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Error in Installing the package #47
Comments
I had similar issues, anaconda isn't smart enough for some reason to install everything with the same version of CUDA. Edit: The env should be python 3.9 to work with openfold I installed with these commands to get it to work on my end:
Removed pytorch-scatter from the requirements.txt
Needed for openfold to install correctly or else it will pull the system CUDA and will throw err if mismatched
Remove torch-scatter from requirements.txt or you'll get wrong version
|
Thanks for replying. I am using cuda version 12.3, should I downgrade my cuda version to 11.7 or it will work for it too. |
It might work, you can try just changing all the CUDA versions from 11.7 to 12.3. You might have to change other versions though see: Also my driver version is 12.3, the CUDA you install to anaconda just needs to be older than your driver as far as I understand. |
hey @ejmeitz !! (neuralplexer_dev) kinshuk@kinshuk-lab:~/Desktop/Anupam/NeuralPLexer$ neuralplexer-inference --task=batched_structure_sampling Can anyone suggest what to do. |
Yea I got this the first few times.... I'd look at That last line with pytorch3d I always got, so I'm guessing it somehow installed a CPU version for something. |
thanks!!! this worked for me :) |
Hi @ejmeitz, I tried your method and it all works well till it is trying to install openfold and gave the following error:
Any ideas on how I can resolve the problem? 😄 Best regards, |
Not exactly sure, its a little weird that the error is in the cpu part of torch. If you do |
I would say that torch has installed a GPU version (?) |
I think you need python 3.9 actually. OpenFold has that as a requirement and my env is also 3.9 but you have 3.10. Hopefully that works. |
Description
I am installing the package using commands in the tutorial but got stuck while using make environment.
I have changed the make file where the creating the conda environment command, I have just replaced the --force argument with the --yes argument as --force was deprecated, and then when I ran the make Environment command I got the following error
commands passed : git clone https://github.com/zrqiao/NeuralPLexer.git
cd NeuralPLexer/
make environment
make install
output:
conda env create -f environment_dev.yaml --yes
Channels:
Platform: linux-64
Collecting package metadata (repodata.json): done
Solving environment: done
Downloading and Extracting Packages:
Preparing transaction: done
Verifying transaction: done
Executing transaction: | By downloading and using the CUDA Toolkit conda packages, you accept the terms and conditions of the CUDA End User License Agreement (EULA): https://docs.nvidia.com/cuda/eula/index.html
https://docs.nvidia.com/deeplearning/cudnn/sla/index.html
done
Installing pip dependencies: | Ran pip subprocess with arguments:
['/home/kinshuk/anaconda3/envs/neuralplexer_dev/bin/python', '-m', 'pip', 'install', '-U', '-r', '/home/kinshuk/Desktop/Anupam/NeuralPLexer/condaenv.2z4xf534.requirements.txt', '--exists-action=b']
Pip subprocess output:
Collecting DLLogger@ git+https://github.com/NVIDIA/dllogger.git@0540a43971f4a8a16693a9de9de73c1072020769 (from -r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 5))
Cloning https://github.com/NVIDIA/dllogger.git (to revision 0540a43971f4a8a16693a9de9de73c1072020769) to /tmp/pip-install-zog7c0p5/dllogger_10bd098947a7461ba2251987772bb861
Resolved https://github.com/NVIDIA/dllogger.git to commit 0540a43971f4a8a16693a9de9de73c1072020769
Preparing metadata (setup.py): started
Preparing metadata (setup.py): finished with status 'done'
Collecting openfold@ git+https://github.com/aqlaboratory/openfold.git@103d0370ad9ce07579c20fa9c889a632f9b16618 (from -r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 6))
Cloning https://github.com/aqlaboratory/openfold.git (to revision 103d0370ad9ce07579c20fa9c889a632f9b16618) to /tmp/pip-install-zog7c0p5/openfold_608d1ba829ff41fe96a07c2107ff450c
Resolved https://github.com/aqlaboratory/openfold.git to commit 103d0370ad9ce07579c20fa9c889a632f9b16618
Preparing metadata (setup.py): started
Preparing metadata (setup.py): finished with status 'done'
