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environment.yaml
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environment.yaml
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name: sm_wgs
channels:
- anaconda
- bioconda
- conda-forge
- defaults
dependencies:
- _libgcc_mutex=0.1=conda_forge
- _openmp_mutex=4.5=2_gnu
- _r-mutex=1.0.1=anacondar_1
- _sysroot_linux-64_curr_repodata_hack=3=h5bd9786_13
- alsa-lib=1.2.6.1=h7f98852_0
- amply=0.1.5=pyhd8ed1ab_0
- appdirs=1.4.4=pyh9f0ad1d_0
- aragorn=1.2.41=hec16e2b_0
- attrs=22.1.0=pyh71513ae_1
- augustus=3.4.0=pl5321h5f9f3d9_6
- bamtools=2.5.1=hd03093a_10
- barrnap=0.9=2
- bbmap=37.66=0
- bedtools=2.30.0=h468198e_3
- binutils_impl_linux-64=2.36.1=h193b22a_2
- biopython=1.79=py37h540881e_2
- blast=2.13.0=hf3cf87c_0
- boost-cpp=1.74.0=h75c5d50_8
- bottleneck=1.3.5=py37hda87dfa_0
- brotli=1.0.9=h166bdaf_7
- brotli-bin=1.0.9=h166bdaf_7
- brotlipy=0.7.0=py37h540881e_1004
- busco=5.4.0=pyhdfd78af_2
- bwa=0.7.17=h7132678_9
- bwidget=1.9.14=ha770c72_1
- bzip2=1.0.8=h7f98852_4
- c-ares=1.18.1=h7f98852_0
- ca-certificates=2023.01.10=h06a4308_0
- cairo=1.16.0=ha61ee94_1013
- capnproto=0.10.2=h6239696_0
- cdbtools=0.99=hd03093a_7
- certifi=2022.12.7=pyhd8ed1ab_0
- cffi=1.15.1=py37h43b0acd_0
- charset-normalizer=2.1.1=pyhd8ed1ab_0
- checkm-genome=1.2.1=pyhdfd78af_0
- circos=0.69.8=hdfd78af_1
- clustalw=2.1=h9f5acd7_7
- cni=1.0.1=ha975731_1
- cni-plugins=1.0.1=ha8f183a_0
- coin-or-cbc=2.10.8=h3786ebc_0
- coin-or-cgl=0.60.6=h6f57e76_1
- coin-or-clp=1.17.7=hc56784d_1
- coin-or-osi=0.108.7=h2720bb7_2
- coin-or-utils=2.11.6=h202d8b1_2
- coincbc=2.10.8=0_metapackage
- configargparse=1.5.3=pyhd8ed1ab_0
- connection_pool=0.0.3=pyhd3deb0d_0
- cryptography=37.0.4=py37h38fbfac_0
- curl=7.83.1=h7bff187_0
- cutadapt=4.1=py37h8902056_1
- cycler=0.11.0=pyhd8ed1ab_0
- datrie=0.8.2=py37h5e8e339_3
- decorator=5.1.1=pyhd8ed1ab_0
- dendropy=4.5.2=pyh3252c3a_0
- diamond=2.0.15=hb97b32f_1
- dnaio=0.9.1=py37h8902056_1
- docutils=0.19=py37h89c1867_0
- dpath=2.0.6=py37h89c1867_1
- drep=3.4.0=pyhdfd78af_0
- entrez-direct=16.2=he881be0_1
- expat=2.4.8=h27087fc_0
- fastani=1.33=h0fdf51a_1
- fastqc=0.11.9=hdfd78af_1
- filelock=3.8.0=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=2.14.0=h8e229c2_0
- fonts-conda-ecosystem=1=0
- fonts-conda-forge=1=0
- fonttools=4.37.1=py37h540881e_0
- freetype=2.12.1=hca18f0e_0
- fribidi=1.0.10=h516909a_0
- gawk=5.1.0=h516909a_0
- gcc_impl_linux-64=12.1.0=hea43390_16
- gettext=0.19.8.1=h73d1719_1008
- gfortran_impl_linux-64=12.1.0=h1db8e46_16
- giflib=5.2.1=h516909a_2
- gitdb=4.0.9=pyhd8ed1ab_0
- gitpython=3.1.27=pyhd8ed1ab_0
