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Merge pull request #98 from flatironinstitute/update-deps
Updating dependencies
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -1,153 +1,234 @@ | ||
| name: deepblast2 | ||
| channels: | ||
| - pytorch | ||
| - conda-forge | ||
| - bioconda | ||
| - defaults | ||
| dependencies: | ||
| - bzip2=1.0.8=h516909a_0 | ||
| - cffi=1.12.3=py37h8022711_0 | ||
| - cycler=0.10.0=py_1 | ||
| - freetype=2.10.0=he983fc9_1 | ||
| - icu=64.2=he1b5a44_1 | ||
| - joblib=0.13.2=py_0 | ||
| - kiwisolver=1.1.0=py37hc9558a2_0 | ||
| - libblas=3.8.0=12_openblas | ||
| - libcblas=3.8.0=12_openblas | ||
| - libffi=3.2.1=he1b5a44_1006 | ||
| - liblapack=3.8.0=12_openblas | ||
| - libopenblas=0.3.7=h6e990d7_1 | ||
| - libpng=1.6.37=hed695b0_0 | ||
| - matplotlib-base=3.1.1=py37he7580a8_1 | ||
| - ncurses=6.1=hf484d3e_1002 | ||
| - ninja=1.9.0=h6bb024c_0 | ||
| - pandas=0.25.1=py37hb3f55d8_0 | ||
| - patsy=0.5.1=py_0 | ||
| - pip=19.2.3=py37_0 | ||
| - pycparser=2.19=py37_1 | ||
| - pyparsing=2.4.2=py_0 | ||
| - python=3.7.3=h33d41f4_1 | ||
| - python-dateutil=2.8.0=py_0 | ||
| - pytz=2019.2=py_0 | ||
| - readline=8.0=hf8c457e_0 | ||
| - scikit-learn=0.21.3=py37hcdab131_0 | ||
| - seaborn=0.9.0=py_1 | ||
| - setuptools=41.2.0=py37_0 | ||
| - six=1.12.0=py37_1000 | ||
| - sqlite=3.29.0=hcee41ef_1 | ||
| - statsmodels=0.10.1=py37hc1659b7_0 | ||
| - tk=8.6.9=hed695b0_1002 | ||
| - tornado=6.0.3=py37h516909a_0 | ||
| - tqdm=4.35.0=py_0 | ||
| - wheel=0.33.6=py37_0 | ||
| - xz=5.2.4=h14c3975_1001 | ||
| - zlib=1.2.11=h516909a_1005 | ||
| - _libgcc_mutex=0.1=main | ||
| - backcall=0.1.0=py37_0 | ||
| - biopython=1.76=py37h7b6447c_0 | ||
| - blas=1.0=openblas | ||
| - ca-certificates=2020.1.1=0 | ||
| - certifi=2020.4.5.1=py37_0 | ||
| - cudatoolkit=10.0.130=0 | ||
| - decorator=4.4.0=py37_1 | ||
| - flake8=3.8.2=py_0 | ||
| - importlib-metadata=1.6.0=py37_0 | ||
| - intel-openmp=2019.4=243 | ||
| - ipython=7.8.0=py37h39e3cac_0 | ||
| - ipython_genutils=0.2.0=py37_0 | ||
| - jedi=0.15.1=py37_0 | ||
| - libgcc-ng=9.1.0=hdf63c60_0 | ||
| - libgfortran-ng=7.3.0=hdf63c60_0 | ||
| - libstdcxx-ng=9.1.0=hdf63c60_0 | ||
| - mccabe=0.6.1=py37_1 | ||
| - mkl=2019.4=243 | ||
| - numpy=1.18.1=py37h94c655d_0 | ||
| - numpy-base=1.18.1=py37h2f8d375_1 | ||
| - openssl=1.1.1g=h7b6447c_0 | ||
| - parso=0.5.1=py_0 | ||
| - pexpect=4.7.0=py37_0 | ||
| - pickleshare=0.7.5=py37_0 | ||
| - prompt_toolkit=2.0.10=py_0 | ||
| - ptyprocess=0.6.0=py37_0 | ||
| - pycodestyle=2.6.0=py_0 | ||
| - pyflakes=2.2.0=py_0 | ||
