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more than one python install per package #61

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beckermr opened this issue Dec 9, 2020 · 1 comment · Fixed by #62
Closed
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more than one python install per package #61

beckermr opened this issue Dec 9, 2020 · 1 comment · Fixed by #62

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@beckermr
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beckermr commented Dec 9, 2020 •
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Issue: When I run conda list I get the following

pybind11                  2.6.1            py37h8ec247f_0    conda-forge
pybind11-global           2.6.1                    pypi_0    pypi

This happens even though I have not used pip to install anything and is due to conda/conda#10400. Note that a second pip install in the package is happening here in the recipe: https://github.com/conda-forge/pybind11-feedstock/blob/master/recipe/meta.yaml#L22

The issue is that when one exports an environment to a yaml file, you incorrectly get that pybind11-global should be installed from pip.

This can be fixed by moving the second pip install to a second output.


Environment (conda list): 
$ conda list

                  __    __    __    __
                 /  \  /  \  /  \  /  \
                /    \/    \/    \/    \
███████████████/  /██/  /██/  /██/  /████████████████████████
              /  / \   / \   / \   / \  \____
             /  /   \_/   \_/   \_/   \    o \__,
            / _/                       \_____/  `
            |/
        ███╗   ███╗ █████╗ ███╗   ███╗██████╗  █████╗
        ████╗ ████║██╔══██╗████╗ ████║██╔══██╗██╔══██╗
        ██╔████╔██║███████║██╔████╔██║██████╔╝███████║
        ██║╚██╔╝██║██╔══██║██║╚██╔╝██║██╔══██╗██╔══██║
        ██║ ╚═╝ ██║██║  ██║██║ ╚═╝ ██║██████╔╝██║  ██║
        ╚═╝     ╚═╝╚═╝  ╚═╝╚═╝     ╚═╝╚═════╝ ╚═╝  ╚═╝

        mamba (0.7.4) supported by @QuantStack

        GitHub:  https://github.com/mamba-org/mamba
        Twitter: https://twitter.com/QuantStack