Collecting power-spherical@ git+https://****@github.com/zrqiao/power_spherical.git@290b1630c5f84e3bb0d61711046edcf6e47200d4 (from -r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 7))
Using cached power_spherical-0.1.0-py3-none-any.whl
Collecting fair-esm@ git+https://github.com/facebookresearch/esm@57da016e5d740a9ac5bcf62c3689a42e88584bc (from -r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 8))
Cloning https://github.com/facebookresearch/esm (to revision 57da016e5d740a9ac5bcf62c3689a42e88584bc) to /tmp/pip-install-zog7c0p5/fair-esm_a8fa202659b046c58d3af794d5d4f214
Resolved https://github.com/facebookresearch/esm to commit 57da016e5d740a9ac5bcf62c3689a42e88584bc
Installing build dependencies: started
Installing build dependencies: finished with status 'done'
Getting requirements to build wheel: started
Getting requirements to build wheel: finished with status 'done'
Installing backend dependencies: started
Installing backend dependencies: finished with status 'done'
Preparing metadata (pyproject.toml): started
Preparing metadata (pyproject.toml): finished with status 'done'
Collecting pytorch-lightning<2.0.0 (from -r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1))
Using cached pytorch_lightning-1.9.5-py3-none-any.whl.metadata (23 kB)
Requirement already satisfied: torch-scatter in /home/kinshuk/.local/lib/python3.10/site-packages (from -r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 2)) (2.1.2+pt20cu117)
Collecting fairscale (from -r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 3))
Using cached fairscale-0.4.13-py3-none-any.whl
Collecting mendeleev (from -r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 4))
Using cached mendeleev-0.16.2-py3-none-any.whl.metadata (19 kB)
Requirement already satisfied: seaborn in /home/kinshuk/.local/lib/python3.10/site-packages (from -r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 9)) (0.12.2)
Collecting seaborn (from -r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 9))
Using cached seaborn-0.13.2-py3-none-any.whl.metadata (5.4 kB)
Requirement already satisfied: numpy>=1.17.2 in /home/kinshuk/.local/lib/python3.10/site-packages (from pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (1.24.3)
Requirement already satisfied: torch>=1.10.0 in /home/kinshuk/.local/lib/python3.10/site-packages (from pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (1.13.1)
Requirement already satisfied: tqdm>=4.57.0 in /home/kinshuk/.local/lib/python3.10/site-packages (from pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (4.64.1)
Requirement already satisfied: PyYAML>=5.4 in /home/kinshuk/anaconda3/envs/neuralplexer_dev/lib/python3.10/site-packages (from pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (6.0.1)
Requirement already satisfied: fsspec>2021.06.0 in /home/kinshuk/.local/lib/python3.10/site-packages (from fsspec[http]>2021.06.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (2023.9.0)
Requirement already satisfied: torchmetrics>=0.7.0 in /home/kinshuk/.local/lib/python3.10/site-packages (from pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (1.1.2)
Requirement already satisfied: packaging>=17.1 in /home/kinshuk/.local/lib/python3.10/site-packages (from pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (23.0)
Requirement already satisfied: typing-extensions>=4.0.0 in /home/kinshuk/.local/lib/python3.10/site-packages (from pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (4.9.0)
Requirement already satisfied: lightning-utilities>=0.6.0.post0 in /home/kinshuk/.local/lib/python3.10/site-packages (from pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (0.9.0)
Requirement already satisfied: Pygments<3.0.0,>=2.11.2 in /home/kinshuk/.local/lib/python3.10/site-packages (from mendeleev->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 4)) (2.14.0)
Requirement already satisfied: SQLAlchemy>=1.4.0 in /home/kinshuk/.local/lib/python3.10/site-packages (from mendeleev->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 4)) (2.0.24)
Requirement already satisfied: colorama<0.5.0,>=0.4.6 in /home/kinshuk/anaconda3/envs/neuralplexer_dev/lib/python3.10/site-packages (from mendeleev->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 4)) (0.4.6)
