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environment.yml
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name: duotang
channels:
- bioconda
- conda-forge
- defaults
dependencies:
- _libgcc_mutex=0.1=conda_forge
- _openmp_mutex=4.5=2_gnu
- _r-mutex=1.0.1=anacondar_1
- aom=3.5.0=h27087fc_0
- async_generator=1.10=py_0
- atk-1.0=2.36.0=h3371d22_4
- attrs=22.2.0=pyh71513ae_0
- binutils_impl_linux-64=2.39=h6ceecb4_0
- bioconductor-biocgenerics=0.40.0=r41hdfd78af_0
- bioconductor-biostrings=2.62.0=r41hc0cfd56_2
- bioconductor-genomeinfodb=1.30.1=r41hdfd78af_0
- bioconductor-genomeinfodbdata=1.2.7=r41hdfd78af_2
- bioconductor-ggtree=3.2.0=r41hdfd78af_0
- bioconductor-iranges=2.28.0=r41hc0cfd56_2
- bioconductor-s4vectors=0.32.4=r41hc0cfd56_0
- bioconductor-treeio=1.18.0=r41hdfd78af_0
- bioconductor-xvector=0.34.0=r41hc0cfd56_2
- bioconductor-zlibbioc=1.40.0=r41hc0cfd56_2
- biopython=1.79=py39hb9d737c_2
- brotli=1.0.9=h166bdaf_7
- brotli-bin=1.0.9=h166bdaf_7
- brotlipy=0.7.0=py39hb9d737c_1005
- bwidget=1.9.14=ha770c72_1
- 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
- cffi=1.15.1=py39he91dace_3
- charset-normalizer=2.1.1=pyhd8ed1ab_0
- click=8.1.3=unix_pyhd8ed1ab_2
- contourpy=1.0.5=py39hf939315_0
- cryptography=39.0.1=py39h079d5ae_0
- curl=7.85.0=h2283fc2_0
- cycler=0.11.0=pyhd8ed1ab_0
- exceptiongroup=1.1.0=pyhd8ed1ab_0
- expat=2.4.9=h27087fc_0
- ffmpeg=5.1.2=gpl_hc51e5dc_103
- fftw=3.3.10=nompi_hf0379b8_105
- firefox=109.0=hcb278e6_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=2.14.1=hc2a2eb6_0
- fonts-conda-ecosystem=1=0
- fonts-conda-forge=1=0
- fonttools=4.38.0=py39hb9d737c_0
- freetype=2.12.1=hca18f0e_0
- fribidi=1.0.10=h36c2ea0_0
- gcc_impl_linux-64=12.2.0=hcc96c02_19
- gdk-pixbuf=2.42.8=hff1cb4f_1
- gettext=0.21.1=h27087fc_0
- gfortran_impl_linux-64=12.2.0=h55be85b_19
- ghostscript=9.18=1
- giflib=5.2.1=h36c2ea0_2
- glpk=5.0=h445213a_0
- gmp=6.2.1=h58526e2_0
- gnutls=3.7.8=hf3e180e_0
- graphite2=1.3.13=h58526e2_1001
- graphviz=6.0.1=h5abf519_0
- gsl=2.7=he838d99_0
- gtk2=2.24.33=h90689f9_2
- gts=0.7.6=h64030ff_2
- gxx_impl_linux-64=12.2.0=hcc96c02_19
- h11=0.14.0=pyhd8ed1ab_0
- harfbuzz=5.3.0=h418a68e_0
- icu=70.1=h27087fc_0
- idna=3.4=pyhd8ed1ab_0
- imagemagick=7.1.0_50=pl5321hbb10140_0
- iqtree=2.2.0.3=hb97b32f_1
- jbig=2.1=h7f98852_2003
- jpeg=9e=h166bdaf_2
- k8=0.2.5=hd03093a_2
- kernel-headers_linux-64=2.6.32=he073ed8_15
- keyutils=1.6.1=h166bdaf_0
