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environment.yml
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name: arbo_comparison
channels:
- conda-forge
- bioconda
- defaults
dependencies:
- _libgcc_mutex=0.1=conda_forge
- _openmp_mutex=4.5=1_gnu
- _r-mutex=1.0.1=anacondar_1
- aioeasywebdav=2.4.0=py37hc8dfbb8_1001
- aiohttp=3.7.4.post0=py37h5e8e339_0
- alsa-lib=1.2.3=h516909a_0
- amply=0.1.4=py_0
- appdirs=1.4.4=pyh9f0ad1d_0
- async-timeout=3.0.1=py_1000
- atk-1.0=2.36.0=h3371d22_4
- attmap=0.13.0=pyhd8ed1ab_0
- attrs=21.2.0=pyhd8ed1ab_0
- backports=1.0=py_2
- backports.functools_lru_cache=1.6.4=pyhd8ed1ab_0
- bamclipper=1.0.0=pl526_0
- bcrypt=3.2.0=py37h8f50634_1
- boto3=1.18.23=pyhd8ed1ab_0
- botocore=1.21.23=pyhd8ed1ab_0
- brotlipy=0.7.0=py37hb5d75c8_1001
- bwa=0.7.17=h5bf99c6_8
- bzip2=1.0.8=h7f98852_4
- c-ares=1.17.2=h7f98852_0
- ca-certificates=2021.10.8=ha878542_0
- cachetools=4.2.2=pyhd8ed1ab_0
- cairo=1.16.0=h6cf1ce9_1008
- certifi=2021.10.8=py37h89c1867_0
- cffi=1.14.6=py37hc58025e_0
- chardet=4.0.0=py37h89c1867_1
- charset-normalizer=2.0.0=pyhd8ed1ab_0
- coincbc=2.10.5=hcee13e7_1
- configargparse=1.5.2=pyhd8ed1ab_0
- connection_pool=0.0.3=pyhd3deb0d_0
- cryptography=3.4.7=py37h5d9358c_0
- cutadapt=3.4=py37h73a75cf_1
- cycler=0.10.0=py_2
- datrie=0.8.2=py37h5e8e339_2
- decorator=4.4.2=py_0
- dnaio=0.5.1=py37h73a75cf_0
- docutils=0.17.1=py37h89c1867_0
- dropbox=11.16.0=pyhd8ed1ab_0
- expat=2.4.1=h9c3ff4c_0
- fastp=0.22.0=h2e03b76_0
- fftw=3.3.9=nompi_hcdd671c_101
- filechunkio=1.8=py_2
- filelock=3.0.12=pyh9f0ad1d_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=2.13.1=hba837de_1005
- fonts-conda-ecosystem=1=0
- fonts-conda-forge=1=0
- freetype=2.10.4=h0708190_1
- fribidi=1.0.10=h516909a_0
- ftputil=5.0.1=pyhd8ed1ab_0
- gdk-pixbuf=2.42.6=h04a7f16_0
- gettext=0.21.0=hf68c758_0
- ghostscript=9.54.0=h9c3ff4c_1
- giflib=5.2.1=h516909a_2
- gitdb=4.0.7=pyhd8ed1ab_0
- gitpython=3.1.18=pyhd8ed1ab_0
- google-api-core=1.31.1=pyhd8ed1ab_0
- google-api-python-client=2.17.0=pyhd8ed1ab_0
- google-auth=1.34.0=pyh6c4a22f_0
- google-auth-httplib2=0.1.0=pyhd8ed1ab_0
- google-cloud-core=1.7.2=pyh6c4a22f_0
- google-cloud-storage=1.41.0=pyh6c4a22f_0
- google-crc32c=1.1.2=py37hab72019_0
- google-resumable-media=1.3.3=pyh6c4a22f_0
- googleapis-common-protos=1.53.0=py37h89c1867_0
- graphite2=1.3.14=h23475e2_0
- graphviz=2.48.0=h85b4f2f_0
- grpcio=1.38.1=py37hb27c1af_0
- gtk2=2.24.33=h539f30e_1
- gts=0.7.6=h64030ff_2
- harfbuzz=2.8.2=h83ec7ef_0
- htslib=1.12=h9093b5e_1
- httplib2=0.19.1=pyhd8ed1ab_0
