"vc==14.3",
"vc14_runtime==14.40.33810",
"vs2015_runtime==14.40.33810",
"xorg-libxau==1.0.11",
"xorg-libxdmcp==1.1.3",
"xz==5.2.6",
"zipp==3.19.2",
"zlib==1.2.13",
"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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