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conda-forge / cdms2-feedstock

A conda-smithy repository for cdms2.
BSD 3-Clause "New" or "Revised" License
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Package listed as coming from pypi rather than conda-forge #60

Closed xylar closed 2 years ago

xylar commented 4 years ago

Issue:

$ conda create -y -n test python=3.8 cdms2
$ conda list -n test
...
cdms2                     3.1.5                    pypi_0    pypi

This causes trouble when trying to create a yaml file of the environment. The yaml file puts cdms2 in the section to be installed with pip, but this doesn't work.

See https://github.com/E3SM-Project/e3sm_diags/pull/323


Environment (conda list):

``` $ conda list # packages in environment at /home/xylar/miniconda3/envs/test: # # Name Version Build Channel _libgcc_mutex 0.1 conda_forge conda-forge _openmp_mutex 4.5 1_gnu conda-forge attrs 19.3.0 py_0 conda-forge brotlipy 0.7.0 py38h1e0a361_1000 conda-forge bzip2 1.0.8 h516909a_2 conda-forge c-ares 1.16.1 h516909a_0 conda-forge ca-certificates 2020.6.20 hecda079_0 conda-forge cdat_info 8.2.1 pyh9f0ad1d_1 conda-forge cdms2 3.1.5 pypi_0 pypi cdtime 3.1.4 py38hac60b08_0 conda-forge certifi 2020.6.20 py38h32f6830_0 conda-forge cffi 1.14.1 py38h5bae8af_0 conda-forge chardet 3.0.4 py38h32f6830_1006 conda-forge cryptography 3.0 py38h766eaa4_0 conda-forge curl 7.71.1 he644dc0_4 conda-forge decorator 4.4.2 py_0 conda-forge distarray 2.12.2 py_1 conda-forge esmf 8.0.1 nompi_hbeb3ca6_0 conda-forge esmpy 8.0.1 nompi_py38hbd9704b_0 conda-forge future 0.18.2 py38h32f6830_1 conda-forge g2clib 1.6.0 hf3f1b0b_9 conda-forge hdf4 4.2.13 hf30be14_1003 conda-forge hdf5 1.10.6 nompi_h3c11f04_101 conda-forge idna 2.10 pyh9f0ad1d_0 conda-forge importlib-metadata 1.7.0 py38h32f6830_0 conda-forge importlib_metadata 1.7.0 0 conda-forge ipython_genutils 0.2.0 py_1 conda-forge jasper 1.900.1 h07fcdf6_1006 conda-forge jpeg 9d h516909a_0 conda-forge jsonschema 3.2.0 py38h32f6830_1 conda-forge jupyter_core 4.6.3 py38h32f6830_1 conda-forge krb5 1.17.1 hfafb76e_2 conda-forge lazy-object-proxy 1.5.1 py38h1e0a361_0 conda-forge ld_impl_linux-64 2.34 hc38a660_9 conda-forge libblas 3.8.0 17_openblas conda-forge libcblas 3.8.0 17_openblas conda-forge libcdms 3.1.2 h054cd8a_112 conda-forge libcf 1.0.3 py38h2f41aa0_108 conda-forge libcurl 7.71.1 hcdd3856_4 conda-forge libdrs 3.1.2 hc2e2db3_112 conda-forge libdrs_f 3.1.2 hae7e664_110 conda-forge libedit 3.1.20191231 h46ee950_1 conda-forge libev 4.33 h516909a_0 conda-forge libffi 3.2.1 he1b5a44_1007 conda-forge libgcc-ng 9.3.0 h24d8f2e_14 conda-forge libgfortran-ng 7.5.0 hdf63c60_14 conda-forge libgomp 9.3.0 h24d8f2e_14 conda-forge liblapack 3.8.0 17_openblas conda-forge libnetcdf 4.7.4 nompi_h84807e1_105 conda-forge libnghttp2 1.41.0 hab1572f_1 conda-forge libopenblas 0.3.10 pthreads_hb3c22a3_4 conda-forge libpng 1.6.37 hed695b0_1 conda-forge libssh2 1.9.0 hab1572f_5 conda-forge libstdcxx-ng 9.3.0 hdf63c60_14 conda-forge libtiff 4.1.0 hc7e4089_6 conda-forge libuuid 2.32.1 h14c3975_1000 conda-forge libwebp-base 1.1.0 h516909a_3 conda-forge lz4-c 1.9.2 he1b5a44_1 conda-forge nbformat 5.0.7 py_0 conda-forge ncurses 6.2 he1b5a44_1 conda-forge netcdf-fortran 4.5.3 nompi_hfef6a68_100 conda-forge numpy 1.19.1 py38h8854b6b_0 conda-forge openblas 0.3.10 pthreads_hf183345_4 conda-forge openssl 1.1.1g h516909a_1 conda-forge pip 20.2.1 py_0 conda-forge pycparser 2.20 pyh9f0ad1d_2 conda-forge pyopenssl 19.1.0 py_1 conda-forge pyrsistent 0.16.0 py38h1e0a361_0 conda-forge pysocks 1.7.1 py38h32f6830_1 conda-forge python 3.8.5 h4d41432_2_cpython conda-forge python_abi 3.8 1_cp38 conda-forge readline 8.0 he28a2e2_2 conda-forge regrid2 3.1.5 pypi_0 pypi requests 2.24.0 pyh9f0ad1d_0 conda-forge setuptools 49.2.1 py38h32f6830_0 conda-forge six 1.15.0 pyh9f0ad1d_0 conda-forge sqlite 3.32.3 hcee41ef_1 conda-forge tk 8.6.10 hed695b0_0 conda-forge traitlets 4.3.3 py38h32f6830_1 conda-forge urllib3 1.25.10 py_0 conda-forge wheel 0.34.2 py_1 conda-forge xz 5.2.5 h516909a_1 conda-forge zipp 3.1.0 py_0 conda-forge zlib 1.2.11 h516909a_1006 conda-forge zstd 1.4.5 h6597ccf_2 conda-forge ```


Details about conda and system ( conda info ):

