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assemblyenv.yml
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name: assemblage
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
- alsa-lib=1.2.3=h516909a_0
- aragorn=1.2.38=h516909a_3
- ariba=2.12.1=py36hfc679d8_0
- barrnap=0.9=3
- bcftools=1.9=h68d8f2e_9
- beautifulsoup4=4.9.1=py_1
- bedtools=2.29.2=hc088bd4_0
- binutils_impl_linux-64=2.34=h53a641e_7
- binutils_linux-64=2.34=hc952b39_20
- bioawk=1.0=hed695b0_5
- blast=2.9.0=pl526h3066fca_4
- bowtie2=2.4.1=py36h5202f60_3
- bwidget=1.9.14=0
- bzip2=1.0.8=h516909a_2
- ca-certificates=2020.6.20=hecda079_0
- cairo=1.16.0=hcf35c78_1003
- capnproto=0.6.1=hfc679d8_1
- cd-hit=4.8.1=h8b12597_3
- certifi=2020.6.20=py36h9f0ad1d_0
- click=7.1.2=pyh9f0ad1d_0
- clustalw=2.1=hc9558a2_5
- coloredlogs=14.0=py36h9f0ad1d_1
- colormath=3.0.0=py_2
- curl=7.68.0=hf8cf82a_0
- cycler=0.10.0=py_2
- decorator=4.4.2=py_0
- dendropy=4.4.0=pyh864c0ab_2
- entrez-direct=13.3=pl526h375a9b1_0
- expat=2.2.9=he1b5a44_2
- fontconfig=2.13.1=h86ecdb6_1001
- freetype=2.10.2=he06d7ca_0
- fribidi=1.0.10=h516909a_0
- future=0.18.2=py36h9f0ad1d_1
- gcc_impl_linux-64=7.5.0=hd420e75_6
- gcc_linux-64=7.5.0=h09487f9_20
- gettext=0.19.8.1=hc5be6a0_1002
- gfortran_impl_linux-64=7.5.0=hdf63c60_6
- gfortran_linux-64=7.5.0=h09487f9_20
- giflib=5.2.1=h516909a_2
- glib=2.65.0=h6f030ca_0
- graphite2=1.3.13=he1b5a44_1001
- graphviz=2.42.3=h0511662_0
- gsl=2.5=h294904e_1
- gxx_impl_linux-64=7.5.0=hdf63c60_6
- gxx_linux-64=7.5.0=h09487f9_20
- harfbuzz=2.4.0=h9f30f68_3
- hmmer=3.3=he1b5a44_1
- htslib=1.9=ha228f0b_7
- humanfriendly=8.2=py36h9f0ad1d_0
- icu=64.2=he1b5a44_1
- importlib-metadata=1.7.0=py36h9f0ad1d_0
- infernal=1.1.2=h516909a_3
- jinja2=2.11.2=pyh9f0ad1d_0
- jpeg=9d=h516909a_0
- kiwisolver=1.2.0=py36hdb11119_0
- krb5=1.16.4=h2fd8d38_0
- lcms2=2.11=hbd6801e_0
- ld_impl_linux-64=2.34=h53a641e_7
- libblas=3.8.0=17_openblas
- libcblas=3.8.0=17_openblas
- libcurl=7.68.0=hda55be3_0
- libdb=6.1.26=0
- libdeflate=1.0=h14c3975_1
- libedit=3.1.20191231=h46ee950_2
- libffi=3.2.1=he1b5a44_1007
- libgcc=7.2.0=h69d50b8_2
- libgcc-ng=9.3.0=h24d8f2e_15
- libgd=2.2.5=h307a58e_1007
- libgfortran-ng=7.5.0=hdf63c60_15
- libgomp=9.3.0=h24d8f2e_15
- libiconv=1.16=h516909a_0
- libidn11=1.34=h1cef754_0
- liblapack=3.8.0=17_openblas
- libopenblas=0.3.10=pthreads_hb3c22a3_4
- libpng=1.6.37=hed695b0_2
- libssh2=1.9.0=hab1572f_5
- libstdcxx-ng=9.3.0=hdf63c60_15
- libtiff=4.1.0=hc3755c2_3
- libtool=2.4.6=h516909a_1003
- libuuid=2.32.1=h14c3975_1000
- libwebp=1.0.2=h56121f0_5