- glimmerhmm=3.0.4=h2d50403_2
- gmp=6.2.1=h58526e2_0
- graphite2=1.3.13=he1b5a44_1001
- gsl=2.7=he838d99_0
- gxx_impl_linux-64=12.1.0=hea43390_16
- harfbuzz=5.1.0=hf9f4e7c_0
- hmmer=3.1b2=3
- htslib=1.15.1=h9753748_0
- icu=70.1=h27087fc_0
- idna=3.3=pyhd8ed1ab_0
- importlib-metadata=4.11.4=py37h89c1867_0
- importlib_resources=5.9.0=pyhd8ed1ab_0
- infernal=1.1.4=pl5321hec16e2b_1
- isa-l=2.30.0=ha770c72_4
- jinja2=3.1.2=pyhd8ed1ab_1
- joblib=1.1.0=pyhd8ed1ab_0
- jpeg=9e=h166bdaf_2
- jq=1.6=h36c2ea0_1000
- jsonschema=4.15.0=pyhd8ed1ab_0
- jupyter_core=4.11.1=py37h89c1867_0
- k8=0.2.5=hd03093a_2
- kernel-headers_linux-64=3.10.0=h4a8ded7_13
- keyutils=1.6.1=h166bdaf_0
- kiwisolver=1.4.4=py37h7cecad7_0
- krb5=1.19.3=h3790be6_0
- lcms2=2.12=hddcbb42_0
- ld_impl_linux-64=2.36.1=hea4e1c9_2
- lerc=3.0=h9c3ff4c_0
- libarchive=3.5.2=hb890918_3
- libblas=3.9.0=16_linux64_openblas
- libbrotlicommon=1.0.9=h166bdaf_7
- libbrotlidec=1.0.9=h166bdaf_7
- libbrotlienc=1.0.9=h166bdaf_7
- libcblas=3.9.0=16_linux64_openblas
- libcups=2.3.3=h3e49a29_2
- libcurl=7.83.1=h7bff187_0
- libdb=6.2.32=he1b5a44_0
- libdeflate=1.10=h7f98852_0
- libedit=3.1.20191231=he28a2e2_2
- libev=4.33=h516909a_1
- libffi=3.4.2=h7f98852_5
- libgcc=7.2.0=h69d50b8_2
- libgcc-devel_linux-64=12.1.0=h1ec3361_16
- libgcc-ng=12.1.0=h8d9b700_16
- libgd=2.3.3=h18fbbfe_3
- libgfortran-ng=12.1.0=h69a702a_16
- libgfortran5=12.1.0=hdcd56e2_16
- libglib=2.72.1=h2d90d5f_0
- libgomp=12.1.0=h8d9b700_16
- libiconv=1.16=h516909a_0
- libidn11=1.34=h1cef754_0
- libidn2=2.3.3=h166bdaf_0
- liblapack=3.9.0=16_linux64_openblas
- liblapacke=3.9.0=16_linux64_openblas
- libnghttp2=1.47.0=hdcd2b5c_1
- libnsl=2.0.0=h7f98852_0
- libopenblas=0.3.21=pthreads_h78a6416_3
- libpng=1.6.37=h753d276_4
- libsanitizer=12.1.0=ha89aaad_16
- libseccomp=2.4.4=h166bdaf_3
- libsqlite=3.39.3=h753d276_0
- libssh2=1.10.0=haa6b8db_3
- libstdcxx-devel_linux-64=12.1.0=h1ec3361_16
- libstdcxx-ng=12.1.0=ha89aaad_16
- libtiff=4.4.0=h0fcbabc_0
- libunistring=0.9.10=h14c3975_0
- libuuid=2.32.1=h14c3975_1000
- libwebp=1.2.4=h522a892_0
- libwebp-base=1.2.4=h166bdaf_0
- libxcb=1.13=h7f98852_1004
- libxml2=2.9.14=h22db469_4
- libzlib=1.2.12=h166bdaf_2
- llvm-openmp=8.0.1=hc9558a2_0
- lp_solve=5.5.2.5=h14c3975_1001
- lz4-c=1.9.4=hcb278e6_0
- lzo=2.10=h516909a_1000
- make=4.3=hd18ef5c_1
- markupsafe=2.1.1=py37h540881e_1
- mash=2.3=hd3113c8_4
- matplotlib-base=3.5.3=py37hf395dca_2
- metaeuk=6.a5d39d9=pl5321hf1761c0_1
- metis=5.1.0=he1b5a44_1006
- minced=0.4.2=hdfd78af_1
- minimap2=2.24=h7132678_1
- mpfr=4.1.0=h9202a9a_1
- mummer4=4.0.0rc1=pl5321h87f3376_3
