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environment.yml
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name: hicberg
channels:
- bioconda
- anaconda
- conda-forge
dependencies:
- _libgcc_mutex=0.1=conda_forge
- _openmp_mutex=4.5=2_gnu
- aioeasywebdav=2.4.0=pyha770c72_0
- aiohttp=3.9.1=py311h459d7ec_0
- aiosignal=1.3.1=pyhd8ed1ab_0
- alsa-lib=1.2.9=hd590300_0
- amply=0.1.6=pyhd8ed1ab_0
- appdirs=1.4.4=pyh9f0ad1d_0
- asttokens=2.2.1=pyhd8ed1ab_0
- attmap=0.13.2=pyhd8ed1ab_0
- attr=2.5.1=h166bdaf_1
- attrs=23.1.0=pyh71513ae_1
- backcall=0.2.0=pyh9f0ad1d_0
- backports=1.0=pyhd8ed1ab_3
- backports.functools_lru_cache=1.6.5=pyhd8ed1ab_0
- bcrypt=4.1.1=py311h46250e7_0
- boto3=1.33.6=pyhd8ed1ab_0
- botocore=1.33.6=pyhd8ed1ab_0
- brotli=1.1.0=hd590300_1
- brotli-bin=1.1.0=hd590300_1
- brotli-python=1.1.0=py311hb755f60_1
- bzip2=1.0.8=h7f98852_4
- c-ares=1.23.0=hd590300_0
- ca-certificates=2023.11.17=hbcca054_0
- cachetools=5.3.2=pyhd8ed1ab_0
- cairo=1.16.0=hbbf8b49_1016
- cffi=1.16.0=py311hb3a22ac_0
- chardet=4.0.0=py311h06a4308_1003
- charset-normalizer=3.3.2=pyhd8ed1ab_0
- coin-or-cbc=2.10.10=h9002f0b_0
- coin-or-cgl=0.60.7=h516709c_0
- coin-or-clp=1.17.8=h1ee7a9c_0
- coin-or-osi=0.108.8=ha2443b9_0
- coin-or-utils=2.11.9=hee58242_0
- coincbc=2.10.10=0_metapackage
- colorama=0.4.6=pyhd8ed1ab_0
- comm=0.1.3=pyhd8ed1ab_0
- configargparse=1.7=pyhd8ed1ab_0
- connection_pool=0.0.3=pyhd3deb0d_0
- cryptography=41.0.5=py311h63ff55d_0
- datrie=0.8.2=py311h459d7ec_7
- dbus=1.13.6=h5008d03_3
- debugpy=1.6.7=py311hcafe171_0
- decorator=5.1.1=pyhd8ed1ab_0
- defusedxml=0.7.1=pyhd8ed1ab_0
- docutils=0.20.1=py311h38be061_2
- dpath=2.1.6=pyha770c72_0
- dropbox=11.36.2=pyhd8ed1ab_0
- eido=0.2.2=pyhd8ed1ab_0
- exceptiongroup=1.2.0=pyhd8ed1ab_0
- executing=1.2.0=pyhd8ed1ab_0
- expat=2.5.0=hcb278e6_1
- filechunkio=1.8=py_2
- 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=h77eed37_1
- fontconfig=2.14.2=h14ed4e7_0
- fonts-conda-ecosystem=1=0
- fonts-conda-forge=1=0
- freetype=2.12.1=h267a509_2
- frozenlist=1.4.0=py311h459d7ec_1
- ftputil=5.0.4=pyhd8ed1ab_0
- gettext=0.21.1=h27087fc_0
- gitdb=4.0.11=pyhd8ed1ab_0
- gitpython=3.1.40=pyhd8ed1ab_0
- glib=2.78.1=hfc55251_1
- glib-tools=2.78.1=hfc55251_1
- google-api-core=2.14.0=pyhd8ed1ab_0
- google-api-python-client=2.109.0=pyhd8ed1ab_0
- google-auth=2.24.0=pyhca7485f_0
- google-auth-httplib2=0.1.1=pyhd8ed1ab_0
- google-cloud-core=2.3.3=pyhd8ed1ab_0
- google-cloud-storage=2.13.0=pyhca7485f_0
- google-crc32c=1.1.2=py311h9b08b9c_5
- google-resumable-media=2.6.0=pyhd8ed1ab_0