- libxcb=1.13=h14c3975_1002
- libxml2=2.9.10=hee79883_0
- libxslt=1.1.33=h31b3aaa_0
- llvm-meta=7.0.0=0
- lz4-c=1.9.2=he1b5a44_3
- lzstring=1.0.4=py_1001
- make=4.3=h516909a_0
- markdown=3.2.2=py_0
- markupsafe=1.1.1=py36h8c4c3a4_1
- mash=2.2.2=h3d38be6_1
- matplotlib=3.3.1=1
- matplotlib-base=3.3.1=py36h5ffbc53_1
- minced=0.4.2=0
- multiqc=1.9=py_1
- mummer=3.23=pl526he1b5a44_11
- ncurses=6.1=hf484d3e_1002
- networkx=2.4=py_1
- numpy=1.19.1=py36h3849536_2
- olefile=0.46=py_0
- openjdk=11.0.8=hacce0ff_0
- openmp=7.0.0=h2d50403_0
- openssl=1.1.1g=h516909a_1
- paml=4.9=h516909a_5
- pango=1.42.4=h7062337_4
- parallel=20160622=1
- pcre=8.44=he1b5a44_0
- perl=5.26.2=h516909a_1006
- 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=pl526_1
- perl-bio-coordinate=1.007001=pl526_1
- perl-bio-featureio=1.6.905=pl526_2
- perl-bio-phylo=0.58=pl526_2
- perl-bio-samtools=1.43=pl526h1341992_1
- perl-bio-tools-phylo-paml=1.7.3=pl526_1
- perl-bio-tools-run-alignment-clustalw=1.7.4=pl526_1
- perl-bio-tools-run-alignment-tcoffee=1.7.4=pl526_2
- perl-bioperl=1.7.2=pl526_11
- perl-bioperl-core=1.007002=pl526_2
- perl-bioperl-run=1.007002=pl526_4
- 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-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=1.852=pl526h14c3975_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-cdf=0.1=pl526h14c3975_5
- perl-math-derivative=1.01=pl526_0
- perl-math-random=0.72=pl526h14c3975_2
- perl-math-spline=0.02=pl526_2
- 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
- perl-module-runtime=0.016=pl526_1
- perl-module-runtime-conflicts=0.003=pl526_0
- 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-ole-storage_lite=0.19=pl526_3
- perl-package-deprecationmanager=0.17=pl526_0
- perl-package-stash=0.38=pl526hf484d3e_1
- perl-package-stash-xs=0.28=pl526hf484d3e_1
- perl-params-util=1.07=pl526h6bb024c_4
- 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-role-tiny=2.000008=pl526_0
- perl-scalar-list-utils=1.52=pl526h516909a_0
- 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-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
- perl-sub-name=0.21=pl526_1
- perl-sub-quote=2.006003=pl526_1
- perl-sub-uplevel=0.2800=pl526h14c3975_2
- perl-svg=2.84=pl526_0
- perl-svg-graph=0.02=pl526_3
- perl-task-weaken=1.06=pl526_0
- perl-template-toolkit=2.26=pl526_1
- 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-threaded=5.26.0=0
- perl-tie-ixhash=1.23=pl526_2
- perl-time-hires=1.9760=pl526h14c3975_1
- perl-time-local=1.28=pl526_1
- perl-timedate=2.30=pl526_1
- perl-tree-dag_node=1.31=pl526_0
