Describe the bug
A clear and concise description of what the bug is.
To Reproduce
Standalone code to reproduce the error
Expected behavior
A clear and concise description of what you expected to happen.
Actual behavior
Please include the full traceback of any errors
System information:
Output of magic.__version__:
python -c 'import magic'
/Users/abhaykanodia/opt/anaconda3/lib/python3.9/site-packages/numpy/init.py:143: UserWarning: mkl-service package failed to import, therefore Intel(R) MKL initialization ensuring its correct out-of-the box operation under condition when Gnu OpenMP had already been loaded by Python process is not assured. Please install mkl-service package, see http://github.com/IntelPython/mkl-service
from . import _distributor_init
Traceback (most recent call last):
File "", line 1, in
File "/Users/abhaykanodia/opt/anaconda3/lib/python3.9/site-packages/magic/init.py", line 1, in
from .magic import MAGIC
File "/Users/abhaykanodia/opt/anaconda3/lib/python3.9/site-packages/magic/magic.py", line 9, in
from . import utils
File "/Users/abhaykanodia/opt/anaconda3/lib/python3.9/site-packages/magic/utils.py", line 1, in
from scipy import sparse
File "/Users/abhaykanodia/opt/anaconda3/lib/python3.9/site-packages/scipy/init.py", line 67, in
from numpy import show_config as show_numpy_config
File "/Users/abhaykanodia/opt/anaconda3/lib/python3.9/site-packages/numpy/init.py", line 326, in
import mkl
ModuleNotFoundError: No module named 'mkl'
Output of pd.show_versions():
```
python -c 'import pandas as pd'
/Users/abhaykanodia/opt/anaconda3/lib/python3.9/site-packages/numpy/__init__.py:143: UserWarning: mkl-service package failed to import, therefore Intel(R) MKL initialization ensuring its correct out-of-the box operation under condition when Gnu OpenMP had already been loaded by Python process is not assured. Please install mkl-service package, see http://github.com/IntelPython/mkl-service
from . import _distributor_init
Traceback (most recent call last):
File "", line 1, in
File "/Users/abhaykanodia/opt/anaconda3/lib/python3.9/site-packages/pandas/__init__.py", line 16, in
raise ImportError(
ImportError: Unable to import required dependencies:
numpy: No module named 'mkl'
```
Output of sessionInfo():
sessionInfo()
R version 4.1.2 (2021-11-01)
Platform: x86_64-apple-darwin17.0 (64-bit)
Running under: macOS Big Sur 11.6
Describe the bug A clear and concise description of what the bug is.
To Reproduce Standalone code to reproduce the error
Expected behavior A clear and concise description of what you expected to happen.
Actual behavior Please include the full traceback of any errors
System information:
Output of
magic.__version__:python -c 'import magic' /Users/abhaykanodia/opt/anaconda3/lib/python3.9/site-packages/numpy/init.py:143: UserWarning: mkl-service package failed to import, therefore Intel(R) MKL initialization ensuring its correct out-of-the box operation under condition when Gnu OpenMP had already been loaded by Python process is not assured. Please install mkl-service package, see http://github.com/IntelPython/mkl-service from . import _distributor_init Traceback (most recent call last): File "", line 1, in
File "/Users/abhaykanodia/opt/anaconda3/lib/python3.9/site-packages/magic/init.py", line 1, in
from .magic import MAGIC
File "/Users/abhaykanodia/opt/anaconda3/lib/python3.9/site-packages/magic/magic.py", line 9, in