Requirement already satisfied: pandas>=1.0.0 in /home/kinshuk/.local/lib/python3.10/site-packages (from mendeleev->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 4)) (1.5.3)
Collecting pyfiglet<0.9,>=0.8.post1 (from mendeleev->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 4))
Using cached pyfiglet-0.8.post1-py2.py3-none-any.whl.metadata (1.3 kB)
Requirement already satisfied: matplotlib!=3.6.1,>=3.4 in /home/kinshuk/.local/lib/python3.10/site-packages (from seaborn->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 9)) (3.7.0)
Requirement already satisfied: requests in /home/kinshuk/.local/lib/python3.10/site-packages (from fsspec[http]>2021.06.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (2.31.0)
Requirement already satisfied: aiohttp!=4.0.0a0,!=4.0.0a1 in /home/kinshuk/.local/lib/python3.10/site-packages (from fsspec[http]>2021.06.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (3.8.5)
Requirement already satisfied: contourpy>=1.0.1 in /home/kinshuk/.local/lib/python3.10/site-packages (from matplotlib!=3.6.1,>=3.4->seaborn->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 9)) (1.0.7)
Requirement already satisfied: cycler>=0.10 in /home/kinshuk/.local/lib/python3.10/site-packages (from matplotlib!=3.6.1,>=3.4->seaborn->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 9)) (0.11.0)
Requirement already satisfied: fonttools>=4.22.0 in /home/kinshuk/.local/lib/python3.10/site-packages (from matplotlib!=3.6.1,>=3.4->seaborn->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 9)) (4.38.0)
Requirement already satisfied: kiwisolver>=1.0.1 in /home/kinshuk/.local/lib/python3.10/site-packages (from matplotlib!=3.6.1,>=3.4->seaborn->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 9)) (1.4.4)
Requirement already satisfied: pillow>=6.2.0 in /home/kinshuk/anaconda3/envs/neuralplexer_dev/lib/python3.10/site-packages (from matplotlib!=3.6.1,>=3.4->seaborn->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 9)) (10.3.0)
Requirement already satisfied: pyparsing>=2.3.1 in /home/kinshuk/anaconda3/envs/neuralplexer_dev/lib/python3.10/site-packages (from matplotlib!=3.6.1,>=3.4->seaborn->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 9)) (3.1.2)
Requirement already satisfied: python-dateutil>=2.7 in /home/kinshuk/.local/lib/python3.10/site-packages (from matplotlib!=3.6.1,>=3.4->seaborn->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 9)) (2.8.2)
Requirement already satisfied: pytz>=2020.1 in /home/kinshuk/anaconda3/envs/neuralplexer_dev/lib/python3.10/site-packages (from pandas>=1.0.0->mendeleev->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 4)) (2024.1)
Requirement already satisfied: greenlet!=0.4.17 in /home/kinshuk/.local/lib/python3.10/site-packages (from SQLAlchemy>=1.4.0->mendeleev->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 4)) (3.0.3)
Requirement already satisfied: nvidia-cuda-runtime-cu11==11.7.99 in /home/kinshuk/.local/lib/python3.10/site-packages (from torch>=1.10.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (11.7.99)
Requirement already satisfied: nvidia-cudnn-cu11==8.5.0.96 in /home/kinshuk/.local/lib/python3.10/site-packages (from torch>=1.10.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (8.5.0.96)
Requirement already satisfied: nvidia-cublas-cu11==11.10.3.66 in /home/kinshuk/.local/lib/python3.10/site-packages (from torch>=1.10.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (11.10.3.66)
Requirement already satisfied: nvidia-cuda-nvrtc-cu11==11.7.99 in /home/kinshuk/.local/lib/python3.10/site-packages (from torch>=1.10.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (11.7.99)
Requirement already satisfied: setuptools in /home/kinshuk/.local/lib/python3.10/site-packages (from nvidia-cublas-cu11==11.10.3.66->torch>=1.10.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (63.4.3)
Requirement already satisfied: wheel in /home/kinshuk/anaconda3/envs/neuralplexer_dev/lib/python3.10/site-packages (from nvidia-cublas-cu11==11.10.3.66->torch>=1.10.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (0.43.0)
Requirement already satisfied: attrs>=17.3.0 in /home/kinshuk/.local/lib/python3.10/site-packages (from aiohttp!=4.0.0a0,!=4.0.0a1->fsspec[http]>2021.06.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (23.1.0)
