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.yml env installation failure due to pip problems #16

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KarlKaise opened this issue Apr 29, 2024 · 1 comment
Open

.yml env installation failure due to pip problems #16

KarlKaise opened this issue Apr 29, 2024 · 1 comment

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@KarlKaise
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KarlKaise commented Apr 29, 2024 •
edited
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Hello when I try to install the package using .yml file from git clone directory I get following error:

Looking for: ['python=3.8', 'pip', 'scanpy']

Transaction

Prefix:

Updating specs:

  • python=3.8
  • pip
  • scanpy

Package Version Build Channel Size
───────────────────────────────────────────────────────────────────────────────────────
Install:
───────────────────────────────────────────────────────────────────────────────────────

  • python_abi 3.8 4_cp38 conda-forge Cached
  • _libgcc_mutex 0.1 conda_forge conda-forge Cached
  • libstdcxx-ng 13.2.0 h95c4c6d_6 conda-forge Cached
  • ca-certificates 2024.2.2 hbcca054_0 conda-forge Cached
  • ld_impl_linux-64 2.40 h55db66e_0 conda-forge Cached
  • libgomp 13.2.0 hc881cc4_6 conda-forge Cached
  • _openmp_mutex 4.5 2_gnu conda-forge Cached
  • libgcc-ng 13.2.0 hc881cc4_6 conda-forge Cached
  • xorg-libxdmcp 1.1.3 h7f98852_0 conda-forge Cached
  • pthread-stubs 0.4 h36c2ea0_1001 conda-forge Cached
  • c-ares 1.28.1 hd590300_0 conda-forge Cached
  • libev 4.33 hd590300_2 conda-forge Cached
  • keyutils 1.6.1 h166bdaf_0 conda-forge Cached
  • libaec 1.1.3 h59595ed_0 conda-forge Cached
  • libiconv 1.17 hd590300_2 conda-forge Cached
  • libwebp-base 1.4.0 hd590300_0 conda-forge Cached
  • libbrotlicommon 1.1.0 hd590300_1 conda-forge Cached
  • libdeflate 1.20 hd590300_0 conda-forge Cached
  • lerc 4.0.0 h27087fc_0 conda-forge Cached
  • libjpeg-turbo 3.0.0 hd590300_1 conda-forge Cached
  • icu 73.2 h59595ed_0 conda-forge Cached
  • xorg-libxau 1.0.11 hd590300_0 conda-forge Cached
  • openssl 3.2.1 hd590300_1 conda-forge Cached
  • libxcrypt 4.4.36 hd590300_1 conda-forge Cached
  • libzlib 1.2.13 hd590300_5 conda-forge Cached
  • libffi 3.4.2 h7f98852_5 conda-forge Cached
  • bzip2 1.0.8 hd590300_5 conda-forge Cached
  • libgfortran5 13.2.0 h43f5ff8_6 conda-forge Cached
  • ncurses 6.4.20240210 h59595ed_0 conda-forge Cached
  • libuuid 2.38.1 h0b41bf4_0 conda-forge Cached
  • libnsl 2.0.1 hd590300_0 conda-forge Cached
  • xz 5.2.6 h166bdaf_0 conda-forge Cached
  • libbrotlienc 1.1.0 hd590300_1 conda-forge Cached
  • libbrotlidec 1.1.0 hd590300_1 conda-forge Cached
  • libxcb 1.15 h0b41bf4_0 conda-forge Cached
  • libnghttp2 1.58.0 h47da74e_1 conda-forge Cached
  • libssh2 1.11.0 h0841786_0 conda-forge Cached
  • zstd 1.5.5 hfc55251_0 conda-forge Cached
  • libllvm14 14.0.6 hcd5def8_4 conda-forge Cached
  • libpng 1.6.43 h2797004_0 conda-forge Cached
  • tk 8.6.13 noxft_h4845f30_101 conda-forge Cached
  • libsqlite 3.45.3 h2797004_0 conda-forge Cached
  • libgfortran-ng 13.2.0 h69a702a_6 conda-forge Cached
  • libedit 3.1.20191231 he28a2e2_2 conda-forge Cached
  • readline 8.2 h8228510_1 conda-forge Cached
  • libxml2 2.12.6 h232c23b_2 conda-forge Cached
  • brotli-bin 1.1.0 hd590300_1 conda-forge Cached
  • libtiff 4.6.0 h1dd3fc0_3 conda-forge Cached
  • freetype 2.12.1 h267a509_2 conda-forge Cached
  • libopenblas 0.3.25 pthreads_h413a1c8_0 conda-forge Cached
  • krb5 1.21.2 h659d440_0 conda-forge Cached
  • python 3.8.19 hd12c33a_0_cpython conda-forge Cached
