Conflicts During Installation

[chekirou]

🐛 Bugs / Unexpected behaviors

Hi, I am trying to install pytorch3d on Linux but I get a conflict issue when following the steps described in the install.md file. I also tried the fix on this issue but it didn't fix it.
Thank you in advance for your help.

Instructions To Reproduce the Issue:

Please include the following (depending on what the issue is):
I ran the following commands (the ones form install.md file):

conda create -n pytorch3d python=3.9
conda activate pytorch3d
conda install -c pytorch pytorch=1.9.1 torchvision cudatoolkit=10.2
conda install -c fvcore -c iopath -c conda-forge fvcore iopath
conda install -c bottler nvidiacub
conda install jupyter
pip install scikit-image matplotlib imageio plotly opencv-python
pip install black 'isort<5' flake8 flake8-bugbear flake8-comprehensions
conda install pytorch3d -c pytorch3d

I also tried the following commands from this issue :

conda create --name quick_test_env python=3.8
conda activate quick_test_env
conda install numpy pillow matplotlib
conda install -c conda-forge opencv
conda install pytorch=1.10.0 torchvision torchaudio cudatoolkit=11.3 -c pytorch -c conda-forge
conda install -c fvcore -c iopath -c conda-forge fvcore iopath
conda install -c pytorch3d pytorch3d

3. What you observed (including the full logs):
   When i run the commands in the installation tutorial i get this error at the command :

conda install pytorch3d -c pytorch3d

The following specifications were found to be incompatible with your system:

  - feature:/linux-64::__glibc==2.27=0
  - feature:|@/linux-64::__glibc==2.27=0
  - argon2-cffi -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - argon2-cffi-bindings -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - cffi -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - cudatoolkit=10.2 -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - dbus -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - debugpy -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - expat -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - fontconfig -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - freetype -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - giflib -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - glib -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - gst-plugins-base -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - gstreamer -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - icu -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - jpeg -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - lcms2 -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - libffi -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - libgcc-ng -> __glibc[version='>=2.17']
  - libpng -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - libsodium -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - libstdcxx-ng -> __glibc[version='>=2.17']
  - libtiff -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - libuuid -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - libuv -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - libwebp -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - libwebp-base -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - libxcb -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - libxml2 -> libgcc-ng[version='>=9.3.0'] -> __glibc[version='>=2.17']
  - lz4-c -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - markupsafe -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - mistune -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - mkl-service -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - mkl_fft -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - mkl_random -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - ncurses -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - ninja -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - numpy -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - numpy-base -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - openssl -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - pcre -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - pillow -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - pyqt -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - pyrsistent -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - python=3.9 -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - pyyaml -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - pyzmq -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - qt -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - readline -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - sip -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - sqlite -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - tk -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - torchvision -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - tornado -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - xz -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - yaml -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - zeromq -> libgcc-ng[version='>=7.3.0'] -> __glibc[version='>=2.17']
  - zlib -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']
  - zstd -> libgcc-ng[version='>=7.5.0'] -> __glibc[version='>=2.17']

Your installed version is: 2.27

For the commands form the issue, when i run :

conda install pytorch=1.10.0 torchvision torchaudio cudatoolkit=11.3 -c pytorch -c conda-forge

I get the following :

Collecting package metadata (current_repodata.json): done
Solving environment: failed with initial frozen solve. Retrying with flexible solve.
Solving environment: done
Collecting package metadata (repodata.json): done
Solving environment: failed with initial frozen solve. Retrying with flexible solve.
Solving environment: / 

And it keeps running Solving environment for more than an hour before i stop manually.

[bottler]

Let's focus on the original. The commands should have worked, and in particular this subset should work

conda create -n pytorch3d python=3.9
conda activate pytorch3d
conda install -c pytorch pytorch=1.9.1 torchvision cudatoolkit=10.2
conda install -c fvcore -c iopath -c conda-forge fvcore iopath
conda install pytorch3d -c pytorch3d

You say the last command fails. Can you paste the output of conda info and conda list (in an environment with these commands, or in the first trial's environment)?