Requirement already satisfied: charset-normalizer<4.0,>=2.0 in /home/kinshuk/anaconda3/envs/neuralplexer_dev/lib/python3.10/site-packages (from aiohttp!=4.0.0a0,!=4.0.0a1->fsspec[http]>2021.06.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (3.3.2)
Requirement already satisfied: multidict<7.0,>=4.5 in /home/kinshuk/.local/lib/python3.10/site-packages (from aiohttp!=4.0.0a0,!=4.0.0a1->fsspec[http]>2021.06.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (6.0.4)
Requirement already satisfied: async-timeout<5.0,>=4.0.0a3 in /home/kinshuk/.local/lib/python3.10/site-packages (from aiohttp!=4.0.0a0,!=4.0.0a1->fsspec[http]>2021.06.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (4.0.3)
Requirement already satisfied: yarl<2.0,>=1.0 in /home/kinshuk/.local/lib/python3.10/site-packages (from aiohttp!=4.0.0a0,!=4.0.0a1->fsspec[http]>2021.06.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (1.9.2)
Requirement already satisfied: frozenlist>=1.1.1 in /home/kinshuk/.local/lib/python3.10/site-packages (from aiohttp!=4.0.0a0,!=4.0.0a1->fsspec[http]>2021.06.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (1.4.0)
Requirement already satisfied: aiosignal>=1.1.2 in /home/kinshuk/.local/lib/python3.10/site-packages (from aiohttp!=4.0.0a0,!=4.0.0a1->fsspec[http]>2021.06.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (1.3.1)
Requirement already satisfied: six>=1.5 in /home/kinshuk/anaconda3/envs/neuralplexer_dev/lib/python3.10/site-packages (from python-dateutil>=2.7->matplotlib!=3.6.1,>=3.4->seaborn->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 9)) (1.16.0)
Requirement already satisfied: idna<4,>=2.5 in /home/kinshuk/anaconda3/envs/neuralplexer_dev/lib/python3.10/site-packages (from requests->fsspec[http]>2021.06.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (3.7)
Requirement already satisfied: urllib3<3,>=1.21.1 in /home/kinshuk/anaconda3/envs/neuralplexer_dev/lib/python3.10/site-packages (from requests->fsspec[http]>2021.06.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (2.2.1)
Requirement already satisfied: certifi>=2017.4.17 in /home/kinshuk/anaconda3/envs/neuralplexer_dev/lib/python3.10/site-packages (from requests->fsspec[http]>2021.06.0->pytorch-lightning<2.0.0->-r /home/kinshuk/Desktop/Anupam/NeuralPLexer/requirements.txt (line 1)) (2024.2.2)
Using cached pytorch_lightning-1.9.5-py3-none-any.whl (829 kB)
Using cached mendeleev-0.16.2-py3-none-any.whl (353 kB)
Using cached seaborn-0.13.2-py3-none-any.whl (294 kB)
Using cached pyfiglet-0.8.post1-py2.py3-none-any.whl (865 kB)
Building wheels for collected packages: openfold, fair-esm
Building wheel for openfold (setup.py): started
Building wheel for openfold (setup.py): finished with status 'error'
Running setup.py clean for openfold
Building wheel for fair-esm (pyproject.toml): started
Building wheel for fair-esm (pyproject.toml): finished with status 'done'
Created wheel for fair-esm: filename=fair_esm-2.0.1-py3-none-any.whl size=95476 sha256=fdb2c54969377d9547c9a5d7e43f3a7f735e2c851e5a532c9dc3f663446d5642
Stored in directory: /tmp/pip-ephem-wheel-cache-pn0e_5jr/wheels/c3/14/10/35edcfc6a0e8958b1a19ca6669a28a7972b72691f2f717fb08
Successfully built fair-esm
Failed to build openfold
Pip subprocess error:
Running command git clone --filter=blob:none --quiet https://github.com/NVIDIA/dllogger.git /tmp/pip-install-zog7c0p5/dllogger_10bd098947a7461ba2251987772bb861
Running command git rev-parse -q --verify 'sha^0540a43971f4a8a16693a9de9de73c1072020769'
Running command git fetch -q https://github.com/NVIDIA/dllogger.git 0540a43971f4a8a16693a9de9de73c1072020769
Running command git clone --filter=blob:none --quiet https://github.com/aqlaboratory/openfold.git /tmp/pip-install-zog7c0p5/openfold_608d1ba829ff41fe96a07c2107ff450c
Running command git rev-parse -q --verify 'sha^103d0370ad9ce07579c20fa9c889a632f9b16618'
Running command git fetch -q https://github.com/aqlaboratory/openfold.git 103d0370ad9ce07579c20fa9c889a632f9b16618
Running command git checkout -q 103d0370ad9ce07579c20fa9c889a632f9b16618
Running command git clone --filter=blob:none --quiet https://github.com/facebookresearch/esm /tmp/pip-install-zog7c0p5/fair-esm_a8fa202659b046c58d3af794d5d4f214
WARNING: Did not find branch or tag '57da016e5d740a9ac5bcf62c3689a42e88584bc', assuming revision or ref.