- googleapis-common-protos=1.61.0=pyhd8ed1ab_0
- graphite2=1.3.13=h58526e2_1001
- grpcio=1.59.3=py311ha6695c7_0
- gst-plugins-base=1.22.5=hf7dbed1_0
- gstreamer=1.22.5=h98fc4e7_0
- harfbuzz=7.3.0=hdb3a94d_0
- htslib=1.17=h81da01d_2
- httplib2=0.22.0=pyhd8ed1ab_0
- humanfriendly=10.0=pyhd8ed1ab_6
- icu=72.1=hcb278e6_0
- idna=3.6=pyhd8ed1ab_0
- importlib-metadata=6.8.0=pyha770c72_0
- importlib_metadata=6.8.0=hd8ed1ab_0
- importlib_resources=6.1.1=pyhd8ed1ab_0
- iniconfig=2.0.0=pyhd8ed1ab_0
- ipykernel=6.24.0=pyh71e2992_0
- ipympl=0.9.3=pyhd8ed1ab_0
- ipython=8.14.0=pyh41d4057_0
- ipython_genutils=0.2.0=py_1
- ipywidgets=8.1.1=pyhd8ed1ab_0
- jedi=0.18.2=pyhd8ed1ab_0
- jinja2=3.1.2=pyhd8ed1ab_1
- jmespath=1.0.1=pyhd8ed1ab_0
- jsonschema=4.20.0=pyhd8ed1ab_0
- jsonschema-specifications=2023.11.2=pyhd8ed1ab_0
- jupyter_client=8.3.0=pyhd8ed1ab_0
- jupyter_core=5.3.1=py311h38be061_0
- jupyterlab_widgets=3.0.9=pyhd8ed1ab_0
- keyutils=1.6.1=h166bdaf_0
- krb5=1.21.2=h659d440_0
- lame=3.100=h166bdaf_1003
- lcms2=2.15=h7f713cb_2
- ld_impl_linux-64=2.40=h41732ed_0
- lerc=4.0.0=h27087fc_0
- libabseil=20230802.1=cxx17_h59595ed_0
- libblas=3.9.0=20_linux64_openblas
- libbrotlicommon=1.1.0=hd590300_1
- libbrotlidec=1.1.0=hd590300_1
- libbrotlienc=1.1.0=hd590300_1
- libcap=2.69=h0f662aa_0
- libcblas=3.9.0=20_linux64_openblas
- libclang=15.0.7=default_hb11cfb5_4
- libclang13=15.0.7=default_ha2b6cf4_4
- libcrc32c=1.1.2=h9c3ff4c_0
- libcups=2.3.3=h4637d8d_4
- libcurl=8.4.0=hca28451_0
- libdeflate=1.18=h0b41bf4_0
- libedit=3.1.20191231=he28a2e2_2
- libev=4.33=h516909a_1
- libevent=2.1.12=hf998b51_1
- libexpat=2.5.0=hcb278e6_1
- libffi=3.4.2=h7f98852_5
- libflac=1.4.3=h59595ed_0
- libgcc-ng=13.1.0=he5830b7_0
- libgcrypt=1.10.3=hd590300_0
- libgfortran-ng=13.2.0=h69a702a_0
- libgfortran5=13.2.0=ha4646dd_0
- libglib=2.78.1=h783c2da_1
- libgomp=13.1.0=he5830b7_0
- libgpg-error=1.47=h71f35ed_0
- libgrpc=1.59.3=hd6c4280_0
- libiconv=1.17=h166bdaf_0
- libjpeg-turbo=2.1.5.1=hd590300_1
- liblapack=3.9.0=20_linux64_openblas
- liblapacke=3.9.0=20_linux64_openblas
- libllvm15=15.0.7=h5cf9203_3
- libnghttp2=1.58.0=h47da74e_0
- libnsl=2.0.0=h7f98852_0
- libogg=1.3.4=h7f98852_1
- libopenblas=0.3.25=pthreads_h413a1c8_0
- libopus=1.3.1=h7f98852_1
- libpng=1.6.39=h753d276_0
- libpq=15.4=hfc447b1_2
- libprotobuf=4.24.4=hf27288f_0
- libre2-11=2023.06.02=h7a70373_0
- libsndfile=1.2.2=hc60ed4a_1
- libsodium=1.0.18=h36c2ea0_1
- libsqlite=3.42.0=h2797004_0
- libssh2=1.11.0=h0841786_0
- libstdcxx-ng=13.1.0=hfd8a6a1_0
- libsystemd0=254=h3516f8a_0
- libtiff=4.6.0=h8b53f26_0
