env_export.yml

name: bacterial_wgs_training
channels:
  - conda-forge
  - bioconda
  - defaults
dependencies:
  - _libgcc_mutex=0.1=conda_forge
  - _openmp_mutex=4.5=2_gnu
  - _r-mutex=1.0.1=anacondar_1
  - abacas=1.3.1=pl5262hdfd78af_1
  - aragorn=1.2.41=hec16e2b_0
  - barrnap=0.9=hdfd78af_4
  - bc=1.07.1=h7f98852_0
  - bcftools=1.9=h68d8f2e_9
  - bedtools=2.29.2=hc088bd4_0
  - binutils_impl_linux-64=2.36.1=h193b22a_2
  - binutils_linux-64=2.36=hf3e587d_33
  - biopython=1.79=py36h8f6f2f9_0
  - blast=2.9.0=pl526h3066fca_4
  - bowtie2=2.4.5=py36hd4290be_0
  - brotlipy=0.7.0=py36h8f6f2f9_1001
  - bwa=0.7.17=h7132678_9
  - bwidget=1.9.14=ha770c72_1
  - bzip2=1.0.8=h7f98852_4
  - ca-certificates=2022.9.24=ha878542_0
  - cairo=1.16.0=hcf35c78_1003
  - capnproto=0.10.2=h6239696_0
  - certifi=2021.5.30=py36h5fab9bb_0
  - cffi=1.14.4=py36h211aa47_0
  - charset-normalizer=2.1.1=pyhd8ed1ab_0
  - circos=0.69.8=hdfd78af_1
  - click=8.0.1=py36h5fab9bb_0
  - clustalw=2.1=h9f5acd7_7
  - coloredlogs=15.0.1=py36h5fab9bb_1
  - colormath=3.0.0=py_2
  - cryptography=35.0.0=py36hb60f036_0
  - curl=7.68.0=hf8cf82a_0
  - cycler=0.11.0=pyhd8ed1ab_0
  - dendropy=4.5.2=pyh3252c3a_0
  - emboss=6.6.0=h53bb281_3
  - entrez-direct=16.2=he881be0_1
  - expat=2.4.9=h27087fc_0
  - fastp=0.20.1=h2e03b76_1
  - fastqc=0.11.9=hdfd78af_1
  - fasttree=2.1.11=hec16e2b_1
  - font-ttf-dejavu-sans-mono=2.37=hab24e00_0
  - fontconfig=2.14.0=hc2a2eb6_1
  - freebayes=1.3.2=py36ha64edc8_2
  - freetype=2.12.1=hca18f0e_0
  - fribidi=1.0.10=h36c2ea0_0
  - future=0.18.2=py36h5fab9bb_3
  - gawk=5.1.0=h7f98852_0
  - gcc_impl_linux-64=7.5.0=habd7529_20
  - gcc_linux-64=7.5.0=h47867f9_33
  - gettext=0.21.1=h27087fc_0
  - gfortran_impl_linux-64=7.5.0=h56cb351_20
  - gfortran_linux-64=7.5.0=h78c8a43_33
  - giflib=5.2.1=h36c2ea0_2
  - glib=2.66.3=h58526e2_0
  - glimmerhmm=3.0.4=pl526hf484d3e_3
  - graphite2=1.3.13=h58526e2_1001
  - graphviz=2.42.3=h0511662_0
  - gsl=2.5=h294904e_1
  - gubbins=2.3.4=py36hed695b0_2
  - gxx_impl_linux-64=7.5.0=hd0bb8aa_20
  - gxx_linux-64=7.5.0=h555fc39_33
  - harfbuzz=2.4.0=h9f30f68_3
  - hmmer=3.3.2=h87f3376_2
  - htslib=1.9=h4da6232_3
  - humanfriendly=10.0=py36h5fab9bb_0
  - icu=64.2=he1b5a44_1
  - idna=3.4=pyhd8ed1ab_0
  - importlib-metadata=4.8.1=py36h5fab9bb_0
  - infernal=1.1.4=h779adbc_0
  - iqtree=2.2.0.3=hb97b32f_1
  - jinja2=3.0.3=pyhd8ed1ab_0
  - joblib=1.2.0=pyhd8ed1ab_0
  - jpeg=9e=h166bdaf_2
  - k8=0.2.5=hd03093a_2
  - kernel-headers_linux-64=2.6.32=he073ed8_15
  - kiwisolver=1.3.1=py36h605e78d_1
  - kraken2=2.0.9beta=pl526hc9558a2_0
  - krb5=1.16.4=h2fd8d38_0