| - pygments=2.4.2=py_0 | ||
| - scipy=1.4.1=py37habc2bb6_0 | ||
| - traitlets=4.3.3=py37_0 | ||
| - wcwidth=0.1.7=py37_0 | ||
| - zipp=3.1.0=py_0 | ||
| - pytorch=1.4.0=py3.7_cuda10.0.130_cudnn7.6.3_0 | ||
| - _libgcc_mutex=0.1=conda_forge | ||
| - _openmp_mutex=4.5=1_gnu | ||
| - alsa-lib=1.2.3=h516909a_0 | ||
| - argon2-cffi=21.3.0=pyhd8ed1ab_0 | ||
| - argon2-cffi-bindings=21.2.0=py39h3811e60_1 | ||
| - asttokens=2.0.5=pyhd8ed1ab_0 | ||
| - attrs=21.4.0=pyhd8ed1ab_0 | ||
| - backcall=0.2.0=pyh9f0ad1d_0 | ||
| - backports=1.0=py_2 | ||
| - backports.functools_lru_cache=1.6.4=pyhd8ed1ab_0 | ||
| - biopython=1.79=py39h3811e60_1 | ||
| - bleach=4.1.0=pyhd8ed1ab_0 | ||
| - brotli=1.0.9=h7f98852_6 | ||
| - brotli-bin=1.0.9=h7f98852_6 | ||
| - bzip2=1.0.8=h7f98852_4 | ||
| - ca-certificates=2021.10.8=ha878542_0 | ||
| - certifi=2021.10.8=py39hf3d152e_1 | ||
| - cffi=1.15.0=py39h4bc2ebd_0 | ||
| - cycler=0.11.0=pyhd8ed1ab_0 | ||
| - dbus=1.13.6=h5008d03_3 | ||
| - debugpy=1.5.1=py39he80948d_0 | ||
| - decorator=5.1.1=pyhd8ed1ab_0 | ||
| - defusedxml=0.7.1=pyhd8ed1ab_0 | ||
| - entrypoints=0.4=pyhd8ed1ab_0 | ||
| - executing=0.8.3=pyhd8ed1ab_0 | ||
| - expat=2.4.6=h27087fc_0 | ||
| - flit-core=3.7.1=pyhd8ed1ab_0 | ||
| - font-ttf-dejavu-sans-mono=2.37=hab24e00_0 | ||
| - font-ttf-inconsolata=3.000=h77eed37_0 | ||
| - font-ttf-source-code-pro=2.038=h77eed37_0 | ||
| - font-ttf-ubuntu=0.83=hab24e00_0 | ||
| - fontconfig=2.13.96=ha180cfb_0 | ||
| - fonts-conda-ecosystem=1=0 | ||
| - fonts-conda-forge=1=0 | ||
| - fonttools=4.29.1=py39h3811e60_0 | ||
| - freetype=2.10.4=h0708190_1 | ||
| - gettext=0.19.8.1=h73d1719_1008 | ||
| - giflib=5.2.1=h36c2ea0_2 | ||
| - gst-plugins-base=1.18.5=hf529b03_3 | ||
| - gstreamer=1.18.5=h9f60fe5_3 | ||
| - hmmer=3.3.2=h87f3376_2 | ||
| - icu=69.1=h9c3ff4c_0 | ||
| - importlib-metadata=4.11.2=py39hf3d152e_0 | ||
| - importlib_resources=5.4.0=pyhd8ed1ab_0 | ||
| - ipykernel=6.9.1=py39hef51801_0 | ||
| - ipython=8.1.1=py39hf3d152e_0 | ||
| - ipython_genutils=0.2.0=py_1 | ||
| - ipywidgets=7.6.5=pyhd8ed1ab_0 | ||
| - jbig=2.1=h7f98852_2003 | ||
| - jedi=0.18.1=py39hf3d152e_0 | ||
| - jinja2=3.0.3=pyhd8ed1ab_0 | ||
| - jpeg=9e=h7f98852_0 | ||
| - jsonschema=4.4.0=pyhd8ed1ab_0 | ||
| - jupyter=1.0.0=py39hf3d152e_7 | ||
| - jupyter_client=7.1.2=pyhd8ed1ab_0 | ||
| - jupyter_console=6.4.3=pyhd8ed1ab_0 | ||
| - jupyter_core=4.9.2=py39hf3d152e_0 | ||
| - jupyterlab_pygments=0.1.2=pyh9f0ad1d_0 | ||
| - jupyterlab_widgets=1.0.2=pyhd8ed1ab_0 | ||
| - keyutils=1.6.1=h166bdaf_0 | ||
| - kiwisolver=1.3.2=py39h1a9c180_1 | ||