[chekirou]

I ran those commands in a new environment.
The output of conda info :

     active environment : pytorch3d
    active env location : /home/chekirou/anaconda3/envs/pytorch3d
            shell level : 2
       user config file : /home/chekirou/.condarc
 populated config files : 
          conda version : 4.12.0
    conda-build version : 3.21.8
         python version : 3.9.7.final.0
       virtual packages : __cuda=11.6=0
                          __linux=5.4.0=0
                          __glibc=2.27=0
                          __unix=0=0
                          __archspec=1=x86_64
       base environment : /home/chekirou/anaconda3  (writable)
      conda av data dir : /home/chekirou/anaconda3/etc/conda
  conda av metadata url : None
           channel URLs : 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/chekirou/anaconda3/pkgs
                          /home/chekirou/.conda/pkgs
       envs directories : /home/chekirou/anaconda3/envs
                          /home/chekirou/.conda/envs
               platform : linux-64
             user-agent : conda/4.12.0 requests/2.26.0 CPython/3.9.7 Linux/5.4.0-105-generic ubuntu/18.04.6 glibc/2.27
                UID:GID : 1000:1000
             netrc file : None
           offline mode : False

output of conda list :

# packages in environment at /home/chekirou/anaconda3/envs/pytorch3d:
#
# Name                    Version                   Build  Channel
_libgcc_mutex             0.1                        main  
_openmp_mutex             4.5                       1_gnu  
blas                      1.0                         mkl  
ca-certificates           2021.10.8            ha878542_0    conda-forge
certifi                   2021.10.8        py39hf3d152e_1    conda-forge
colorama                  0.4.4              pyh9f0ad1d_0    conda-forge
cudatoolkit               10.2.89              hfd86e86_1  
freetype                  2.11.0               h70c0345_0  
fvcore                    0.1.5.post20220305    pyhd8ed1ab_0    conda-forge
giflib                    5.2.1                h7b6447c_0  
intel-openmp              2021.4.0          h06a4308_3561  
iopath                    0.1.9                      py39    iopath
jpeg                      9d                   h7f8727e_0  
lcms2                     2.12                 h3be6417_0  
ld_impl_linux-64          2.35.1               h7274673_9  
libffi                    3.3                  he6710b0_2  
libgcc-ng                 9.3.0               h5101ec6_17  
libgomp                   9.3.0               h5101ec6_17  
libpng                    1.6.37               hbc83047_0  
libstdcxx-ng              9.3.0               hd4cf53a_17  
libtiff                   4.2.0                h85742a9_0  
libuv                     1.40.0               h7b6447c_0  
libwebp                   1.2.2                h55f646e_0  
libwebp-base              1.2.2                h7f8727e_0  
lz4-c                     1.9.3                h295c915_1  
mkl                       2021.4.0           h06a4308_640  
mkl-service               2.4.0            py39h7f8727e_0  
mkl_fft                   1.3.1            py39hd3c417c_0  
mkl_random                1.2.2            py39h51133e4_0  
ncurses                   6.3                  h7f8727e_2  
ninja                     1.10.2           py39hd09550d_3  
numpy                     1.21.2           py39h20f2e39_0  
numpy-base                1.21.2           py39h79a1101_0  
openssl                   1.1.1n               h7f8727e_0  
pillow                    9.0.1            py39h22f2fdc_0  
pip                       21.2.4           py39h06a4308_0  
portalocker               2.4.0            py39hf3d152e_0    conda-forge
python                    3.9.7                h12debd9_1  
python_abi                3.9                      2_cp39    conda-forge
pytorch                   1.9.1           py3.9_cuda10.2_cudnn7.6.5_0    pytorch
pyyaml                    5.4.1            py39h3811e60_0    conda-forge
readline                  8.1.2                h7f8727e_1  
setuptools                58.0.4           py39h06a4308_0  
six                       1.16.0             pyhd3eb1b0_1  
sqlite                    3.38.0               hc218d9a_0  
tabulate                  0.8.9              pyhd8ed1ab_0    conda-forge
termcolor                 1.1.0                      py_2    conda-forge
tk                        8.6.11               h1ccaba5_0  
torchvision               0.2.2                      py_3    pytorch
tqdm                      4.63.1             pyhd8ed1ab_0    conda-forge
typing_extensions         4.1.1              pyh06a4308_0  
tzdata                    2021e                hda174b7_0  
wheel                     0.37.1             pyhd3eb1b0_0  
xz                        5.2.5                h7b6447c_0  
yacs                      0.1.8              pyhd8ed1ab_0    conda-forge
yaml                      0.2.5                h516909a_0    conda-forge
zlib                      1.2.11               h7f8727e_4  
zstd                      1.4.9                haebb681_0  

[bottler]

Something strange is happening with the pytorch/torchvision installation. You got torchvision version 0.2.2, which is really old, and I don't understand why. I can replicate it myself. Every pytorch3d package requires torchvision 0.5 or higher. Basically conda install -c pytorch pytorch=1.9.1 torchvision cudatoolkit=10.2 is not finding torchvision properly, but used to.

Using PyTorch 1.10.0 seems to work, after which a nightly build of pytorch3d works

conda install -c pytorch pytorch=1.10.0 torchvision cudatoolkit=10.2 -c conda-forge

[chekirou]

Thank you very much for your help, it works now.