  - lcms2=2.11=hcbb858e_1
  - ld_impl_linux-64=2.36.1=hea4e1c9_2
  - libblas=3.9.0=8_openblas
  - libcblas=3.9.0=8_openblas
  - libcurl=7.68.0=hda55be3_0
  - libdb=6.2.32=h9c3ff4c_0
  - libdeflate=1.14=h166bdaf_0
  - libedit=3.1.20191231=h46ee950_2
  - libffi=3.2.1=he1b5a44_1007
  - libgcc-devel_linux-64=7.5.0=hda03d7c_20
  - libgcc-ng=12.2.0=h65d4601_18
  - libgd=2.2.5=h307a58e_1007
  - libgfortran-ng=7.5.0=h14aa051_20
  - libgfortran4=7.5.0=h14aa051_20
  - libglib=2.66.3=hbe7bbb4_0
  - libgomp=12.2.0=h65d4601_18
  - libiconv=1.17=h166bdaf_0
  - libidn11=1.34=h1cef754_0
  - libidn2=2.3.3=h166bdaf_0
  - liblapack=3.9.0=8_openblas
  - libopenblas=0.3.12=pthreads_hb3c22a3_1
  - libpng=1.6.38=h753d276_0
  - libssh2=1.10.0=haa6b8db_3
  - libstdcxx-devel_linux-64=7.5.0=hb016644_20
  - libstdcxx-ng=12.2.0=h46fd767_18
  - libtiff=4.1.0=hc3755c2_3
  - libtool=2.4.6=h9c3ff4c_1008
  - libunistring=0.9.10=h7f98852_0
  - libuuid=2.32.1=h7f98852_1000
  - libwebp=1.0.2=h56121f0_5
  - libxcb=1.13=h7f98852_1004
  - libxml2=2.9.10=hee79883_0
  - libxslt=1.1.33=h31b3aaa_0
  - libzlib=1.2.13=h166bdaf_4
  - llvm-openmp=8.0.1=hc9558a2_0
  - lz4-c=1.9.3=h9c3ff4c_1
  - lzstring=1.0.4=py_1001
  - make=4.3=hd18ef5c_1
  - markdown=3.4.1=pyhd8ed1ab_0
  - markupsafe=2.0.1=py36h8f6f2f9_0
  - mash=2.2.2=h3d38be6_1
  - matplotlib-base=3.3.4=py36hd391965_0
  - minced=0.4.2=hdfd78af_1
  - miniasm=0.3_r179=h7132678_3
  - minimap2=2.24=h7132678_1
  - multiqc=1.9=py_1
  - mummer=3.23=pl5262h1b792b2_12
  - ncurses=6.1=hf484d3e_1002
  - networkx=2.7.1=pyhd8ed1ab_0
  - nose=1.3.7=py_1006
  - numpy=1.19.5=py36hfc0c790_2
  - olefile=0.46=pyh9f0ad1d_1
  - openjdk=8.0.332=h166bdaf_0
  - openmp=8.0.1=0
  - openssl=1.1.1q=h166bdaf_0
  - paml=4.9=hec16e2b_7
  - pandas=1.1.5=py36h284efc9_0
  - pandoc=2.19.2=ha770c72_0
  - pango=1.42.4=h7062337_4
  - parallel=20220922=ha770c72_0
  - pcre=8.45=h9c3ff4c_0
  - perl=5.26.2=h36c2ea0_1008
  - perl-aceperl=1.92=pl526_2
  - perl-algorithm-diff=1.1903=pl526_2
  - perl-algorithm-munkres=0.08=pl526_1
  - perl-apache-test=1.40=pl526_1
  - perl-app-cpanminus=1.7044=pl526_1
  - perl-appconfig=1.71=pl526_1
  - perl-archive-tar=2.32=pl526_0
  - perl-array-compare=3.0.1=pl526_1
  - perl-autoloader=5.74=pl526_2
  - perl-base=2.23=pl526_1
  - perl-bio-asn1-entrezgene=1.73=pl5262hdfd78af_2
  - perl-bio-coordinate=1.007001=pl5262hdfd78af_2
  - perl-bio-featureio=1.6.905=pl5262hdfd78af_3
  - perl-bio-phylo=0.58=pl5262hdfd78af_3
  - perl-bio-samtools=1.43=pl526h1341992_1
  - perl-bio-tools-phylo-paml=1.7.3=pl5262hdfd78af_2
  - perl-bio-tools-run-alignment-clustalw=1.7.4=pl5262hdfd78af_2
