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env.yaml
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name: wgs
channels:
- bioconda
- r
- conda-forge
- defaults
dependencies:
- _libgcc_mutex=0.1=conda_forge
- _openmp_mutex=4.5=2_gnu
- alsa-lib=1.2.7.2=h166bdaf_0
- appdirs=1.4.4=pyh9f0ad1d_0
- asttokens=2.2.1=pyhd8ed1ab_0
- backcall=0.2.0=pyh9f0ad1d_0
- backports=1.0=pyhd8ed1ab_3
- backports.functools_lru_cache=1.6.4=pyhd8ed1ab_0
- brotli=1.0.9=h166bdaf_8
- brotli-bin=1.0.9=h166bdaf_8
- brotlipy=0.7.0=py39hb9d737c_1005
- bwa=0.7.17=h7132678_9
- bzip2=1.0.8=h7f98852_4
- c-ares=1.18.1=h7f98852_0
- ca-certificates=2022.12.7=ha878542_0
- cairo=1.16.0=ha61ee94_1014
- certifi=2022.12.7=pyhd8ed1ab_0
- cffi=1.15.1=py39he91dace_3
- charset-normalizer=2.1.1=pyhd8ed1ab_0
- click=8.1.3=unix_pyhd8ed1ab_2
- coloredlogs=15.0.1=pyhd8ed1ab_3
- colormath=3.0.0=py_2
- comm=0.1.2=pyhd8ed1ab_0
- contourpy=1.0.7=py39h4b4f3f3_0
- cryptography=39.0.1=py39h079d5ae_0
- curl=7.87.0=hdc1c0ab_0
- cycler=0.11.0=pyhd8ed1ab_0
- debugpy=1.6.6=py39h227be39_0
- decorator=5.1.1=pyhd8ed1ab_0
- et_xmlfile=1.1.0=pyhd8ed1ab_0
- executing=1.2.0=pyhd8ed1ab_0
- expat=2.5.0=h27087fc_0
- fastqc=0.11.9=hdfd78af_1
- 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=2.14.2=h14ed4e7_0
- fonts-conda-ecosystem=1=0
- fonts-conda-forge=1=0
- fonttools=4.38.0=py39hb9d737c_1
- freetype=2.12.1=hca18f0e_1
- future=0.18.3=pyhd8ed1ab_0
- gettext=0.21.1=h27087fc_0
- giflib=5.2.1=h36c2ea0_2
- graphite2=1.3.13=h58526e2_1001
- harfbuzz=5.3.0=h418a68e_0
- htslib=1.10=h244ad75_0
- humanfriendly=10.0=py39hf3d152e_4
- icu=70.1=h27087fc_0
- idna=3.4=pyhd8ed1ab_0
- importlib-metadata=6.0.0=pyha770c72_0
- importlib_metadata=6.0.0=hd8ed1ab_0
- ipykernel=6.21.2=pyh210e3f2_0
- ipython=8.10.0=pyh41d4057_0
- jedi=0.18.2=pyhd8ed1ab_0
- jinja2=3.1.2=pyhd8ed1ab_1
- joblib=1.2.0=pyhd8ed1ab_0
- jpeg=9e=h0b41bf4_3
- jupyter_client=8.0.2=pyhd8ed1ab_0
- jupyter_core=5.2.0=py39hf3d152e_0
- keyutils=1.6.1=h166bdaf_0
- kiwisolver=1.4.4=py39hf939315_1
- krb5=1.20.1=h81ceb04_0
- lcms2=2.12=hddcbb42_0
- ld_impl_linux-64=2.40=h41732ed_0
- libblas=3.9.0=16_linux64_openblas
- libbrotlicommon=1.0.9=h166bdaf_8
- libbrotlidec=1.0.9=h166bdaf_8
- libbrotlienc=1.0.9=h166bdaf_8
- libcblas=3.9.0=16_linux64_openblas
- libcups=2.3.3=h36d4200_3
- libcurl=7.87.0=hdc1c0ab_0
- libdeflate=1.3=h516909a_0
- libedit=3.1.20191231=he28a2e2_2
- libev=4.33=h516909a_1
- libffi=3.4.2=h7f98852_5
- libgcc-ng=12.2.0=h65d4601_19
- libgfortran-ng=12.2.0=h69a702a_19
- libgfortran5=12.2.0=h337968e_19
- libglib=2.74.1=h606061b_1
- libgomp=12.2.0=h65d4601_19
- libiconv=1.17=h166bdaf_0
- liblapack=3.9.0=16_linux64_openblas
- libnghttp2=1.51.0=hff17c54_0
- libnsl=2.0.0=h7f98852_0
- libopenblas=0.3.21=pthreads_h78a6416_3
- libpng=1.6.39=h753d276_0
- libsodium=1.0.18=h36c2ea0_1
- libsqlite=3.40.0=h753d276_0
- libssh2=1.10.0=hf14f497_3
- libstdcxx-ng=12.2.0=h46fd767_19
- libtiff=4.2.0=hf544144_3
- libuuid=2.32.1=h7f98852_1000
- libwebp-base=1.2.4=h166bdaf_0
- libxcb=1.13=h7f98852_1004
- libzlib=1.2.13=h166bdaf_4
