spacetx / starfish

starfish: unified pipelines for image-based transcriptomics
https://spacetx-starfish.readthedocs.io/en/latest/
MIT License
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make install-dev got error #1922

Closed giovp closed 3 years ago

giovp commented 3 years ago

Description

Hi,

make install-dev got error:

ERROR: Cannot uninstall 'entrypoints'. It is a distutils installed project and thus we cannot accurately determine which files belong to it which would lead to only a partial uninstall.

was trying to install it in a conda env on a mac. Here's what's in there:

Details $ conda list # packages in environment at /Users/giovanni.palla/miniconda3/envs/starfish: # # Name Version Build Channel alabaster 0.7.12 pypi_0 pypi apipkg 1.5 pypi_0 pypi appnope 0.1.0 py38_1001 argon2-cffi 20.1.0 py38haf1e3a3_1 async_generator 1.10 py_0 attrs 19.3.0 pypi_0 pypi babel 2.8.0 pypi_0 pypi backcall 0.1.0 pypi_0 pypi blas 1.0 mkl bleach 3.1.4 pypi_0 pypi boto3 1.12.32 pypi_0 pypi botocore 1.15.32 pypi_0 pypi brotlipy 0.7.0 py38h9ed2024_1003 ca-certificates 2020.10.14 0 certifi 2019.11.28 pypi_0 pypi cffi 1.14.3 py38h2125817_2 chardet 3.0.4 py38hecd8cb5_1003 click 7.1.1 pypi_0 pypi commonmark 0.9.1 pypi_0 pypi coverage 5.0.4 pypi_0 pypi cryptography 3.2.1 py38hbcfaee0_1 cycler 0.10.0 pypi_0 pypi dataclasses 0.6 pypi_0 pypi decorator 4.4.2 py_0 defusedxml 0.6.0 pypi_0 pypi diskcache 4.1.0 pypi_0 pypi docutils 0.15.2 pypi_0 pypi entrypoints 0.3 py38_0 freetype 2.10.4 ha233b18_0 idna 2.10 py_0 imageio 2.9.0 pypi_0 pypi importlib-metadata 2.0.0 py_1 importlib_metadata 2.0.0 1 intel-openmp 2019.4 233 ipykernel 5.3.4 py38h5ca1d4c_0 ipython 7.19.0 py38h01d92e1_0 ipython_genutils 0.2.0 py38_0 jedi 0.17.2 py38_0 jinja2 2.11.2 py_0 jmespath 0.9.5 pypi_0 pypi jpeg 9b he5867d9_2 json5 0.9.5 py_0 jsonschema 3.2.0 py_2 jupyter_client 6.1.7 py_0 jupyter_core 4.7.0 py38hecd8cb5_0 jupyterlab 2.2.6 py_0 jupyterlab_pygments 0.1.2 py_0 jupyterlab_server 1.2.0 py_0 kiwisolver 1.3.0 py38h23ab428_0 lcms2 2.11 h92f6f08_0 libcxx 10.0.0 1 libedit 3.1.20191231 h1de35cc_1 libffi 3.3 hb1e8313_2 libgfortran 3.0.1 h93005f0_2 libpng 1.6.37 ha441bb4_0 libsodium 1.0.18 h1de35cc_0 libtiff 4.1.0 hcb84e12_1 lz4-c 1.9.2 h79c402e_3 markupsafe 1.1.1 py38h1de35cc_1 matplotlib 3.3.2 0 matplotlib-base 3.3.2 py38h181983e_0 mistune 0.8.4 py38h1de35cc_1001 mkl 2019.4 233 mkl-service 2.3.0 py38hfbe908c_0 mkl_fft 1.2.0 py38hc64f4ea_0 mkl_random 1.1.1 py38h959d312_0 nbclient 0.5.1 py_0 nbconvert 6.0.7 py38_0 nbformat 5.0.8 py_0 ncurses 6.2 h0a44026_1 nest-asyncio 1.4.3 pyhd3eb1b0_0 networkx 2.5 pypi_0 pypi notebook 6.1.4 py38_0 numpy 1.19.2 py38h456fd55_0 numpy-base 1.19.2 py38hcfb5961_0 olefile 0.46 py_0 openssl 1.1.1h haf1e3a3_0 packaging 20.4 py_0 pandas 1.1.3 py38hb1e8313_0 pandoc 2.11 h0dc7051_0 pandocfilters 1.4.3 py38hecd8cb5_1 parso 0.7.0 py_0 pexpect 4.8.0 pyhd3eb1b0_3 pickleshare 0.7.5 py38_1001 pillow 8.0.1 py38h5270095_0 pip 20.0.2 pypi_0 pypi prometheus_client 0.8.0 py_0 prompt-toolkit 3.0.8 py_0 ptyprocess 0.6.0 pyhd3eb1b0_2 pycparser 2.20 py_2 pygments 2.7.2 pyhd3eb1b0_0 pyopenssl 19.1.0 pyhd3eb1b0_1 pyparsing 2.4.7 py_0 pyrsistent 0.17.3 py38haf1e3a3_0 pysocks 1.7.1 py38_1 python 3.8.5 h26836e1_1 python-dateutil 2.8.0 pypi_0 pypi pytz 2019.3 pypi_0 pypi pywavelets 1.1.1 pypi_0 pypi pyzmq 19.0.2 py38hb1e8313_1 read-roi 1.6.0 pypi_0 pypi readline 8.0 h1de35cc_0 regional 1.1.2 pypi_0 pypi requests 2.24.0 py_0 s3transfer 0.3.3 pypi_0 pypi scipy 1.5.2 py38h2515648_0 seaborn 0.11.0 py_0 semantic-version 2.8.5 pypi_0 pypi send2trash 1.5.0 py38_0 setuptools 50.3.1 py38hecd8cb5_1 six 1.14.0 pypi_0 pypi sqlite 3.33.0 hffcf06c_0 terminado 0.9.1 py38_0 testpath 0.4.4 py_0 tk 8.6.10 hb0a8c7a_0 tornado 6.0.4 py38h1de35cc_1 traitlets 5.0.5 py_0 urllib3 1.25.8 pypi_0 pypi wcwidth 0.2.5 py_0 webencodings 0.5.1 pypi_0 pypi wheel 0.35.1 pyhd3eb1b0_0 xz 5.2.5 h1de35cc_0 zeromq 4.3.3 hb1e8313_3 zipp 3.4.0 pyhd3eb1b0_0 zlib 1.2.11 h1de35cc_3 zstd 1.4.5 h41d2c2f_0