- icu=68.1=h58526e2_0
- idna=3.2=pyhd3eb1b0_0
- imagemagick=7.0.11_14=pl5320hb118871_0
- importlib-metadata=4.6.4=py37h89c1867_0
- importlib_metadata=4.6.4=hd8ed1ab_0
- iniconfig=1.1.1=pyh9f0ad1d_0
- ipython_genutils=0.2.0=py_1
- isa-l=2.30.0=ha770c72_4
- jbig=2.1=h7f98852_2003
- jinja2=3.0.1=pyhd8ed1ab_0
- jmespath=0.10.0=pyh9f0ad1d_0
- jpeg=9d=h516909a_0
- jsonschema=3.2.0=py37hc8dfbb8_1
- jupyter_core=4.7.1=py37h89c1867_0
- k8=0.2.5=h9a82719_1
- kiwisolver=1.3.1=py37h2527ec5_1
- krb5=1.19.2=hcc1bbae_0
- lcms2=2.12=hddcbb42_0
- ld_impl_linux-64=2.35.1=h7274673_9
- ldc=1.20.0=h9a1ace1_1
- lerc=2.2.1=h9c3ff4c_0
- libblas=3.9.0=11_linux64_openblas
- libcblas=3.9.0=11_linux64_openblas
- libcrc32c=1.1.1=he1b5a44_2
- libcurl=7.78.0=h2574ce0_0
- libdeflate=1.7=h7f98852_5
- libedit=3.1.20210216=h27cfd23_1
- libev=4.33=h516909a_1
- libffi=3.3=he6710b0_2
- libgcc=7.2.0=h69d50b8_2
- libgcc-ng=11.1.0=hc902ee8_8
- libgd=2.3.2=h78a0170_0
- libgfortran-ng=11.1.0=h69a702a_8
- libgfortran5=11.1.0=h6c583b3_8
- libglib=2.68.3=h3e27bee_0
- libgomp=11.1.0=hc902ee8_8
- libiconv=1.16=h516909a_0
- liblapack=3.9.0=11_linux64_openblas
- libnghttp2=1.43.0=h812cca2_0
- libopenblas=0.3.17=pthreads_h8fe5266_1
- libpng=1.6.37=hed695b0_2
- libprotobuf=3.17.2=h780b84a_1
- librsvg=2.50.7=hc3c00ef_0
- libsodium=1.0.18=h516909a_1
- libssh2=1.9.0=ha56f1ee_6
- libstdcxx-ng=11.1.0=h56837e0_8
- libtiff=4.3.0=hf544144_1
- libtool=2.4.6=h58526e2_1007
- libuuid=2.32.1=h14c3975_1000
- libwebp=1.2.1=h3452ae3_0
- libwebp-base=1.2.1=h7f98852_0
- libxcb=1.14=h7b6447c_0
- libxml2=2.9.12=h72842e0_0
- logmuse=0.2.6=pyh8c360ce_0
- lz4-c=1.9.3=h9c3ff4c_1
- markupsafe=2.0.1=py37h5e8e339_0
- matplotlib-base=3.4.2=py37hdd32ed1_0
- minimap2=2.22=h5bf99c6_0
- more-itertools=8.8.0=pyhd8ed1ab_0
- multidict=5.1.0=py37h5e8e339_1
- nbformat=5.1.3=pyhd8ed1ab_0
- ncurses=6.2=he6710b0_1
- networkx=2.6.2=pyhd8ed1ab_0
- numpy=1.21.2=py37h31617e3_0
- oauth2client=4.1.3=py_0
- olefile=0.46=pyh9f0ad1d_1
- openjdk=11.0.9.1=h5cc2fde_1
- openjpeg=2.4.0=hb52868f_1
- openssl=1.1.1l=h7f98852_0
- packaging=21.0=pyhd8ed1ab_0
- pandas=1.3.1=py37h219a48f_0
- pango=1.48.8=hb8ff022_0
- parallel=20210822=ha770c72_0
- paramiko=2.7.2=pyh9f0ad1d_0
- pcre=8.45=h9c3ff4c_0
- peppy=0.31.1=pyhd8ed1ab_0
- perl=5.26.2=h36c2ea0_1008
- picard=2.26.3=hdfd78af_0
- pigz=2.6=h27826a3_0
- pillow=8.3.1=py37h0f21c89_0
- pip=21.2.2=py37h06a4308_0
- pixman=0.40.0=h36c2ea0_0
- pkg-config=0.29.2=h516909a_1008
- pluggy=0.13.1=py37h89c1867_4
- ply=3.11=py_1
- prettytable=2.1.0=pyhd8ed1ab_0