| - krb5=1.19.2=h3790be6_4 | ||
| - lcms2=2.12=hddcbb42_0 | ||
| - ld_impl_linux-64=2.36.1=hea4e1c9_2 | ||
| - lerc=3.0=h9c3ff4c_0 | ||
| - libblas=3.9.0=13_linux64_openblas | ||
| - libbrotlicommon=1.0.9=h7f98852_6 | ||
| - libbrotlidec=1.0.9=h7f98852_6 | ||
| - libbrotlienc=1.0.9=h7f98852_6 | ||
| - libcblas=3.9.0=13_linux64_openblas | ||
| - libclang=13.0.1=default_hc23dcda_0 | ||
| - libdeflate=1.10=h7f98852_0 | ||
| - libedit=3.1.20191231=he28a2e2_2 | ||
| - libevent=2.1.10=h9b69904_4 | ||
| - libffi=3.4.2=h7f98852_5 | ||
| - libgcc-ng=11.2.0=h1d223b6_13 | ||
| - libgfortran-ng=11.2.0=h69a702a_13 | ||
| - libgfortran5=11.2.0=h5c6108e_13 | ||
| - libglib=2.70.2=h174f98d_4 | ||
| - libgomp=11.2.0=h1d223b6_13 | ||
| - libiconv=1.16=h516909a_0 | ||
| - liblapack=3.9.0=13_linux64_openblas | ||
| - libllvm11=11.1.0=hf817b99_3 | ||
| - libllvm13=13.0.1=hf817b99_2 | ||
| - libnsl=2.0.0=h7f98852_0 | ||
| - libogg=1.3.4=h7f98852_1 | ||
| - libopenblas=0.3.18=pthreads_h8fe5266_0 | ||
| - libopus=1.3.1=h7f98852_1 | ||
| - libpng=1.6.37=h21135ba_2 | ||
| - libpq=14.2=hd57d9b9_0 | ||
| - libsodium=1.0.18=h36c2ea0_1 | ||
| - libstdcxx-ng=11.2.0=he4da1e4_13 | ||
| - libtiff=4.3.0=h542a066_3 | ||
| - libuuid=2.32.1=h7f98852_1000 | ||
| - libvorbis=1.3.7=h9c3ff4c_0 | ||
| - libwebp=1.2.2=h3452ae3_0 | ||
| - libwebp-base=1.2.2=h7f98852_1 | ||
| - libxcb=1.13=h7f98852_1004 | ||
| - libxkbcommon=1.0.3=he3ba5ed_0 | ||
| - libxml2=2.9.12=h885dcf4_1 | ||
| - libzlib=1.2.11=h36c2ea0_1013 | ||
| - llvmlite=0.38.0=py39h1bbdace_0 | ||
| - lz4-c=1.9.3=h9c3ff4c_1 | ||
| - markupsafe=2.1.0=py39hb9d737c_1 | ||
| - matplotlib=3.5.1=py39hf3d152e_0 | ||
| - matplotlib-base=3.5.1=py39h2fa2bec_0 | ||
| - matplotlib-inline=0.1.3=pyhd8ed1ab_0 | ||
| - mistune=0.8.4=py39h3811e60_1005 | ||
| - munkres=1.1.4=pyh9f0ad1d_0 | ||
| - mysql-common=8.0.28=ha770c72_0 | ||
| - mysql-libs=8.0.28=hfa10184_0 | ||
| - nbclient=0.5.12=pyhd8ed1ab_0 | ||
| - nbconvert=6.4.2=py39hf3d152e_0 | ||
| - nbformat=5.1.3=pyhd8ed1ab_0 | ||
| - ncurses=6.3=h9c3ff4c_0 | ||
| - nest-asyncio=1.5.4=pyhd8ed1ab_0 | ||
| - notebook=6.4.8=pyha770c72_0 | ||
| - nspr=4.32=h9c3ff4c_1 | ||
| - nss=3.74=hb5efdd6_0 | ||
| - numba=0.55.1=py39h56b8d98_0 | ||
| - numpy=1.21.5=py39haac66dc_0 | ||
| - openjpeg=2.4.0=hb52868f_1 | ||
| - openssl=1.1.1l=h7f98852_0 | ||
| - packaging=21.3=pyhd8ed1ab_0 | ||
| - pandas=1.4.1=py39hde0f152_0 | ||
| - pandoc=2.17.1.1=ha770c72_0 | ||
| - pandocfilters=1.5.0=pyhd8ed1ab_0 | ||
| - parso=0.8.3=pyhd8ed1ab_0 | ||
| - pcre=8.45=h9c3ff4c_0 | ||
