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environment.yml
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name: rinalmo
channels:
- pytorch
- nvidia
- bioconda
- conda-forge
dependencies:
- _libgcc_mutex=0.1=conda_forge
- _openmp_mutex=4.5=2_kmp_llvm
- appdirs=1.4.4=pyh9f0ad1d_0
- biopython=1.81=py311h459d7ec_1
- blas=2.116=mkl
- blas-devel=3.9.0=16_linux64_mkl
- bleach=6.1.0=pyhd8ed1ab_0
- brotli-python=1.1.0=py311hb755f60_1
- bzip2=1.0.8=h7f98852_4
- ca-certificates=2024.2.2=hbcca054_0
- cd-hit=4.8.1=h43eeafb_9
- certifi=2024.2.2=pyhd8ed1ab_0
- charset-normalizer=3.3.0=pyhd8ed1ab_0
- click=8.1.7=unix_pyh707e725_0
- colorama=0.4.6=pyhd8ed1ab_0
- cuda-cudart=11.8.89=0
- cuda-cupti=11.8.87=0
- cuda-libraries=11.8.0=0
- cuda-nvrtc=11.8.89=0
- cuda-nvtx=11.8.86=0
- cuda-runtime=11.8.0=0
- docker-pycreds=0.4.0=py_0
- filelock=3.12.4=pyhd8ed1ab_0
- fsspec=2023.9.2=pyh1a96a4e_0
- gitdb=4.0.10=pyhd8ed1ab_0
- gitpython=3.1.40=pyhd8ed1ab_0
- gmp=6.2.1=h58526e2_0
- gmpy2=2.1.2=py311h6a5fa03_1
- icu=73.2=h59595ed_0
- idna=3.4=pyhd8ed1ab_0
- jinja2=3.1.2=pyhd8ed1ab_1
- kaggle=1.5.16=pyhd8ed1ab_0
- ld_impl_linux-64=2.40=h41732ed_0
- libabseil=20230802.1=cxx17_h59595ed_0
- libblas=3.9.0=16_linux64_mkl
- libcblas=3.9.0=16_linux64_mkl
- libcublas=11.11.3.6=0
- libcufft=10.9.0.58=0
- libcufile=1.8.0.34=0
- libcurand=10.3.4.52=0
- libcusolver=11.4.1.48=0
- libcusparse=11.7.5.86=0
- libexpat=2.5.0=hcb278e6_1
- libffi=3.4.2=h7f98852_5
- libgcc-ng=13.2.0=h807b86a_2
- libgfortran-ng=13.2.0=h69a702a_2
- libgfortran5=13.2.0=ha4646dd_2
- libgomp=13.2.0=h807b86a_2
- libhwloc=2.9.3=default_h554bfaf_1009
- libiconv=1.17=h166bdaf_0
- liblapack=3.9.0=16_linux64_mkl
- liblapacke=3.9.0=16_linux64_mkl
- libnpp=11.8.0.86=0
- libnsl=2.0.1=hd590300_0
- libnvjpeg=11.9.0.86=0
- libprotobuf=4.24.4=hf27288f_0
- libsqlite=3.43.2=h2797004_0
- libstdcxx-ng=13.2.0=h7e041cc_2
- libuuid=2.38.1=h0b41bf4_0
- libxml2=2.11.5=h232c23b_1
- libzlib=1.2.13=hd590300_5
- lightning=2.2.0.post0=pyhd8ed1ab_0
- lightning-utilities=0.10.1=pyhd8ed1ab_0
- llvm-openmp=15.0.7=h0cdce71_0
- markupsafe=2.1.3=py311h459d7ec_1
- mkl=2022.1.0=h84fe81f_915
- mkl-devel=2022.1.0=ha770c72_916
- mkl-include=2022.1.0=h84fe81f_915
- mpc=1.3.1=hfe3b2da_0
- mpfr=4.2.0=hb012696_0
- mpmath=1.3.0=pyhd8ed1ab_0
- ncurses=6.4=hcb278e6_0
- networkx=3.2=pyhd8ed1ab_1
- numpy=1.26.0=py311h64a7726_0
- openssl=3.2.1=hd590300_0
- packaging=23.2=pyhd8ed1ab_0
- pathtools=0.1.2=py_1
- pip=23.3=pyhd8ed1ab_0
- protobuf=4.24.4=py311h46cbc50_0
- psutil=5.9.5=py311h459d7ec_1
- pysocks=1.7.1=pyha2e5f31_6
- python=3.11.5=hab00c5b_0_cpython
- python-dateutil=2.8.2=pyhd8ed1ab_0
- python-lmdb=1.4.1=py311h8731a88_1
- python-slugify=8.0.1=pyhd8ed1ab_2
- python_abi=3.11=4_cp311
- pytorch=2.1.0=py3.11_cuda11.8_cudnn8.7.0_0
- pytorch-cuda=11.8=h7e8668a_5
- pytorch-lightning=2.1.3=pyhd8ed1ab_0
- pytorch-mutex=1.0=cuda
- pyyaml=6.0.1=py311h459d7ec_1
- readline=8.2=h8228510_1
- requests=2.31.0=pyhd8ed1ab_0
- sentry-sdk=1.32.0=pyhd8ed1ab_0
- seqkit=2.5.1=h9ee0642_0
- setproctitle=1.3.3=py311h459d7ec_0
- setuptools=68.2.2=pyhd8ed1ab_0
- six=1.16.0=pyh6c4a22f_0
- smmap=3.0.5=pyh44b312d_0
- sympy=1.12=pypyh9d50eac_103
- tbb=2021.10.0=h00ab1b0_2
- text-unidecode=1.3=pyhd8ed1ab_1
- tk=8.6.13=h2797004_0
- torchmetrics=1.2.1=pyhd8ed1ab_0
- torchtriton=2.1.0=py311
- tqdm=4.66.1=pyhd8ed1ab_0
- typing-extensions=4.8.0=hd8ed1ab_0
- typing_extensions=4.8.0=pyha770c72_0
- urllib3=2.0.7=pyhd8ed1ab_0
- wandb=0.15.12=pyhd8ed1ab_0
- webencodings=0.5.1=pyhd8ed1ab_2
- wheel=0.41.2=pyhd8ed1ab_0
- xz=5.2.6=h166bdaf_0
- yaml=0.2.5=h7f98852_2
- zlib=1.2.13=hd590300_5
- pip:
- absl-py==2.0.0
- contextlib2==21.6.0
- einops==0.7.0
- flash-attn==2.3.2
- joblib==1.3.2
- ml-collections==0.1.1
- ninja==1.11.1.1
- pandas==2.1.1
- pytz==2023.3.post1
- scikit-learn==1.3.1
- scipy==1.11.3
- threadpoolctl==3.2.0
- tzdata==2023.3