█████████████████████████████████████████████████████████████

# packages in environment at /Users/beckermr/miniconda3/envs/ngmix-dev:
#
# Name                    Version                   Build  Channel
appnope                   0.1.2            py37hf985489_0    conda-forge
argon2-cffi               20.1.0           py37h60d8a13_2    conda-forge
astropy                   4.2              py37he6e4e01_0    conda-forge
async_generator           1.10                       py_0    conda-forge
attrs                     20.3.0             pyhd3deb0d_0    conda-forge
backcall                  0.2.0              pyh9f0ad1d_0    conda-forge
backports                 1.0                        py_2    conda-forge
backports.functools_lru_cache 1.6.1                      py_0    conda-forge
bleach                    3.2.1              pyh9f0ad1d_0    conda-forge
ca-certificates           2020.12.5            h033912b_0    conda-forge
certifi                   2020.12.5        py37hf985489_0    conda-forge
cffi                      1.14.4           py37hc5b2277_1    conda-forge
coverage                  5.3              py37h60d8a13_1    conda-forge
cycler                    0.10.0                     py_2    conda-forge
dbus                      1.13.6               h1730f81_1    conda-forge
decorator                 4.4.2                      py_0    conda-forge
defusedxml                0.6.0                      py_0    conda-forge
eigen                     3.3.9                h926bf3e_0    conda-forge
entrypoints               0.3             py37hc8dfbb8_1002    conda-forge
expat                     2.2.9                hb1e8313_2    conda-forge
fftw                      3.3.8           nompi_hff78070_1114    conda-forge
flake8                    3.8.4                      py_0    conda-forge
freetype                  2.10.4               ha233b18_0    conda-forge
future                    0.18.2           py37hf985489_2    conda-forge
galsim                    2.2.4            py37h6769806_1    conda-forge
gettext                   0.19.8.1          h7937167_1005    conda-forge
glib                      2.66.3               h519c658_1    conda-forge
icu                       67.1                 hb1e8313_0    conda-forge
importlib-metadata        3.1.1              pyhd8ed1ab_0    conda-forge
importlib_metadata        3.1.1                hd8ed1ab_0    conda-forge
iniconfig                 1.1.1              pyh9f0ad1d_0    conda-forge
ipykernel                 5.3.4            py37he01cfaa_1    conda-forge
ipython                   7.19.0           py37he01cfaa_0    conda-forge
ipython_genutils          0.2.0                      py_1    conda-forge
ipywidgets                7.5.1              pyh9f0ad1d_1    conda-forge
jedi                      0.17.2           py37hf985489_1    conda-forge
jinja2                    2.11.2             pyh9f0ad1d_0    conda-forge
jpeg                      9d                   hbcb3906_0    conda-forge
jsonschema                3.2.0            py37hc8dfbb8_1    conda-forge
jupyter                   1.0.0                      py_2    conda-forge
jupyter_client            6.1.7                      py_0    conda-forge
jupyter_console           6.2.0                      py_0    conda-forge
jupyter_core              4.7.0            py37hf985489_0    conda-forge
jupyterlab_pygments       0.1.2              pyh9f0ad1d_0    conda-forge
kiwisolver                1.3.1            py37h8ec247f_0    conda-forge
krb5                      1.17.2               h60d9502_0    conda-forge
lcms2                     2.11                 hdc706ca_1    conda-forge
libblas                   3.9.0                3_openblas    conda-forge
libcblas                  3.9.0                3_openblas    conda-forge
libclang                  10.0.1          default_hf57f61e_1    conda-forge
libcxx                    11.0.0               h4c3b8ed_1    conda-forge
libedit                   3.1.20191231         hed1e85f_2    conda-forge
libffi                    3.3                  h046ec9c_2    conda-forge
libgfortran               5.0.0               h7cc5361_13    conda-forge
libgfortran4              7.5.0               h2d743fc_11    conda-forge
libgfortran5              9.3.0               h7cc5361_13    conda-forge
libglib                   2.66.3               h60154bc_1    conda-forge
libiconv                  1.16                 haf1e3a3_0    conda-forge
liblapack                 3.9.0                3_openblas    conda-forge
libllvm10                 10.0.1               h009f743_3    conda-forge
libopenblas               0.3.12          openmp_h54245bb_1    conda-forge
libpng                    1.6.37               hb0a8c7a_2    conda-forge
libpq                     12.3                 h0cb8f33_3    conda-forge
libsodium                 1.0.18               hbcb3906_1    conda-forge
libtiff                   4.1.0                hca7d577_6    conda-forge
libwebp-base              1.1.0                hbcb3906_3    conda-forge
llvm-openmp               11.0.0               h73239a0_1    conda-forge
llvmlite                  0.35.0           py37hd739bdf_0    conda-forge
lsstdesc.coord            1.2.1            py37hb449ec0_1    conda-forge
lz4-c                     1.9.2                hb1e8313_3    conda-forge
markupsafe                1.1.1            py37h395d20d_2    conda-forge
matplotlib                3.3.3            py37hf985489_0    conda-forge
matplotlib-base           3.3.3            py37hdacc966_0    conda-forge
mccabe                    0.6.1                      py_1    conda-forge
mistune                   0.8.4           py37h60d8a13_1002    conda-forge
more-itertools            8.6.0              pyhd8ed1ab_0    conda-forge
mysql-common              8.0.21                        2    conda-forge
mysql-libs                8.0.21               hfb8f7af_2    conda-forge
nb_conda_kernels          2.3.1            py37hf985489_0    conda-forge
nbclient                  0.5.1                      py_0    conda-forge
nbconvert                 6.0.7            py37hf985489_3    conda-forge
nbformat                  5.0.8                      py_0    conda-forge
ncurses                   6.2                  h2e338ed_4    conda-forge
nest-asyncio              1.4.3              pyhd8ed1ab_0    conda-forge
ngmix                     2.0.0                     dev_0    <develop>
notebook                  6.1.5            py37hf985489_0    conda-forge
nspr                      4.29                 hb1e8313_1    conda-forge
nss                       3.47                 hcec2283_0    conda-forge
numba                     0.52.0           py37h53bd85b_0    conda-forge
numpy                     1.19.4           py37h9ebeaaa_1    conda-forge
olefile                   0.46               pyh9f0ad1d_1    conda-forge
openssl                   1.1.1h               haf1e3a3_0    conda-forge
packaging                 20.7               pyhd3deb0d_0    conda-forge
pandas                    1.1.5            py37h010c265_0    conda-forge
pandoc                    2.11.2               hc929b4f_0    conda-forge
pandocfilters             1.4.2                      py_1    conda-forge
parso                     0.7.1              pyh9f0ad1d_0    conda-forge
patsy                     0.5.1                      py_0    conda-forge
pcre                      8.44                 hb1e8313_0    conda-forge
pexpect                   4.8.0            py37hc8dfbb8_1    conda-forge
pickleshare               0.7.5           py37hc8dfbb8_1002    conda-forge
pillow                    8.0.1            py37hf860fee_0    conda-forge
pip                       20.3.1             pyhd8ed1ab_0    conda-forge
pluggy                    0.13.1           py37hc8dfbb8_3    conda-forge
prometheus_client         0.9.0              pyhd3deb0d_0    conda-forge
prompt-toolkit            3.0.8              pyha770c72_0    conda-forge
prompt_toolkit            3.0.8                         0    conda-forge
proplot                   0.6.4                      py_0    conda-forge
ptyprocess                0.6.0                 py37_1000    conda-forge
py                        1.9.0              pyh9f0ad1d_0    conda-forge
pybind11                  2.6.1            py37h8ec247f_0    conda-forge
pybind11-global           2.6.1                    pypi_0    pypi
pycodestyle               2.6.0              pyh9f0ad1d_0    conda-forge
pycparser                 2.20               pyh9f0ad1d_2    conda-forge
pyerfa                    1.7.1.1          py37he6e4e01_1    conda-forge
pyflakes                  2.2.0              pyh9f0ad1d_0    conda-forge
pygments                  2.7.3              pyhd8ed1ab_0    conda-forge
pyparsing                 2.4.7              pyh9f0ad1d_0    conda-forge
pyqt                      5.12.3           py37hf985489_6    conda-forge
pyqt-impl                 5.12.3           py37h5ae2165_6    conda-forge
pyqt5-sip                 4.19.18          py37h5ab9d7d_6    conda-forge
pyqtchart                 5.12             py37h5ae2165_6    conda-forge
pyqtwebengine             5.12.1           py37h5ae2165_6    conda-forge
pyrsistent                0.17.3           py37h60d8a13_1    conda-forge
pytest                    6.1.2            py37hf985489_0    conda-forge
pytest-cov                2.10.1             pyh9f0ad1d_0    conda-forge
python                    3.7.8           h4f09611_3_cpython    conda-forge
python-dateutil           2.8.1                      py_0    conda-forge
python_abi                3.7                     1_cp37m    conda-forge
pytz                      2020.4             pyhd8ed1ab_0    conda-forge
pyzmq                     20.0.0           py37h47fd9b3_1    conda-forge
qt                        5.12.9               h717870c_0    conda-forge
qtconsole                 5.0.1              pyhd8ed1ab_0    conda-forge
qtpy                      1.9.0                      py_0    conda-forge
readline                  8.0                  h0678c8f_2    conda-forge
scipy                     1.5.3            py37h821cff1_0    conda-forge
seaborn                   0.11.0               h694c41f_1    conda-forge
seaborn-base              0.11.0             pyhd8ed1ab_1    conda-forge
send2trash                1.5.0                      py_0    conda-forge
setuptools                49.6.0           py37h2987424_2    conda-forge
simplegeneric             0.8.1                      py_1    conda-forge
six                       1.15.0             pyh9f0ad1d_0    conda-forge
sqlite                    3.34.0               h17101e1_0    conda-forge
statsmodels               0.12.1           py37h8ba3199_1    conda-forge
terminado                 0.9.1            py37hf985489_1    conda-forge
testpath                  0.4.4                      py_0    conda-forge
tk                        8.6.10               hb0a8c7a_1    conda-forge
toml                      0.10.2             pyhd8ed1ab_0    conda-forge
tornado                   6.1              py37h4b544eb_0    conda-forge
traitlets                 5.0.5                      py_0    conda-forge
wcwidth                   0.2.5              pyh9f0ad1d_2    conda-forge
webencodings              0.5.1                      py_1    conda-forge
wheel                     0.36.1             pyhd3deb0d_0    conda-forge
widgetsnbextension        3.5.1            py37hf985489_4    conda-forge
xz                        5.2.5                haf1e3a3_1    conda-forge
zeromq                    4.3.3                h74dc148_3    conda-forge
zipp                      3.4.0                      py_0    conda-forge
zlib                      1.2.11            h7795811_1010    conda-forge
zstd                      1.4.5                h0384e3a_2    conda-forge