Running command git checkout -q 57da016e5d740a9ac5bcf62c3689a42e88584bc
error: subprocess-exited-with-error
× python setup.py bdist_wheel did not run successfully.
│ exit code: 1
╰─> [168 lines of output]
running bdist_wheel
running build
running build_py
creating build
creating build/lib.linux-x86_64-cpython-310
creating build/lib.linux-x86_64-cpython-310/openfold
copying openfold/config.py -> build/lib.linux-x86_64-cpython-310/openfold
copying openfold/init.py -> build/lib.linux-x86_64-cpython-310/openfold
creating build/lib.linux-x86_64-cpython-310/openfold/model
copying openfold/model/msa.py -> build/lib.linux-x86_64-cpython-310/openfold/model
copying openfold/model/triangular_multiplicative_update.py -> build/lib.linux-x86_64-cpython-310/openfold/model
copying openfold/model/template.py -> build/lib.linux-x86_64-cpython-310/openfold/model
copying openfold/model/dropout.py -> build/lib.linux-x86_64-cpython-310/openfold/model
copying openfold/model/evoformer.py -> build/lib.linux-x86_64-cpython-310/openfold/model
copying openfold/model/structure_module.py -> build/lib.linux-x86_64-cpython-310/openfold/model
copying openfold/model/pair_transition.py -> build/lib.linux-x86_64-cpython-310/openfold/model
copying openfold/model/primitives.py -> build/lib.linux-x86_64-cpython-310/openfold/model
copying openfold/model/outer_product_mean.py -> build/lib.linux-x86_64-cpython-310/openfold/model
copying openfold/model/heads.py -> build/lib.linux-x86_64-cpython-310/openfold/model
copying openfold/model/init.py -> build/lib.linux-x86_64-cpython-310/openfold/model
copying openfold/model/embedders.py -> build/lib.linux-x86_64-cpython-310/openfold/model
copying openfold/model/model.py -> build/lib.linux-x86_64-cpython-310/openfold/model
copying openfold/model/triangular_attention.py -> build/lib.linux-x86_64-cpython-310/openfold/model
copying openfold/model/torchscript.py -> build/lib.linux-x86_64-cpython-310/openfold/model
creating build/lib.linux-x86_64-cpython-310/openfold/resources
copying openfold/resources/init.py -> build/lib.linux-x86_64-cpython-310/openfold/resources
creating build/lib.linux-x86_64-cpython-310/openfold/data
copying openfold/data/templates.py -> build/lib.linux-x86_64-cpython-310/openfold/data
copying openfold/data/data_transforms.py -> build/lib.linux-x86_64-cpython-310/openfold/data
copying openfold/data/feature_pipeline.py -> build/lib.linux-x86_64-cpython-310/openfold/data
copying openfold/data/mmcif_parsing.py -> build/lib.linux-x86_64-cpython-310/openfold/data
copying openfold/data/init.py -> build/lib.linux-x86_64-cpython-310/openfold/data
copying openfold/data/input_pipeline.py -> build/lib.linux-x86_64-cpython-310/openfold/data
copying openfold/data/parsers.py -> build/lib.linux-x86_64-cpython-310/openfold/data
copying openfold/data/data_pipeline.py -> build/lib.linux-x86_64-cpython-310/openfold/data
copying openfold/data/data_modules.py -> build/lib.linux-x86_64-cpython-310/openfold/data
copying openfold/data/errors.py -> build/lib.linux-x86_64-cpython-310/openfold/data
creating build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/exponential_moving_average.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/lr_schedulers.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/trace_utils.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/superimposition.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/tensor_utils.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/loss.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/import_weights.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/script_utils.