- munkres=1.0.7=py_1
- mysql-connector-c=6.1.11=h6eb9d5d_1007
- nbformat=5.4.0=pyhd8ed1ab_0
- ncurses=6.3=h27087fc_1
- nomkl=1.0=h5ca1d4c_0
- numexpr=2.8.3=py37h85a3170_100
- numpy=1.21.6=py37h976b520_0
- oniguruma=6.9.8=h166bdaf_0
- openjdk=17.0.3=h1e1ecb3_1
- openjpeg=2.5.0=h7d73246_1
- openmp=8.0.1=0
- openssl=1.1.1t=h0b41bf4_0
- packaging=21.3=pyhd8ed1ab_0
- paml=4.9=hec16e2b_7
- pandas=1.3.5=py37h8c16a72_0
- pango=1.50.9=hc4f8a73_0
- parallel=20220722=ha770c72_0
- patsy=0.5.2=pyhd8ed1ab_0
- pbzip2=1.1.13=0
- pcre=8.45=h9c3ff4c_0
- pcre2=10.37=hc3806b6_1
- perl=5.32.1=2_h7f98852_perl5
- perl-algorithm-diff=1.1903=0
- perl-apache-test=1.43=pl5321hdfd78af_0
- perl-app-cpanminus=1.7039=2
- perl-archive-tar=2.40=pl5321hdfd78af_0
- perl-autoloader=5.74=pl5321hdfd78af_3
- perl-base=2.23=pl5321hdfd78af_2
- perl-bio-asn1-entrezgene=1.73=pl5321hdfd78af_3
- perl-bio-coordinate=1.007001=pl5321hdfd78af_3
- perl-bio-featureio=1.6.905=0
- perl-bio-samtools=1.43=pl5321h7132678_3
- perl-bio-searchio-hmmer=1.7.3=pl5321hdfd78af_0
- perl-bio-tools-phylo-paml=1.7.3=pl5321hdfd78af_3
- perl-bio-tools-run-alignment-clustalw=1.7.4=pl5321hdfd78af_3
- perl-bio-tools-run-alignment-tcoffee=1.7.4=pl5321hdfd78af_4
- perl-bioperl=1.7.8=hdfd78af_1
- perl-bioperl-core=1.7.8=pl5321h9ee0642_0
- perl-bioperl-run=1.007003=pl5321hdfd78af_0
- perl-business-isbn=3.007=pl5321hdfd78af_0
- perl-business-isbn-data=20210112.006=pl5321hdfd78af_0
- perl-capture-tiny=0.48=pl5321hdfd78af_2
- perl-carp=1.38=pl5321hdfd78af_4
- perl-class-data-inheritable=0.09=pl5321hdfd78af_0
- perl-class-load=0.25=pl5321hdfd78af_1
- perl-class-load-xs=0.10=pl5321h9f5acd7_6
- perl-class-method-modifiers=2.13=pl5321hdfd78af_0
- perl-clone=0.42=pl5321hec16e2b_2
- perl-common-sense=3.75=pl5321hdfd78af_0
- perl-compress-raw-bzip2=2.201=pl5321h87f3376_1
- perl-compress-raw-zlib=2.105=pl5321h87f3376_0
- perl-config-general=2.65=pl5321hdfd78af_0
- perl-constant=1.33=pl5321hdfd78af_2
- perl-cpan-meta=2.150010=pl5321hdfd78af_1
- perl-cpan-meta-requirements=2.140=pl5321hdfd78af_1
- perl-cpan-meta-yaml=0.018=pl5321hdfd78af_1
- perl-data-dumper=2.183=pl5321hec16e2b_1
- perl-data-optlist=0.112=pl5321hdfd78af_0
- perl-db_file=1.858=pl5321h166bdaf_0
- perl-dbi=1.643=pl5321hec16e2b_1
- perl-devel-globaldestruction=0.14=pl5321hdfd78af_1
- perl-devel-overloadinfo=0.007=pl5321hdfd78af_0
- perl-devel-stacktrace=2.04=pl5321hdfd78af_1
- perl-digest-hmac=1.04=pl5321hdfd78af_0
- perl-digest-md5=2.58=pl5321hec16e2b_1
- perl-digest-perl-md5=1.9=0
- perl-dist-checkconflicts=0.11=0
- perl-dynaloader=1.25=pl5321hdfd78af_2
- perl-encode=3.19=pl5321hec16e2b_1