| - pexpect=4.8.0=pyh9f0ad1d_2 | ||
| - pickleshare=0.7.5=py_1003 | ||
| - pillow=9.0.1=py39hae2aec6_2 | ||
| - pip=22.0.4=pyhd8ed1ab_0 | ||
| - prometheus_client=0.13.1=pyhd8ed1ab_0 | ||
| - prompt-toolkit=3.0.27=pyha770c72_0 | ||
| - prompt_toolkit=3.0.27=hd8ed1ab_0 | ||
| - pthread-stubs=0.4=h36c2ea0_1001 | ||
| - ptyprocess=0.7.0=pyhd3deb0d_0 | ||
| - pure_eval=0.2.2=pyhd8ed1ab_0 | ||
| - pycparser=2.21=pyhd8ed1ab_0 | ||
| - pygments=2.11.2=pyhd8ed1ab_0 | ||
| - pyparsing=3.0.7=pyhd8ed1ab_0 | ||
| - pyqt=5.12.3=py39hf3d152e_8 | ||
| - pyqt-impl=5.12.3=py39hde8b62d_8 | ||
| - pyqt5-sip=4.19.18=py39he80948d_8 | ||
| - pyqtchart=5.12=py39h0fcd23e_8 | ||
| - pyqtwebengine=5.12.1=py39h0fcd23e_8 | ||
| - pyrsistent=0.18.1=py39h3811e60_0 | ||
| - python=3.9.10=h85951f9_2_cpython | ||
| - python-dateutil=2.8.2=pyhd8ed1ab_0 | ||
| - python_abi=3.9=2_cp39 | ||
| - pytz=2021.3=pyhd8ed1ab_0 | ||
| - pyzmq=22.3.0=py39h37b5a0c_1 | ||
| - qt=5.12.9=ha98a1a1_5 | ||
| - qtconsole=5.2.2=pyhd8ed1ab_1 | ||
| - qtconsole-base=5.2.2=pyhd8ed1ab_1 | ||
| - qtpy=2.0.1=pyhd8ed1ab_0 | ||
| - readline=8.1=h46c0cb4_0 | ||
| - scipy=1.8.0=py39hee8e79c_1 | ||
| - send2trash=1.8.0=pyhd8ed1ab_0 | ||
| - setuptools=60.9.3=py39hf3d152e_0 | ||
| - six=1.16.0=pyh6c4a22f_0 | ||
| - sqlite=3.37.0=h9cd32fc_0 | ||
| - stack_data=0.2.0=pyhd8ed1ab_0 | ||
| - terminado=0.13.3=py39hf3d152e_0 | ||
| - testpath=0.6.0=pyhd8ed1ab_0 | ||
| - tk=8.6.12=h27826a3_0 | ||
| - tornado=6.1=py39h3811e60_2 | ||
| - traitlets=5.1.1=pyhd8ed1ab_0 | ||
| - tzdata=2021e=he74cb21_0 | ||
| - unicodedata2=14.0.0=py39h3811e60_0 | ||
| - wcwidth=0.2.5=pyh9f0ad1d_2 | ||
| - webencodings=0.5.1=py_1 | ||
| - wheel=0.37.1=pyhd8ed1ab_0 | ||
| - widgetsnbextension=3.5.2=py39hf3d152e_1 | ||
| - xorg-libxau=1.0.9=h7f98852_0 | ||
| - xorg-libxdmcp=1.1.3=h7f98852_0 | ||
| - xz=5.2.5=h516909a_1 | ||
| - zeromq=4.3.4=h9c3ff4c_1 | ||
| - zipp=3.7.0=pyhd8ed1ab_1 | ||
| - zlib=1.2.11=h36c2ea0_1013 | ||
| - zstd=1.5.2=ha95c52a_0 | ||
| - pip: | ||
| - absl-py==0.9.0 | ||
| - appdirs==1.4.3 | ||
| - attrs==19.3.0 | ||
| - bleach==3.1.0 | ||
| - cachecontrol==0.12.6 | ||
| - cachetools==4.1.0 | ||
| - chardet==3.0.4 | ||
| - cherrypy==3.2.4 | ||
| - configparser==4.0.2 | ||
| - cython==0.29.14 | ||
| - defusedxml==0.6.0 | ||
| - entrypoints==0.3 | ||
| - fairseq==0.8.0 | ||
| - fastbpe==0.1.0 | ||
| - absl-py==1.0.0 | ||
| - aiohttp==3.8.1 | ||
| - aiosignal==1.2.0 | ||
| - async-timeout==4.0.2 | ||
| - cachetools==5.0.0 | ||
| - charset-normalizer==2.0.12 | ||
| - frozenlist==1.3.0 | ||
| - fsspec==2022.2.0 | ||