  - perl-bio-tools-run-alignment-tcoffee=1.7.4=pl5262hdfd78af_3
  - perl-bioperl=1.7.2=pl526_11
  - perl-bioperl-core=1.007002=pl5262hdfd78af_3
  - perl-bioperl-run=1.007002=pl5262hdfd78af_5
  - perl-business-isbn=3.004=pl526_0
  - perl-business-isbn-data=20140910.003=pl526_0
  - perl-cache-cache=1.08=pl526_0
  - perl-capture-tiny=0.48=pl526_0
  - perl-carp=1.38=pl526_3
  - perl-cgi=4.44=pl526h14c3975_1
  - perl-class-data-inheritable=0.08=pl526_1
  - perl-class-inspector=1.34=pl526_0
  - perl-class-load=0.25=pl526_0
  - perl-class-load-xs=0.10=pl526h6bb024c_2
  - perl-class-method-modifiers=2.12=pl526_0
  - perl-clone=0.42=pl526h516909a_0
  - perl-common-sense=3.74=pl526_2
  - perl-compress-raw-bzip2=2.087=pl526he1b5a44_0
  - perl-compress-raw-zlib=2.087=pl526hc9558a2_0
  - perl-config-general=2.63=pl526_0
  - perl-constant=1.33=pl526_1
  - perl-convert-binary-c=0.78=pl526h6bb024c_3
  - perl-convert-binhex=1.125=pl526_1
  - perl-crypt-rc4=2.02=pl526_1
  - perl-data-dumper=2.173=pl526_0
  - perl-data-optlist=0.110=pl526_2
  - perl-data-stag=0.14=pl526_1
  - perl-date-format=2.30=pl526_2
  - perl-db-file=1.855=pl526h516909a_0
  - perl-dbd-sqlite=1.64=pl526h516909a_0
  - perl-dbi=1.642=pl526_0
  - perl-devel-globaldestruction=0.14=pl526_0
  - perl-devel-overloadinfo=0.005=pl526_0
  - perl-devel-stacktrace=2.04=pl526_0
  - perl-digest-hmac=1.03=pl526_3
  - perl-digest-md5=2.55=pl526_0
  - perl-digest-perl-md5=1.9=pl526_1
  - perl-digest-sha1=2.13=pl526h6bb024c_1
  - perl-dist-checkconflicts=0.11=pl526_2
  - perl-dynaloader=1.25=pl526_1
  - perl-email-date-format=1.005=pl526_2
  - perl-encode=2.88=pl526_1
  - perl-encode-locale=1.05=pl526_6
  - perl-error=0.17027=pl526_1
  - perl-eval-closure=0.14=pl526h6bb024c_4
  - perl-exception-class=1.44=pl526_0
  - perl-exporter=5.72=pl526_1
  - perl-exporter-tiny=1.002001=pl526_0
  - perl-extutils-makemaker=7.36=pl526_1
  - perl-file-listing=6.04=pl526_1
  - perl-file-path=2.16=pl526_0
  - perl-file-slurp-tiny=0.004=pl526_1
  - perl-file-sort=1.01=pl526_2
  - perl-file-temp=0.2304=pl526_2
  - perl-file-which=1.23=pl526_0
  - perl-font-afm=1.20=pl526_2
  - perl-font-ttf=1.06=pl526_0
  - perl-gd=2.71=pl526he860b03_0
  - perl-getopt-long=2.50=pl526_1
  - perl-graph=0.9704=pl526_1
  - perl-graphviz=2.24=pl526h734ff71_0
  - perl-html-element-extended=1.18=pl526_1
  - perl-html-entities-numbered=0.04=pl526_1
  - perl-html-formatter=2.16=pl526_0
  - perl-html-parser=3.72=pl526h6bb024c_5
  - perl-html-tableextract=2.13=pl526_2
  - perl-html-tagset=3.20=pl526_3
  - perl-html-tidy=1.60=pl526_0
  - perl-html-tree=5.07=pl526_1