- libuuid=2.38.1=h0b41bf4_0
- libvorbis=1.3.7=h9c3ff4c_0
- libwebp-base=1.3.2=hd590300_0
- libxcb=1.15=h0b41bf4_0
- libxkbcommon=1.6.0=h5d7e998_0
- libxml2=2.11.5=h0d562d8_0
- libzlib=1.2.13=hd590300_5
- logmuse=0.2.6=pyh8c360ce_0
- lz4-c=1.9.4=hcb278e6_0
- markdown-it-py=3.0.0=pyhd8ed1ab_0
- markupsafe=2.1.3=py311h459d7ec_1
- matplotlib-base=3.7.0=py311h8597a09_0
- matplotlib-inline=0.1.6=pyhd8ed1ab_0
- mdurl=0.1.0=pyhd8ed1ab_0
- mpg123=1.32.3=h59595ed_0
- multidict=6.0.4=py311h459d7ec_1
- munkres=1.1.4=pyh9f0ad1d_0
- mysql-common=8.0.33=hf1915f5_6
- mysql-libs=8.0.33=hca2cd23_6
- nbformat=5.9.2=pyhd8ed1ab_0
- ncurses=6.4=hcb278e6_0
- nest-asyncio=1.5.6=pyhd8ed1ab_0
- nspr=4.35=h27087fc_0
- nss=3.92=h1d7d5a4_0
- oauth2client=4.1.3=py_0
- openjpeg=2.5.0=h488ebb8_3
- openssl=3.1.4=hd590300_0
- packaging=23.1=pyhd8ed1ab_0
- paramiko=3.3.1=pyhd8ed1ab_0
- parso=0.8.3=pyhd8ed1ab_0
- pcre2=10.42=hcad00b1_0
- peppy=0.35.7=pyhd8ed1ab_0
- pexpect=4.8.0=pyh1a96a4e_2
- pickleshare=0.7.5=py_1003
- pillow=10.0.1=py311h8aef010_1
- pip=23.2=pyhd8ed1ab_0
- pixman=0.42.2=h59595ed_0
- pkgutil-resolve-name=1.3.10=pyhd8ed1ab_1
- plac=1.4.1=pyhd8ed1ab_1
- platformdirs=3.9.1=pyhd8ed1ab_0
- ply=3.11=py_1
- prettytable=3.9.0=pyhd8ed1ab_0
- prompt-toolkit=3.0.39=pyha770c72_0
- prompt_toolkit=3.0.39=hd8ed1ab_0
- protobuf=4.24.4=py311h46cbc50_0
- psutil=5.9.5=py311h2582759_0
- pthread-stubs=0.4=h36c2ea0_1001
- ptyprocess=0.7.0=pyhd3deb0d_0
- pulp=2.7.0=py311h38be061_1
- pulseaudio-client=16.1=hb77b528_5
- pure_eval=0.2.2=pyhd8ed1ab_0
- pyasn1=0.5.1=pyhd8ed1ab_0
- pyasn1-modules=0.3.0=pyhd8ed1ab_0
- pycparser=2.21=pyhd8ed1ab_0
- pygments=2.15.1=pyhd8ed1ab_0
- pynacl=1.5.0=py311h459d7ec_3
- pyopenssl=23.3.0=pyhd8ed1ab_0
- pyqt=5.15.9=py311hf0fb5b6_5
- pyqt5-sip=12.12.2=py311hb755f60_5
- pysftp=0.2.9=py_1
- pysocks=1.7.1=pyha2e5f31_6
- python=3.11.4=hab00c5b_0_cpython
- python-dateutil=2.8.2=pyhd8ed1ab_0
- python-fastjsonschema=2.19.0=pyhd8ed1ab_0
- python-irodsclient=1.1.9=pyhd8ed1ab_0
- python-tzdata=2023.3=pyhd8ed1ab_0
- python_abi=3.11=3_cp311
- pyu2f=0.1.5=pyhd8ed1ab_0
- pyyaml=6.0.1=py311h459d7ec_1
- pyzmq=25.1.0=py311h75c88c4_0
- qt-main=5.15.8=h7fe3ca9_15
- re2=2023.06.02=h2873b5e_0
- readline=8.2=h8228510_1
- referencing=0.31.1=pyhd8ed1ab_0
- requests=2.31.0=pyhd8ed1ab_0
- reretry=0.11.8=pyhd8ed1ab_0
- rich=13.7.0=pyhd8ed1ab_0
- rpds-py=0.13.2=py311h46250e7_0
- rsa=4.9=pyhd8ed1ab_0
- s3transfer=0.8.2=pyhd8ed1ab_0
- samtools=1.17=hd87286a_1
- seqtk=1.4=he4a0461_1
- setuptools=68.0.0=pyhd8ed1ab_0
- setuptools-scm=8.0.4=pyhd8ed1ab_0