from . import utils
File "/Users/abhaykanodia/opt/anaconda3/lib/python3.9/site-packages/magic/utils.py", line 1, in
from scipy import sparse
File "/Users/abhaykanodia/opt/anaconda3/lib/python3.9/site-packages/scipy/init.py", line 67, in
from numpy import show_config as show_numpy_config
File "/Users/abhaykanodia/opt/anaconda3/lib/python3.9/site-packages/numpy/init.py", line 326, in
import mkl
ModuleNotFoundError: No module named 'mkl'
Output of
pd.show_versions():Output of
sessionInfo():Matrix products: default LAPACK: /Library/Frameworks/R.framework/Versions/4.1/Resources/lib/libRlapack.dylib
locale: [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages: [1] stats graphics grDevices utils datasets methods base
other attached packages: [1] Rmagic_2.0.3 Matrix_1.4-1
loaded via a namespace (and not attached): [1] nlme_3.1-157 matrixStats_0.62.0 spatstat.sparse_2.1-1 RcppAnnoy_0.0.19
[5] RColorBrewer_1.1-3 httr_1.4.2 rprojroot_2.0.3 sctransform_0.3.3
[9] tools_4.1.2 utf8_1.2.2 R6_2.5.1 irlba_2.3.5
[13] rpart_4.1.16 KernSmooth_2.23-20 uwot_0.1.11 mgcv_1.8-40
[17] rgeos_0.5-9 DBI_1.1.2 lazyeval_0.2.2 colorspace_2.0-3
[21] sp_1.4-7 tidyselect_1.1.2 gridExtra_2.3 compiler_4.1.2
[25] progressr_0.10.0 cli_3.3.0 plotly_4.10.0 Seurat_4.1.1
[29] scales_1.2.0 lmtest_0.9-40 spatstat.data_2.2-0 ggridges_0.5.3
[33] pbapply_1.5-0 goftest_1.2-3 stringr_1.4.0 digest_0.6.29
[37] spatstat.utils_2.3-0 pkgconfig_2.0.3 htmltools_0.5.2 parallelly_1.31.1
[41] fastmap_1.1.0 htmlwidgets_1.5.4 rlang_1.0.2 shiny_1.7.1
[45] generics_0.1.2 zoo_1.8-10 jsonlite_1.8.0 spatstat.random_2.2-0 [49] ica_1.0-2 dplyr_1.0.9 magrittr_2.0.3 patchwork_1.1.1
[53] Rcpp_1.0.8.3 munsell_0.5.0 fansi_1.0.3 abind_1.4-5
[57] reticulate_1.24-9000 lifecycle_1.0.1 stringi_1.7.6 MASS_7.3-57
[61] Rtsne_0.16 plyr_1.8.7 grid_4.1.2 parallel_4.1.2
[65] listenv_0.8.0 promises_1.2.0.1 ggrepel_0.9.1 crayon_1.5.1
[69] deldir_1.0-6 miniUI_0.1.1.1 lattice_0.20-45 cowplot_1.1.1
[73] splines_4.1.2 tensor_1.5 pillar_1.7.0 igraph_1.3.1
[77] spatstat.geom_2.4-0 future.apply_1.9.0 reshape2_1.4.4 codetools_0.2-18
[81] leiden_0.3.10 glue_1.6.2 SeuratObject_4.1.0 data.table_1.14.2
[85] png_0.1-7 vctrs_0.4.1 httpuv_1.6.5 polyclip_1.10-0
[89] gtable_0.3.0 RANN_2.6.1 purrr_0.3.4 spatstat.core_2.4-2
[93] tidyr_1.2.0 scattermore_0.8 future_1.25.0 assertthat_0.2.1
[97] ggplot2_3.3.6 mime_0.12 xtable_1.8-4 later_1.3.0
[101] survival_3.3-1 viridisLite_0.4.0 tibble_3.1.7 cluster_2.1.3
[105] globals_0.14.0 fitdistrplus_1.1-8 ellipsis_0.3.2 here_1.0.1
[109] ROCR_1.0-11
Output of
reticulate::py_discover_config(required_module = "magic"):python: /usr/bin/python3 libpython: /Library/Developer/CommandLineTools/Library/Frameworks/Python3.framework/Versions/3.8/lib/python3.8/config-3.8-darwin/libpython3.8.dylib pythonhome: /Library/Developer/CommandLineTools/Library/Frameworks/Python3.framework/Versions/3.8:/Library/Developer/CommandLineTools/Library/Frameworks/Python3.framework/Versions/3.8 version: 3.8.2 (default, Jun 8 2021, 11:59:35) [Clang 12.0.5 (clang-1205.0.22.11)] numpy: /Users/abhaykanodia/Library/Python/3.8/lib/python/site-packages/numpy numpy_version: 1.22.3 magic: [NOT FOUND]
NOTE: Python version was forced by use_python function
Output of
Rmagic::check_pymagic_version():Additional context Add any other context about the problem here.