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environment.yml
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environment.yml
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name: dna
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- _libgcc_mutex=0.1=conda_forge
- _openmp_mutex=4.5=2_gnu
- asttokens=2.4.1=pyhd8ed1ab_0
- backcall=0.2.0=pyh9f0ad1d_0
- bzip2=1.0.8=h4bc722e_7
- ca-certificates=2024.7.4=hbcca054_0
- certifi=2024.7.4=pyhd8ed1ab_0
- comm=0.2.2=pyhd8ed1ab_0
- debugpy=1.8.2=py38h854fd01_0
- decorator=5.1.1=pyhd8ed1ab_0
- executing=2.0.1=pyhd8ed1ab_0
- importlib-metadata=8.0.0=pyha770c72_0
- importlib_metadata=8.0.0=hd8ed1ab_0
- ipykernel=6.29.5=pyh3099207_0
- ipython=8.12.2=pyh41d4057_0
- jedi=0.19.1=pyhd8ed1ab_0
- jupyter_client=8.6.2=pyhd8ed1ab_0
- jupyter_core=5.7.2=py38h578d9bd_0
- keyutils=1.6.1=h166bdaf_0
- krb5=1.21.3=h659f571_0
- ld_impl_linux-64=2.40=hf3520f5_7
- libedit=3.1.20191231=he28a2e2_2
- libffi=3.4.4=h6a678d5_1
- libgcc-ng=14.1.0=h77fa898_0
- libgomp=14.1.0=h77fa898_0
- libnsl=2.0.1=hd590300_0
- libsodium=1.0.18=h36c2ea0_1
- libsqlite=3.46.0=hde9e2c9_0
- libstdcxx-ng=14.1.0=hc0a3c3a_0
- libuuid=2.38.1=h0b41bf4_0
- libxcrypt=4.4.36=hd590300_1
- libzlib=1.2.13=h4ab18f5_6
- matplotlib-inline=0.1.7=pyhd8ed1ab_0
- ncurses=6.5=h59595ed_0
- nest-asyncio=1.6.0=pyhd8ed1ab_0
- openssl=3.3.1=h4bc722e_2
- packaging=24.1=pyhd8ed1ab_0
- parso=0.8.4=pyhd8ed1ab_0
- pexpect=4.9.0=pyhd8ed1ab_0
- pickleshare=0.7.5=py_1003
- pip=24.0=pyhd8ed1ab_0
- platformdirs=4.2.2=pyhd8ed1ab_0
- prompt-toolkit=3.0.47=pyha770c72_0
- prompt_toolkit=3.0.47=hd8ed1ab_0
- psutil=6.0.0=py38hfb59056_0
- ptyprocess=0.7.0=pyhd3deb0d_0
- pure_eval=0.2.2=pyhd8ed1ab_0
- pygments=2.18.0=pyhd8ed1ab_0
- python=3.8.19=hd12c33a_0_cpython
- python_abi=3.8=4_cp38
- pyzmq=26.0.3=py38ha44f8e3_0
- readline=8.2=h8228510_1
- setuptools=71.0.3=pyhd8ed1ab_0
- six=1.16.0=pyh6c4a22f_0
- sqlite=3.46.0=h6d4b2fc_0
- stack_data=0.6.2=pyhd8ed1ab_0
- tk=8.6.14=h39e8969_0
- tornado=6.4.1=py38hfb59056_0
- traitlets=5.14.3=pyhd8ed1ab_0
- typing_extensions=4.12.2=pyha770c72_0
- wcwidth=0.2.13=pyhd8ed1ab_0
- wheel=0.43.0=pyhd8ed1ab_1
- xz=5.4.6=h5eee18b_1
- zeromq=4.3.5=h75354e8_4
- zipp=3.19.2=pyhd8ed1ab_0
- zlib=1.2.13=h4ab18f5_6
- pip:
- absl-py==2.1.0
- accelerate==0.32.1
- aiohttp==3.9.5
- aiosignal==1.3.1
- annotated-types==0.7.0
- antlr4-python3-runtime==4.9.3
- async-timeout==4.0.3
- attrs==23.2.0
- beautifulsoup4==4.12.3
- biopython==1.83
- cachetools==5.3.3
- charset-normalizer==3.3.2
- click==8.1.7
- cmake==3.29.6
- datasets==2.16.0
- deepspeed==0.14.4
- dill==0.3.7