- perl-try-tiny=0.30=pl526_1
- perl-type-tiny=1.004004=pl526_0
- perl-types-serialiser=1.0=pl526_2
- perl-unicode-map=0.112=pl526h6bb024c_3
- perl-uri=1.76=pl526_0
- perl-www-robotrules=6.02=pl526_3
- perl-xml-dom=1.46=pl526_0
- perl-xml-dom-xpath=0.14=pl526_1
- perl-xml-filter-buffertext=1.01=pl526_2
- perl-xml-libxml=2.0132=pl526h7ec2d77_1
- perl-xml-libxslt=1.94=pl526_1
- perl-xml-namespacesupport=1.12=pl526_0
- perl-xml-parser=2.44=pl526h4e0c4b3_7
- perl-xml-regexp=0.04=pl526_2
- perl-xml-sax=1.02=pl526_0
- perl-xml-sax-base=1.09=pl526_0
- perl-xml-sax-expat=0.51=pl526_3
- perl-xml-sax-writer=0.57=pl526_0
- perl-xml-simple=2.25=pl526_1
- perl-xml-twig=3.52=pl526_2
- perl-xml-writer=0.625=pl526_2
- perl-xml-xpath=1.44=pl526_0
- perl-xml-xpathengine=0.14=pl526_2
- perl-xsloader=0.24=pl526_0
- perl-yaml=1.29=pl526_0
- picard=2.23.3=0
- pillow=7.2.0=py36h8328e55_1
- pilon=1.23=2
- pip=20.2.2=py_0
- pixman=0.38.0=h516909a_1003
- prodigal=2.6.3=h516909a_2
- prokka=1.13=3
- pthread-stubs=0.4=h14c3975_1001
- pyfastaq=3.17.0=py_2
- pymummer=0.11.0=py_0
- pyparsing=2.4.7=pyh9f0ad1d_0
- pysam=0.15.3=py36hda2845c_1
- python=3.6.10=h8356626_1011_cpython
- python-dateutil=2.8.1=py_0
- python_abi=3.6=1_cp36m
- pyyaml=5.3.1=py36h8c4c3a4_0
- r-base=3.6.2=h3a67422_0
- readline=8.0=h46ee950_1
- requests=2.13.0=py36_0
- samtools=1.9=h10a08f8_12
- sed=4.8=hbfbb72e_0
- seqtk=1.3=hed695b0_2
- setuptools=49.6.0=py36h9f0ad1d_0
- simplejson=3.8.1=py36_0
- six=1.15.0=pyh9f0ad1d_0
- soupsieve=2.0.1=py_1
- spades=3.14.1=h2d02072_0
- spectra=0.0.11=py_1
- sqlite=3.32.3=hcee41ef_1
- t_coffee=11.0.8=py36hea885bf_8
- tbb=2020.1=hc9558a2_0
- tbl2asn=25.7=0
- tidyp=1.04=h516909a_2
- tk=8.6.10=hed695b0_0
- tktable=2.10=h555a92e_3
- tornado=6.0.4=py36h8c4c3a4_1
- trimmomatic=0.39=1
- wheel=0.35.1=pyh9f0ad1d_0
- xorg-fixesproto=5.0=h14c3975_1002
- xorg-inputproto=2.3.2=h14c3975_1002
- xorg-kbproto=1.0.7=h14c3975_1002
- xorg-libice=1.0.10=h516909a_0
- xorg-libsm=1.2.3=h84519dc_1000
- xorg-libx11=1.6.11=h516909a_0
- xorg-libxau=1.0.9=h14c3975_0
- xorg-libxdmcp=1.1.3=h516909a_0
- xorg-libxext=1.3.4=h516909a_0
- xorg-libxfixes=5.0.3=h516909a_1004
- xorg-libxi=1.7.10=h516909a_0
- xorg-libxpm=3.5.13=h516909a_0
- xorg-libxrender=0.9.10=h516909a_1002
- xorg-libxt=1.1.5=h516909a_1003
- xorg-libxtst=1.2.3=h516909a_1002
- xorg-recordproto=1.14.2=h516909a_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=h516909a_1
- yaml=0.2.5=h516909a_0
- zipp=3.1.0=py_0
- zlib=1.2.11=h516909a_1007
- zstd=1.4.5=h6597ccf_2
prefix: /home/apirani/.conda/envs/assemblage