  • libhwloc 2.10.0 default_h2fb2949_1000 conda-forge Cached
  • brotli 1.1.0 hd590300_1 conda-forge Cached
  • openjpeg 2.5.2 h488ebb8_0 conda-forge Cached
  • lcms2 2.16 hb7c19ff_0 conda-forge Cached
  • libblas 3.9.0 20_linux64_openblas conda-forge Cached
  • libcurl 8.7.1 hca28451_0 conda-forge Cached
  • tbb 2021.12.0 h00ab1b0_0 conda-forge Cached
  • libcblas 3.9.0 20_linux64_openblas conda-forge Cached
  • liblapack 3.9.0 20_linux64_openblas conda-forge Cached
  • hdf5 1.14.3 nompi_h4f84152_100 conda-forge Cached
  • wheel 0.43.0 pyhd8ed1ab_1 conda-forge Cached
  • setuptools 69.5.1 pyhd8ed1ab_0 conda-forge Cached
  • pip 24.0 pyhd8ed1ab_0 conda-forge Cached
  • pysocks 1.7.1 pyha2e5f31_6 conda-forge Cached
  • charset-normalizer 3.3.2 pyhd8ed1ab_0 conda-forge Cached
  • idna 3.7 pyhd8ed1ab_0 conda-forge Cached
  • cached_property 1.5.2 pyha770c72_1 conda-forge Cached
  • zipp 3.17.0 pyhd8ed1ab_0 conda-forge Cached
  • platformdirs 4.2.1 pyhd8ed1ab_0 conda-forge Cached
  • colorama 0.4.6 pyhd8ed1ab_0 conda-forge Cached
  • munkres 1.1.4 pyh9f0ad1d_0 conda-forge Cached
  • pyparsing 3.1.2 pyhd8ed1ab_0 conda-forge Cached
  • cycler 0.12.1 pyhd8ed1ab_0 conda-forge Cached
  • certifi 2024.2.2 pyhd8ed1ab_0 conda-forge Cached
  • pytz 2024.1 pyhd8ed1ab_0 conda-forge Cached
  • python-tzdata 2024.1 pyhd8ed1ab_0 conda-forge Cached
  • threadpoolctl 3.4.0 pyhc1e730c_0 conda-forge Cached
  • stdlib-list 0.10.0 pyhd8ed1ab_0 conda-forge Cached
  • six 1.16.0 pyh6c4a22f_0 conda-forge Cached
  • legacy-api-wrap 1.4 pyhd8ed1ab_1 conda-forge Cached
  • packaging 24.0 pyhd8ed1ab_0 conda-forge Cached
  • networkx 3.1 pyhd8ed1ab_0 conda-forge Cached
  • natsort 8.4.0 pyhd8ed1ab_0 conda-forge Cached
  • joblib 1.4.0 pyhd8ed1ab_0 conda-forge Cached
  • get-annotations 0.1.2 pyhd8ed1ab_0 conda-forge Cached
  • cached-property 1.5.2 hd8ed1ab_1 conda-forge Cached
  • importlib_resources 6.4.0 pyhd8ed1ab_0 conda-forge Cached
  • importlib-metadata 7.1.0 pyha770c72_0 conda-forge Cached
  • tqdm 4.66.2 pyhd8ed1ab_0 conda-forge Cached
  • session-info 1.0.0 pyhd8ed1ab_0 conda-forge Cached
  • python-dateutil 2.9.0 pyhd8ed1ab_0 conda-forge Cached
  • importlib-resources 6.4.0 pyhd8ed1ab_0 conda-forge Cached
  • brotli-python 1.1.0 py38h17151c0_1 conda-forge Cached
  • unicodedata2 15.1.0 py38h01eb140_0 conda-forge Cached
  • pillow 10.3.0 py38h9e66945_0 conda-forge Cached
  • kiwisolver 1.4.5 py38h7f3f72f_1 conda-forge Cached
  • numpy 1.24.4 py38h59b608b_0 conda-forge Cached
  • llvmlite 0.41.1 py38h94a1851_0 conda-forge Cached
  • fonttools 4.51.0 py38h01eb140_0 conda-forge Cached
  • contourpy 1.1.1 py38h7f3f72f_1 conda-forge Cached
  • pandas 2.0.3 py38h01efb38_1 conda-forge Cached
  • h5py 3.11.0 nompi_py38h2c1edd7_100 conda-forge Cached
  • numba 0.58.1 py38h4144172_0 conda-forge Cached
  • matplotlib-base 3.7.3 py38h58ed7fa_0 conda-forge Cached
  • urllib3 2.2.1 pyhd8ed1ab_0 conda-forge Cached
  • patsy 0.5.6 pyhd8ed1ab_0 conda-forge Cached
  • requests 2.31.0 pyhd8ed1ab_0 conda-forge Cached
  • pooch 1.8.1 pyhd8ed1ab_0 conda-forge Cached
  • scipy 1.10.1 py38h59b608b_3 conda-forge Cached
  • statsmodels 0.14.1 py38h7f0c24c_0 conda-forge Cached
  • scikit-learn 1.3.2 py38ha25d942_2 conda-forge Cached
  • seaborn-base 0.13.2 pyhd8ed1ab_0 conda-forge Cached
  • anndata 0.9.2 pyhd8ed1ab_0 conda-forge Cached
  • pynndescent 0.5.12 pyhca7485f_0 conda-forge Cached
  • seaborn 0.13.2 hd8ed1ab_0 conda-forge Cached
  • umap-learn 0.5.5 py38h578d9bd_1 conda-forge Cached
  • scanpy 1.10.1 pyhd8ed1ab_0 conda-forge Cached