Details about conda and system ( conda info ): 
$ conda info

     active environment : ngmix-dev
    active env location : /Users/beckermr/miniconda3/envs/ngmix-dev
            shell level : 2
       user config file : /Users/beckermr/.condarc
 populated config files : /Users/beckermr/.condarc
          conda version : 4.9.2
    conda-build version : 3.20.5
         python version : 3.8.6.final.0
       virtual packages : __osx=10.14.6=0
                          __unix=0=0
                          __archspec=1=skylake
       base environment : /Users/beckermr/miniconda3  (writable)
           channel URLs : https://conda.anaconda.org/conda-forge/osx-64
                          https://conda.anaconda.org/conda-forge/noarch
                          https://repo.anaconda.com/pkgs/main/osx-64
                          https://repo.anaconda.com/pkgs/main/noarch
                          https://repo.anaconda.com/pkgs/r/osx-64
                          https://repo.anaconda.com/pkgs/r/noarch
          package cache : /Users/beckermr/miniconda3/pkgs
                          /Users/beckermr/.conda/pkgs
       envs directories : /Users/beckermr/miniconda3/envs
                          /Users/beckermr/.conda/envs
               platform : osx-64
             user-agent : conda/4.9.2 requests/2.25.0 CPython/3.8.6 Darwin/18.7.0 OSX/10.14.6
                UID:GID : 501:20
             netrc file : /Users/beckermr/.netrc
           offline mode : False
@henryiii
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henryiii commented Dec 9, 2020

+1, thanks for tackling this!

@beckermr beckermr mentioned this issue Dec 9, 2020
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@henryiii @beckermr