- docker-pycreds==0.4.0
- dropout-layer-norm==0.1
- einops==0.8.0
- filelock==3.13.1
- fire==0.6.0
- flash-attn==1.0.7
- frozenlist==1.4.1
- fsspec==2023.10.0
- gdown==5.2.0
- genomic-benchmarks==0.0.9
- gitdb==4.0.11
- gitpython==3.1.43
- google-auth==2.30.0
- google-auth-oauthlib==1.0.0
- grpcio==1.64.1
- hjson==3.1.0
- huggingface-hub==0.23.4
- hydra-core==1.3.2
- idna==3.7
- importlib-resources==6.4.0
- jinja2==3.1.3
- joblib==1.4.2
- liftover==1.1.18
- lightning-lite==1.8.0
- lightning-utilities==0.3.0
- lit==18.1.8
- markdown==3.6
- markdown-it-py==3.0.0
- markupsafe==2.1.5
- mdurl==0.1.2
- mpmath==1.3.0
- multidict==6.0.5
- multiprocess==0.70.15
- networkx==3.0
- ninja==1.11.1.1
- numpy==1.24.1
- nvidia-cublas-cu11==11.10.3.66
- nvidia-cublas-cu12==12.1.3.1
- nvidia-cuda-cupti-cu11==11.8.87
- nvidia-cuda-cupti-cu12==12.1.105
- nvidia-cuda-nvrtc-cu11==11.7.99
- nvidia-cuda-nvrtc-cu12==12.1.105
- nvidia-cuda-runtime-cu11==11.7.99
- nvidia-cuda-runtime-cu12==12.1.105
- nvidia-cudnn-cu11==8.5.0.96
- nvidia-cudnn-cu12==8.9.2.26
- nvidia-cufft-cu11==10.9.0.58
- nvidia-cufft-cu12==11.0.2.54
- nvidia-curand-cu11==10.3.0.86
- nvidia-curand-cu12==10.3.2.106
- nvidia-cusolver-cu11==11.4.1.48
- nvidia-cusolver-cu12==11.4.5.107
- nvidia-cusparse-cu11==11.7.5.86
- nvidia-cusparse-cu12==12.1.0.106
- nvidia-ml-py==12.555.43
- nvidia-nccl-cu11==2.19.3
- nvidia-nccl-cu12==2.19.3
- nvidia-nvjitlink-cu12==12.5.40
- nvidia-nvtx-cu11==11.8.86
- nvidia-nvtx-cu12==12.1.105
- oauthlib==3.2.2
- omegaconf==2.3.0
- opt-einsum==3.3.0
- pandas==2.0.3
- peft==0.11.1
- pillow==10.2.0
- polars==0.20.13
- protobuf==5.27.2
- py-cpuinfo==9.0.0
- pyarrow==16.1.0
- pyarrow-hotfix==0.6
- pyasn1==0.6.0
- pyasn1-modules==0.4.0
- pydantic==2.8.2
- pydantic-core==2.20.1
- pyfaidx==0.8.1.1
- pynvml==11.5.0
- pysocks==1.7.1
- python-dateutil==2.9.0.post0
- pytorch-lightning==1.8.0
- pytz==2024.1
- pyyaml==6.0.1
- regex==2024.5.15
- requests==2.32.3
- requests-oauthlib==2.0.0
- rich==13.7.1
- rsa==4.9
- safetensors==0.4.3
- scikit-learn==1.3.2
- scipy==1.10.1
- sentry-sdk==2.7.1
- setproctitle==1.3.3
- smmap==5.0.1
- soupsieve==2.5
- sympy==1.12
- tensorboard==2.14.0
- tensorboard-data-server==0.7.2
- termcolor==2.4.0
- threadpoolctl==3.5.0
- timm==0.9.16
- tokenizers==0.13.3
- torch==2.0.0+cu118
- torchaudio==2.0.1+cu118
- torchmetrics==0.11.4
- torchvision==0.15.1+cu118
- tqdm==4.66.4
- transformers==4.28.0
- triton==2.0.0
- typing-extensions==4.9.0
- tzdata==2024.1
- urllib3==2.2.2
- wandb==0.17.3
- werkzeug==3.0.3
- xxhash==3.4.1
- yarl==1.9.4
prefix: /home/xt86/.conda/envs/dna