| - future==0.18.2 | ||
| - google-auth==1.16.1 | ||
| - google-auth-oauthlib==0.4.1 | ||
| - grpcio==1.29.0 | ||
| - hdmedians==0.13 | ||
| - idna==2.8 | ||
| - ipykernel==5.1.3 | ||
| - ipywidgets==7.5.1 | ||
| - jinja2==2.10.3 | ||
| - jsonschema==3.2.0 | ||
| - jupyter==1.0.0 | ||
| - jupyter-client==5.3.4 | ||
| - jupyter-console==6.0.0 | ||
| - jupyter-core==4.6.1 | ||
| - llvmlite==0.31.0 | ||
| - lockfile==0.12.2 | ||
| - markdown==3.2.2 | ||
| - markupsafe==1.1.1 | ||
| - matplotlib==3.1.1 | ||
| - mistune==0.8.4 | ||
| - more-itertools==8.0.2 | ||
| - msgpack==0.6.2 | ||
| - natsort==6.2.0 | ||
| - nbconvert==5.6.1 | ||
| - nbformat==4.4.0 | ||
| - notebook==6.0.2 | ||
| - numba==0.47.0 | ||
| - oauthlib==3.1.0 | ||
| - packaging==20.1 | ||
| - pandocfilters==1.4.2 | ||
| - pluggy==0.13.1 | ||
| - portalocker==1.5.1 | ||
| - prometheus-client==0.7.1 | ||
| - protobuf==3.12.2 | ||
| - py==1.8.1 | ||
| - google-auth==2.6.0 | ||
| - google-auth-oauthlib==0.4.6 | ||
| - grpcio==1.44.0 | ||
| - idna==3.3 | ||
| - iniconfig==1.1.1 | ||
| - joblib==1.1.0 | ||
| - markdown==3.3.6 | ||
| - multidict==6.0.2 | ||
| - oauthlib==3.2.0 | ||
| - pluggy==1.0.0 | ||
| - protobuf==3.19.4 | ||
| - py==1.11.0 | ||
| - pyasn1==0.4.8 | ||
| - pyasn1-modules==0.2.8 | ||
| - pyrsistent==0.15.6 | ||
| - pytest==5.4.3 | ||
| - pytorch-lightning==0.8.1 | ||
| - pyyaml==5.3.1 | ||
| - pyzmq==18.1.1 | ||
| - qtconsole==4.6.0 | ||
| - regex==2019.8.19 | ||
| - requests==2.22.0 | ||
| - requests-oauthlib==1.3.0 | ||
| - rsa==4.0 | ||
| - sacrebleu==1.4.2 | ||
| - scikit-bio==0.5.5 | ||
| - send2trash==1.5.0 | ||
| - tensorboard==2.2.2 | ||
| - tensorboard-plugin-wit==1.6.0.post3 | ||
| - terminado==0.8.3 | ||
| - testpath==0.4.4 | ||
| - torch==1.4.0 | ||
| - typing==3.7.4.1 | ||
| - urllib3==1.25.7 | ||
| - webencodings==0.5.1 | ||
| - werkzeug==1.0.1 | ||
| - widgetsnbextension==3.5.1 | ||
|
|
||
| - pydeprecate==0.3.1 | ||
| - pytest==7.0.1 | ||
| - pytorch-lightning==1.5.8 | ||
| - pyyaml==6.0 | ||
| - requests==2.27.1 | ||
| - requests-oauthlib==1.3.1 | ||
| - rsa==4.8 | ||
| - scikit-learn==1.0.2 | ||
| - tensorboard==2.8.0 | ||
| - tensorboard-data-server==0.6.1 | ||
| - tensorboard-plugin-wit==1.8.1 | ||
| - threadpoolctl==3.1.0 | ||
| - tomli==2.0.1 | ||
| - torch==1.10.2 | ||
| - torchaudio==0.10.2 | ||
| - torchmetrics==0.7.2 | ||
| - torchvision==0.11.3 | ||
| - tqdm==4.63.0 | ||
| - typing-extensions==4.1.1 | ||
| - urllib3==1.26.8 | ||
| - werkzeug==2.0.3 | ||
| - yarl==1.7.2 |
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