- perl-encode-locale=1.05=pl5321hdfd78af_7
- perl-eval-closure=0.14=pl5321h9f5acd7_6
- perl-exception-class=1.45=pl5321hdfd78af_0
- perl-exporter=5.72=pl5321hdfd78af_2
- perl-exporter-tiny=1.002002=pl5321hdfd78af_0
- perl-extutils-cbuilder=0.280230=pl5321hdfd78af_2
- perl-extutils-makemaker=6.66=0
- perl-extutils-manifest=1.73=pl5321hdfd78af_0
- perl-extutils-parsexs=3.44=pl5321hdfd78af_0
- perl-file-listing=6.15=pl5321hdfd78af_0
- perl-file-path=2.09=0
- perl-file-slurp-tiny=0.004=0
- perl-file-sort=1.01=0
- perl-file-spec=3.48_01=pl5321hdfd78af_2
- perl-file-temp=0.2304=pl5321hd8ed1ab_0
- perl-file-which=1.20=0
- perl-font-ttf=1.06=pl5321hdfd78af_1
- perl-gd=2.76=pl5321h5b5514e_1
- perl-getopt-long=2.52=pl5321hdfd78af_0
- perl-html-parser=3.78=pl5321h9f5acd7_0
- perl-html-tagset=3.20=0
- perl-http-cookies=6.10=pl5321hdfd78af_0
- perl-http-daemon=6.14=pl5321hdfd78af_0
- perl-http-date=6.05=pl5321hdfd78af_0
- perl-http-message=6.36=pl5321hdfd78af_0
- perl-http-negotiate=6.01=0
- perl-io-compress=2.106=pl5321h87f3376_1
- perl-io-html=1.004=pl5321hdfd78af_0
- perl-io-socket-ssl=2.074=pl5321hdfd78af_0
- perl-io-string=1.08=0
- perl-io-tty=1.16=pl5321hec16e2b_1
- perl-io-zlib=1.11=pl5321hdfd78af_0
- perl-ipc-cmd=1.04=pl5321hdfd78af_0
- perl-ipc-run=20200505.0=pl5321hdfd78af_0
- perl-json=4.09=pl5321hdfd78af_0
- perl-json-pp=4.11=pl5321hdfd78af_0
- perl-json-xs=2.34=pl5321h9f5acd7_5
- perl-libwww-perl=6.67=pl5321hdfd78af_0
- perl-libxml-perl=0.08=0
- perl-list-moreutils=0.430=pl5321hdfd78af_0
- perl-list-moreutils-xs=0.430=pl5321hec16e2b_1
- perl-locale-maketext-simple=0.21=pl5321hdfd78af_3
- perl-lwp-mediatypes=6.04=pl5321hdfd78af_1
- perl-math-bezier=0.01=0
- perl-math-round=0.07=0
- perl-math-vecstat=0.08=0
- perl-mime-base64=3.16=pl5321hec16e2b_2
- perl-module-build=0.4231=pl5321hdfd78af_0
- perl-module-corelist=5.20220620=pl5321hdfd78af_0
- perl-module-implementation=0.09=0
- perl-module-load=0.34=pl5321hdfd78af_0
- perl-module-load-conditional=0.68=0
- perl-module-metadata=1.000037=pl5321hdfd78af_0
- perl-module-runtime=0.016=pl5321hdfd78af_2
- perl-module-runtime-conflicts=0.003=pl5321hdfd78af_1
- perl-moo=2.005004=pl5321hdfd78af_0
- perl-moose=2.2201=pl5321hec16e2b_2
- perl-mro-compat=0.15=pl5321hdfd78af_0
- perl-net-http=6.22=pl5321hdfd78af_0
- perl-net-ssleay=1.92=pl5321h0e0aaa8_1
- perl-ntlm=1.09=1
- perl-number-format=1.75=1
- perl-package-deprecationmanager=0.17=pl5321hdfd78af_1
- perl-package-stash=0.40=pl5321h87f3376_1
- perl-package-stash-xs=0.29=pl5321h87f3376_1
- perl-parallel-forkmanager=2.02=pl5321hdfd78af_1
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