Summary:

Install: 119 packages

Total download: 0 B

───────────────────────────────────────────────────────────────────────────────────────

Downloading and Extracting Packages:

Preparing transaction: done
Verifying transaction: done
Executing transaction: done
Installing pip dependencies: | Ran pip subprocess with arguments:

Requirement already satisfied: numpy in .requirements.txt (line 1)) (1.24.4)
Requirement already satisfied: pandas in vb.requirements.txt (line 2)) (2.0.3)

Pip subprocess error:
ERROR: Ignored the following versions that require a different python version: 1.25.0 Requires-Python >=3.9; 1.25.0rc1 Requires-Python >=3.9; 1.25.1 Requires-Python >=3.9; 1.25.2 Requires-Python >=3.9; 1.26.0 Requires-Python <3.13,>=3.9; 1.26.0b1 Requires-Python <3.13,>=3.9; 1.26.0rc1 Requires-Python <3.13,>=3.9; 1.26.1 Requires-Python <3.13,>=3.9; 1.26.2 Requires-Python >=3.9; 1.26.3 Requires-Python >=3.9; 1.26.4 Requires-Python >=3.9; 2.0.0b1 Requires-Python >=3.9; 2.0.0rc1 Requires-Python >=3.9; 2.1.0 Requires-Python >=3.9; 2.1.0rc0 Requires-Python >=3.9; 2.1.1 Requires-Python >=3.9; 2.1.2 Requires-Python >=3.9; 2.1.3 Requires-Python >=3.9; 2.1.4 Requires-Python >=3.9; 2.2.0 Requires-Python >=3.9; 2.2.0rc0 Requires-Python >=3.9; 2.2.1 Requires-Python >=3.9; 2.2.2 Requires-Python >=3.9
ERROR: Could not find a version that satisfies the requirement itertools (from versions: none)
ERROR: No matching distribution found for itertools
failed

Would be happy for any help.

Thanks
@BeverlyPeng
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Collaborator

I've updated the nsforest.yml file. I removed pip installation and included package versions. Let me know if this works!

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@BeverlyPeng @KarlKaise