- protobuf=3.17.2=py37hcd2ae1e_0
- psutil=5.8.0=py37h5e8e339_1
- pulp=2.5.0=py37h89c1867_0
- py=1.10.0=pyhd3deb0d_0
- pyasn1=0.4.8=py_0
- pyasn1-modules=0.2.8=py_0
- pycparser=2.20=pyh9f0ad1d_2
- pygments=2.10.0=pyhd8ed1ab_0
- pygraphviz=1.7=py37h0b1d2a2_0
- pynacl=1.4.0=py37h8f50634_2
- pyopenssl=20.0.1=pyhd8ed1ab_0
- pyparsing=2.4.7=pyh9f0ad1d_0
- pyrsistent=0.17.3=py37h5e8e339_2
- pysftp=0.2.9=py_1
- pysocks=1.7.1=py37h89c1867_3
- pytest=6.2.4=py37h89c1867_0
- python=3.7.9=h7579374_0
- python-dateutil=2.8.2=pyhd8ed1ab_0
- python-irodsclient=1.0.0=pyhd8ed1ab_0
- python-isal=0.11.0=py37h5e8e339_0
- python_abi=3.7=2_cp37m
- pytz=2021.1=pyhd8ed1ab_0
- pyu2f=0.1.5=pyhd8ed1ab_0
- pyyaml=5.4.1=py37h5e8e339_1
- r-base=3.2.2=0
- ratelimiter=1.2.0=py37hc8dfbb8_1001
- readline=8.1=h27cfd23_0
- requests=2.26.0=pyhd8ed1ab_0
- rsa=4.7.2=pyh44b312d_0
- s3transfer=0.5.0=pyhd8ed1ab_0
- sambamba=0.8.1=h41abebc_0
- samtools=1.12=h9aed4be_1
- scipy=1.7.0=py37h29e03ee_1
- seqkit=0.16.1=h9ee0642_0
- setuptools=52.0.0=py37h06a4308_0
- simplejson=3.17.3=py37h5e8e339_0
- six=1.16.0=pyh6c4a22f_0
- slacker=0.14.0=py_0
- smart_open=5.2.0=pyhd8ed1ab_0
- smmap=3.0.5=pyh44b312d_0
- snakemake=6.7.0=hdfd78af_0
- snakemake-minimal=6.7.0=pyhdfd78af_0
- sqlite=3.36.0=hc218d9a_0
- stone=3.2.1=pyhd8ed1ab_0
- stopit=1.1.2=py_0
- tabulate=0.8.9=pyhd8ed1ab_0
- tk=8.6.10=hbc83047_0
- toml=0.10.2=pyhd8ed1ab_0
- toposort=1.6=pyhd8ed1ab_0
- tornado=6.1=py37h5e8e339_1
- traitlets=5.0.5=py_0
- typing-extensions=3.10.0.0=hd8ed1ab_0
- typing_extensions=3.10.0.0=pyha770c72_0
- ubiquerg=0.6.1=pyh9f0ad1d_0
- uritemplate=3.0.1=py_0
- urllib3=1.26.6=pyhd8ed1ab_0
- veracitools=0.1.3=py_0
- wcwidth=0.2.5=pyh9f0ad1d_2
- wheel=0.37.0=pyhd3eb1b0_0
- wrapt=1.12.1=py37h5e8e339_3
- xmlrunner=1.7.7=py_0
- xopen=1.1.0=py37h89c1867_3
- xorg-fixesproto=5.0=h7f98852_1002
- xorg-inputproto=2.3.2=h7f98852_1002
- xorg-kbproto=1.0.7=h14c3975_1002
- xorg-libice=1.0.10=h516909a_0
- xorg-libsm=1.2.3=hd9c2040_1000
- xorg-libx11=1.7.2=h7f98852_0
- xorg-libxau=1.0.9=h14c3975_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-libxt=1.2.1=h7f98852_2
- xorg-libxtst=1.2.3=h7f98852_1002
- xorg-recordproto=1.14.2=h7f98852_1002
- xorg-renderproto=0.11.1=h14c3975_1002
- xorg-xextproto=7.3.0=h14c3975_1002
- xorg-xproto=7.0.31=h14c3975_1007
- xz=5.2.5=h7b6447c_0
- yaml=0.2.5=h516909a_0
- yarl=1.5.1=py37h8f50634_0
- zipp=3.5.0=pyhd8ed1ab_0
- zlib=1.2.11=h7b6447c_3
- zstd=1.5.0=ha95c52a_0
- pip:
- biopython==1.79
- pysam==0.17.0
prefix: /mnt/scratch2/miniconda3/envs/arbo_comparison