  - perl-html-treebuilder-xpath=0.14=pl526_1
  - perl-http-cookies=6.04=pl526_0
  - perl-http-daemon=6.01=pl526_1
  - perl-http-date=6.02=pl526_3
  - perl-http-message=6.18=pl526_0
  - perl-http-negotiate=6.01=pl526_3
  - perl-image-info=1.38=pl526_1
  - perl-image-size=3.300=pl526_2
  - perl-io-compress=2.087=pl526he1b5a44_0
  - perl-io-html=1.001=pl526_2
  - perl-io-sessiondata=1.03=pl526_1
  - perl-io-socket-ssl=2.066=pl526_0
  - perl-io-string=1.08=pl526_3
  - perl-io-stringy=2.111=pl526_1
  - perl-io-tty=1.12=pl526_1
  - perl-io-zlib=1.10=pl526_2
  - perl-ipc-run=20180523.0=pl526_0
  - perl-ipc-sharelite=0.17=pl526h6bb024c_1
  - perl-jcode=2.07=pl526_2
  - perl-json=4.02=pl526_0
  - perl-json-xs=2.34=pl526h6bb024c_3
  - perl-lib=0.63=pl526_1
  - perl-libwww-perl=6.39=pl526_0
  - perl-libxml-perl=0.08=pl526_2
  - perl-list-moreutils=0.428=pl526_1
  - perl-list-moreutils-xs=0.428=pl526_0
  - perl-lwp-mediatypes=6.04=pl526_0
  - perl-lwp-protocol-https=6.07=pl526_4
  - perl-lwp-simple=6.15=pl526h470a237_4
  - perl-mailtools=2.21=pl526_0
  - perl-math-bezier=0.01=pl526_1
  - perl-math-cdf=0.1=pl526h14c3975_5
  - perl-math-derivative=1.01=pl526_0
  - perl-math-random=0.72=pl526h14c3975_2
  - perl-math-round=0.07=pl526_1
  - perl-math-spline=0.02=pl526_2
  - perl-math-vecstat=0.08=pl526_1
  - perl-mime-base64=3.15=pl526_1
  - perl-mime-lite=3.030=pl526_1
  - perl-mime-tools=5.508=pl526_1
  - perl-mime-types=2.17=pl526_0
  - perl-mldbm=2.05=pl526_1
  - perl-module-implementation=0.09=pl526_2
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  - perl-moo=2.003004=pl526_0
  - perl-moose=2.2011=pl526hf484d3e_1
  - perl-mozilla-ca=20180117=pl526_1
  - perl-mro-compat=0.13=pl526_0
  - perl-net-http=6.19=pl526_0
  - perl-net-ssleay=1.88=pl526h90d6eec_0
  - perl-ntlm=1.09=pl526_4
  - perl-number-format=1.75=pl526_3
  - perl-ole-storage_lite=0.19=pl526_3
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  - perl-package-stash=0.38=pl526hf484d3e_1
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  - perl-params-util=1.07=pl526h6bb024c_4
  - perl-params-validate=1.29=pl526h14c3975_1
  - perl-parent=0.236=pl526_1
  - perl-parse-recdescent=1.967015=pl526_0
  - perl-pathtools=3.75=pl526h14c3975_1
  - perl-pdf-api2=2.035=pl526_0
  - perl-pod-escapes=1.07=pl526_1
  - perl-pod-usage=1.69=pl526_1
  - perl-postscript=0.06=pl526_2
  - perl-readonly=2.05=pl526_0
  - perl-regexp-common=2017060201=pl526_0
  - perl-role-tiny=2.000008=pl526_0
  - perl-scalar-list-utils=1.52=pl526h516909a_0
  - perl-set-intspan=1.19=pl526_1
  - perl-set-scalar=1.29=pl526_2