- lzstring=1.0.4=py_1001
- markdown=3.4.1=pyhd8ed1ab_0
- markdown-it-py=2.1.0=pyhd8ed1ab_0
- markupsafe=2.1.2=py39h72bdee0_0
- matplotlib-base=3.6.3=py39he190548_0
- matplotlib-inline=0.1.6=pyhd8ed1ab_0
- mdurl=0.1.0=pyhd8ed1ab_0
- multiqc=1.14=pyhdfd78af_0
- munkres=1.1.4=pyh9f0ad1d_0
- ncurses=6.3=h27087fc_1
- nest-asyncio=1.5.6=pyhd8ed1ab_0
- networkx=3.0=pyhd8ed1ab_0
- numpy=1.24.2=py39h7360e5f_0
- olefile=0.46=pyh9f0ad1d_1
- openjdk=17.0.3=hea3dc9f_3
- openjpeg=2.4.0=hb52868f_1
- openpyxl=3.1.1=py39h72bdee0_0
- openssl=3.1.0=h0b41bf4_0
- packaging=23.0=pyhd8ed1ab_0
- pandas=1.5.3=py39h2ad29b5_0
- parso=0.8.3=pyhd8ed1ab_0
- patsy=0.5.3=pyhd8ed1ab_0
- pcre2=10.40=hc3806b6_0
- perl=5.32.1=2_h7f98852_perl5
- pexpect=4.8.0=pyh1a96a4e_2
- picard=2.18.29=0
- pickleshare=0.7.5=py_1003
- pillow=8.2.0=py39hf95b381_1
- pip=23.0=pyhd8ed1ab_0
- pixman=0.40.0=h36c2ea0_0
- platformdirs=3.0.0=pyhd8ed1ab_0
- pooch=1.6.0=pyhd8ed1ab_0
- prompt-toolkit=3.0.36=pyha770c72_0
- psutil=5.9.4=py39hb9d737c_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=2.14.0=pyhd8ed1ab_0
- pyopenssl=23.0.0=pyhd8ed1ab_0
- pyparsing=3.0.9=pyhd8ed1ab_0
- pyreadstat=1.2.1=py39hf95bbec_0
- pysocks=1.7.1=pyha2e5f31_6
- python=3.9.16=h2782a2a_0_cpython
- python-dateutil=2.8.2=pyhd8ed1ab_0
- python_abi=3.9=3_cp39
- pytz=2022.7.1=pyhd8ed1ab_0
- pyyaml=6.0=py39hb9d737c_5
- pyzmq=25.0.0=py39h0be026e_0
- readline=8.1.2=h0f457ee_0
- requests=2.28.2=pyhd8ed1ab_0
- rich=13.3.1=pyhd8ed1ab_1
- rich-click=1.6.1=pyhd8ed1ab_0
- samtools=1.6=h3f2fef4_8
- scikit-learn=1.2.1=py39h86b2a18_0
- scipy=1.10.0=py39h7360e5f_2
- seaborn=0.12.2=hd8ed1ab_0
- seaborn-base=0.12.2=pyhd8ed1ab_0
- setuptools=67.1.0=pyhd8ed1ab_0
- simplejson=3.18.3=py39h72bdee0_0
- six=1.16.0=pyh6c4a22f_0
- spectra=0.0.11=py_1
- stack_data=0.6.2=pyhd8ed1ab_0
- statsmodels=0.13.5=py39h2ae25f5_2
- threadpoolctl=3.1.0=pyh8a188c0_0
- tk=8.6.12=h27826a3_0
- tornado=6.2=py39hb9d737c_1
- traitlets=5.9.0=pyhd8ed1ab_0
- tree=2.0.0=h7f98852_0
- trimmomatic=0.39=hdfd78af_2
- typing-extensions=4.4.0=hd8ed1ab_0
- typing_extensions=4.4.0=pyha770c72_0
- tzdata=2022g=h191b570_0
- unicodedata2=15.0.0=py39hb9d737c_0
- urllib3=1.26.14=pyhd8ed1ab_0
- wcwidth=0.2.6=pyhd8ed1ab_0
- wheel=0.38.4=pyhd8ed1ab_0
- xorg-fixesproto=5.0=h7f98852_1002
- xorg-inputproto=2.3.2=h7f98852_1002
- xorg-kbproto=1.0.7=h7f98852_1002
- xorg-libice=1.0.10=h7f98852_0
- xorg-libsm=1.2.3=hd9c2040_1000
- xorg-libx11=1.7.2=h7f98852_0
- xorg-libxau=1.0.9=h7f98852_0
- xorg-libxdmcp=1.1.3=h7f98852_0
- xorg-libxext=1.3.4=h7f98852_1
- xorg-libxfixes=5.0.3=h7f98852_1004
- xorg-libxi=1.7.10=h7f98852_0
- xorg-libxrender=0.9.10=h7f98852_1003
- xorg-libxtst=1.2.3=h7f98852_1002
- xorg-recordproto=1.14.2=h7f98852_1002
- xorg-renderproto=0.11.1=h7f98852_1002
- xorg-xextproto=7.3.0=h7f98852_1002
- xorg-xproto=7.0.31=h7f98852_1007
- xz=5.2.6=h166bdaf_0
- yaml=0.2.5=h7f98852_2
- zeromq=4.3.4=h9c3ff4c_1
- zipp=3.13.0=pyhd8ed1ab_0
- zlib=1.2.13=h166bdaf_4
- zstd=1.5.2=h3eb15da_6
- pip:
- pysam==0.20.0
prefix: /home/d.gaillard/miniconda3/envs/wgs