- sip=6.7.12=py311hb755f60_0
- six=1.16.0=pyh6c4a22f_0
- slacker=0.14.0=py_0
- smart_open=6.4.0=pyhd8ed1ab_0
- smmap=5.0.0=pyhd8ed1ab_0
- snakemake=7.32.3=hdfd78af_0
- snakemake-minimal=7.32.3=pyhdfd78af_0
- stack_data=0.6.2=pyhd8ed1ab_0
- stone=3.3.1=pyhd8ed1ab_0
- stopit=1.1.2=py_0
- tabulate=0.9.0=pyhd8ed1ab_1
- throttler=1.2.2=pyhd8ed1ab_0
- tk=8.6.13=noxft_h4845f30_101
- toml=0.10.2=pyhd8ed1ab_0
- tomli=2.0.1=pyhd8ed1ab_0
- toposort=1.10=pyhd8ed1ab_0
- tornado=6.3.2=py311h459d7ec_0
- traitlets=5.9.0=pyhd8ed1ab_0
- typing-extensions=4.7.1=hd8ed1ab_0
- typing_extensions=4.7.1=pyha770c72_0
- tzdata=2023c=h71feb2d_0
- ubiquerg=0.6.3=pyhd8ed1ab_0
- uritemplate=4.1.1=pyhd8ed1ab_0
- veracitools=0.1.3=py_0
- wcwidth=0.2.6=pyhd8ed1ab_0
- wheel=0.40.0=pyhd8ed1ab_1
- widgetsnbextension=4.0.9=pyhd8ed1ab_0
- wrapt=1.16.0=py311h459d7ec_0
- xcb-util=0.4.0=hd590300_1
- xcb-util-image=0.4.0=h8ee46fc_1
- xcb-util-keysyms=0.4.0=h8ee46fc_1
- xcb-util-renderutil=0.3.9=hd590300_1
- xcb-util-wm=0.4.1=h8ee46fc_1
- xkeyboard-config=2.40=hd590300_0
- xorg-kbproto=1.0.7=h7f98852_1002
- xorg-libice=1.1.1=hd590300_0
- xorg-libsm=1.2.4=h7391055_0
- xorg-libx11=1.8.7=h8ee46fc_0
- xorg-libxau=1.0.11=hd590300_0
- xorg-libxdmcp=1.1.3=h7f98852_0
- xorg-libxext=1.3.4=h0b41bf4_2
- xorg-libxrender=0.9.11=hd590300_0
- xorg-renderproto=0.11.1=h7f98852_1002
- xorg-xextproto=7.3.0=h0b41bf4_1003
- xorg-xf86vidmodeproto=2.3.1=h7f98852_1002
- xorg-xproto=7.0.31=h7f98852_1007
- xz=5.2.6=h166bdaf_0
- yaml=0.2.5=h7f98852_2
- yarl=1.9.3=py311h459d7ec_0
- yte=1.5.1=pyha770c72_2
- zeromq=4.3.4=h9c3ff4c_1
- zipp=3.16.2=pyhd8ed1ab_0
- zlib=1.2.13=hd590300_5
- zstd=1.5.5=hfc55251_0
- pip:
- asciitree==0.3.3
- bioframe==0.4.1
- biopython==1.81
- certifi==2023.5.7
- click==8.1.6
- contourpy==1.1.0
- cooler==0.9.2
- cycler==0.11.0
- cython==3.0.0
- Cython==0.29.27
- cytoolz==0.12.2
- dill==0.3.6
- docopt==0.6.2
- fonttools==4.41.1
- h5py==3.9.0
- hicstuff==3.1.6
- imageio==2.31.1
- joblib==1.3.1
- kiwisolver==1.4.4
- lazy-loader==0.3
- llvmlite==0.40.1
- matplotlib==3.7.2
- multiprocess==0.70.14
- networkx==3.1
- numba==0.57.1
- numpy==1.24.4
- pandas==2.0.3
- patsy==0.5.3
- pluggy==1.2.0
- pyfaidx==0.7.2.1
- pyfastx==1.1.0
- pyparsing==3.0.9
- pysam==0.21.0
- pytest==7.4.0
- pytz==2023.3
- pywavelets==1.4.1
- scikit-image==0.21.0
- scikit-learn==1.3.0
- scipy==1.11.1
- simplejson==3.19.1
- sklearn==0.0.post7
- statsmodels==0.14.0
- threadpoolctl==3.2.0
- tifffile==2023.7.18
- toolz==0.12.0
- urllib3==2.0.4
- vulture==2.9.1
prefix: /home/sardine/mambaforge/envs/hicberg