  - perl-soap-lite=1.19=pl526_1
  - perl-socket=2.027=pl526_1
  - perl-sort-naturally=1.03=pl526_2
  - perl-spreadsheet-parseexcel=0.65=pl526_2
  - perl-spreadsheet-writeexcel=2.40=pl526_2
  - perl-statistics-basic=1.6611=pl526_2
  - perl-statistics-descriptive=3.0702=pl526_0
  - perl-storable=3.15=pl526h14c3975_0
  - perl-sub-exporter=0.987=pl526_2
  - perl-sub-exporter-progressive=0.001013=pl526_0
  - perl-sub-identify=0.14=pl526h14c3975_0
  - perl-sub-install=0.928=pl526_2
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  - perl-sub-uplevel=0.2800=pl526h14c3975_2
  - perl-svg=2.84=pl526_0
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  - perl-task-weaken=1.06=pl526_0
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  - perl-test=1.26=pl526_1
  - perl-test-deep=1.128=pl526_1
  - perl-test-differences=0.67=pl526_0
  - perl-test-exception=0.43=pl526_2
  - perl-test-harness=3.42=pl526_0
  - perl-test-leaktrace=0.16=pl526h14c3975_2
  - perl-test-most=0.35=pl526_0
  - perl-test-requiresinternet=0.05=pl526_0
  - perl-test-warn=0.36=pl526_1
  - perl-text-diff=1.45=pl526_0
  - perl-text-format=0.59=pl526_2
  - perl-tie-ixhash=1.23=pl526_2
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  - perl-time-piece=1.27=pl526_1
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  - perl-uri=1.76=pl526_0
  - perl-www-robotrules=6.02=pl526_3
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  - perl-xml-twig=3.52=pl526_2
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  - perl-xml-xpath=1.44=pl526_0
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  - perl-xsloader=0.24=pl526_0
  - perl-yaml=1.29=pl526_0
  - picard=2.23.0=0
  - pillow=8.1.0=py36h4f9996e_1
  - pilon=1.24=hdfd78af_0
  - pip=21.3.1=pyhd8ed1ab_0
  - pixman=0.38.0=h516909a_1003
  - plasmidid=1.6.5=hdfd78af_0
  - popt=1.16=h0b475e3_2002
  - prodigal=2.6.3=hec16e2b_4
  - prokka=1.14.6=pl5262hdfd78af_3
  - pthread-stubs=0.4=h36c2ea0_1001
  - pycparser=2.21=pyhd8ed1ab_0
  - pyopenssl=22.0.0=pyhd8ed1ab_1
  - pyparsing=3.0.9=pyhd8ed1ab_0
  - pysocks=1.7.1=py36h5fab9bb_3
  - python=3.6.10=h8356626_1011_cpython
  - python-dateutil=2.8.2=pyhd8ed1ab_0
  - python_abi=3.6=2_cp36m
  - pytz=2022.4=pyhd8ed1ab_0
  - pyyaml=5.4.1=py36h8f6f2f9_1
  - quast=5.0.2=py36pl5262h61628e2_5
  - r-askpass=1.1=r36hcfec24a_2
  - r-assertthat=0.2.1=r36h6115d3f_2
  - r-backports=1.2.1=r36hcfec24a_0
  - r-base=3.6.2=h3a67422_0
  - r-base64enc=0.1_3=r36hcfec24a_1004
  - r-blob=1.2.1=r36h6115d3f_1
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prefix: /home/smonzon/miniconda3/envs/bacterial_wgs_training