``` $ conda info active environment : test active env location : /home/xylar/miniconda3/envs/test shell level : 2 user config file : /home/xylar/.condarc populated config files : /home/xylar/.condarc conda version : 4.8.3 conda-build version : 3.19.2 python version : 3.7.6.final.0 virtual packages : __glibc=2.27 base environment : /home/xylar/miniconda3 (writable) channel URLs : https://conda.anaconda.org/conda-forge/linux-64 https://conda.anaconda.org/conda-forge/noarch https://repo.anaconda.com/pkgs/main/linux-64 https://repo.anaconda.com/pkgs/main/noarch https://repo.anaconda.com/pkgs/r/linux-64 https://repo.anaconda.com/pkgs/r/noarch package cache : /home/xylar/miniconda3/pkgs /home/xylar/.conda/pkgs envs directories : /home/xylar/miniconda3/envs /home/xylar/.conda/envs platform : linux-64 user-agent : conda/4.8.3 requests/2.24.0 CPython/3.7.6 Linux/4.15.0-1093-oem ubuntu/18.04.4 glibc/2.27 UID:GID : 1001:1001 netrc file : None offline mode : False ```
xylar commented 4 years ago

I believe this is likely a side effect of calling python setup.py install: https://github.com/conda-forge/cdms2-feedstock/blob/master/recipe/build.sh#L6 rather than the typical and recommended approach:

$PYTHON -m pip install --no-deps --ignore-installed .
xylar commented 2 years ago

This has been fixed. Presumably in conda itself:

$ conda create -y -n test python=3.9 cdms2
$ conda activate test
$ conda list
...
cdms2                     3.1.5           py39hdc79e2e_12    conda-forge