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/suppress_output.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/validation_metrics.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/init.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/feats.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/precision_utils.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/callbacks.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/checkpointing.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/seed.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/rigid_utils.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/logger.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/argparse.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
copying openfold/utils/chunk_utils.py -> build/lib.linux-x86_64-cpython-310/openfold/utils
creating build/lib.linux-x86_64-cpython-310/openfold/np
copying openfold/np/residue_constants.py -> build/lib.linux-x86_64-cpython-310/openfold/np
copying openfold/np/init.py -> build/lib.linux-x86_64-cpython-310/openfold/np
copying openfold/np/protein.py -> build/lib.linux-x86_64-cpython-310/openfold/np
creating build/lib.linux-x86_64-cpython-310/openfold/data/tools
copying openfold/data/tools/utils.py -> build/lib.linux-x86_64-cpython-310/openfold/data/tools
copying openfold/data/tools/init.py -> build/lib.linux-x86_64-cpython-310/openfold/data/tools
copying openfold/data/tools/kalign.py -> build/lib.linux-x86_64-cpython-310/openfold/data/tools
copying openfold/data/tools/hhsearch.py -> build/lib.linux-x86_64-cpython-310/openfold/data/tools
copying openfold/data/tools/jackhmmer.py -> build/lib.linux-x86_64-cpython-310/openfold/data/tools
copying openfold/data/tools/hhblits.py -> build/lib.linux-x86_64-cpython-310/openfold/data/tools
creating build/lib.linux-x86_64-cpython-310/openfold/utils/kernel
copying openfold/utils/kernel/attention_core.py -> build/lib.linux-x86_64-cpython-310/openfold/utils/kernel
copying openfold/utils/kernel/init.py -> build/lib.linux-x86_64-cpython-310/openfold/utils/kernel
creating build/lib.linux-x86_64-cpython-310/openfold/np/relax
copying openfold/np/relax/amber_minimize.py -> build/lib.linux-x86_64-cpython-310/openfold/np/relax
copying openfold/np/relax/utils.py -> build/lib.linux-x86_64-cpython-310/openfold/np/relax
copying openfold/np/relax/init.py -> build/lib.linux-x86_64-cpython-310/openfold/np/relax
copying openfold/np/relax/relax.py -> build/lib.linux-x86_64-cpython-310/openfold/np/relax
copying openfold/np/relax/cleanup.py -> build/lib.linux-x86_64-cpython-310/openfold/np/relax
running egg_info
creating openfold.egg-info
writing openfold.egg-info/PKG-INFO
writing dependency_links to openfold.egg-info/dependency_links.txt
writing top-level names to openfold.egg-info/top_level.txt
writing manifest file 'openfold.egg-info/SOURCES.txt'
reading manifest file 'openfold.egg-info/SOURCES.txt'
adding license file 'LICENSE'
writing manifest file 'openfold.egg-info/SOURCES.txt'
/home/kinshuk/.local/lib/python3.10/site-packages/setuptools/command/build_py.py:153: SetuptoolsDeprecationWarning: Installing 'openfold.utils.kernel.csrc' as data is deprecated, please list it in
packages
.!!
note: This error originates from a subprocess, and is likely not a problem with pip.
ERROR: Failed building wheel for openfold
ERROR: Could not build wheels for openfold, which is required to install pyproject.toml-based projects
failed
CondaEnvException: Pip failed
make: *** [Makefile:87: environment] Error 1
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