- kiwisolver=1.4.4=py39hf939315_0
- krb5=1.19.3=h08a2579_0
- lame=3.100=h166bdaf_1003
- lcms2=2.12=hddcbb42_0
- ld_impl_linux-64=2.39=hc81fddc_0
- lerc=4.0.0=h27087fc_0
- 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
- libcurl=7.85.0=h2283fc2_0
- libdeflate=1.14=h166bdaf_0
- libdrm=2.4.113=h166bdaf_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=12.2.0=h3b97bd3_19
- libgcc-ng=12.2.0=h65d4601_19
- libgd=2.3.3=h18fbbfe_3
- libgfortran-ng=12.2.0=h69a702a_19
- libgfortran5=12.2.0=h337968e_19
- libgit2=1.5.0=h4c07d5c_0
- libglib=2.74.0=h7a41b64_0
- libglu=9.0.0=he1b5a44_1001
- libgomp=12.2.0=h65d4601_19
- libiconv=1.17=h166bdaf_0
- libidn2=2.3.4=h166bdaf_0
- liblapack=3.9.0=16_linux64_openblas
- libnghttp2=1.47.0=hff17c54_1
- libnsl=2.0.0=h7f98852_0
- libopenblas=0.3.21=pthreads_h78a6416_3
- libpciaccess=0.16=h516909a_0
- libpng=1.6.38=h753d276_0
- librsvg=2.54.4=h7abd40a_0
- libsanitizer=12.2.0=h46fd767_19
- libsqlite=3.39.4=h753d276_0
- libssh2=1.10.0=hf14f497_3
- libstdcxx-devel_linux-64=12.2.0=h3b97bd3_19
- libstdcxx-ng=12.2.0=h46fd767_19
- libtasn1=4.19.0=h166bdaf_0
- libtiff=4.4.0=h55922b4_4
- libtool=2.4.6=h9c3ff4c_1008
- libunistring=0.9.10=h7f98852_0
- libuuid=2.32.1=h7f98852_1000
- libva=2.16.0=h166bdaf_0
- libvpx=1.11.0=h9c3ff4c_3
- libwebp=1.2.4=h522a892_0
- libwebp-base=1.2.4=h166bdaf_0
- libxcb=1.13=h7f98852_1004
- libxml2=2.10.3=h7463322_0
- libzlib=1.2.13=h166bdaf_4
- make=4.3=hd18ef5c_1
- matplotlib-base=3.6.1=py39hf9fd14e_0
- minimap2=2.24=h7132678_1
- munkres=1.0.7=py_1
- ncurses=6.3=h27087fc_1
- nettle=3.8.1=hc379101_1
- numpy=1.23.4=py39h3d75532_0
- openh264=2.3.1=h27087fc_1
- openjpeg=2.5.0=h7d73246_1
- openssl=3.0.8=h0b41bf4_0
- outcome=1.2.0=pyhd8ed1ab_0
- p11-kit=0.24.1=hc5aa10d_0
- packaging=21.3=pyhd8ed1ab_0
- pandas=1.5.1=py39h4661b88_0
- pandoc=2.19.2=h32600fe_1
- pango=1.50.11=h382ae3d_0
- pcre2=10.37=hc3806b6_1
- perl=5.32.1=2_h7f98852_perl5
- pillow=9.2.0=py39hd5dbb17_2
- pip=22.3=pyhd8ed1ab_0
- pixman=0.40.0=h36c2ea0_0
- pkg-config=0.29.2=h36c2ea0_1008
- pthread-stubs=0.4=h36c2ea0_1001
- pycparser=2.21=pyhd8ed1ab_0
- pyopenssl=23.0.0=pyhd8ed1ab_0
- pyparsing=3.0.9=pyhd8ed1ab_0
- pysocks=1.7.1=pyha2e5f31_6
- python=3.9.13=h2660328_0_cpython
- python-dateutil=2.8.2=pyhd8ed1ab_0
- python-dotenv=0.21.1=pyhd8ed1ab_0
- python_abi=3.9=2_cp39
- pytz=2022.5=pyhd8ed1ab_0
- r=4.1=r41hd8ed1ab_1006
- r-ape=5.6_2=r41h9f5de39_1
- r-aplot=0.1.8=r41hc72bb7e_1
- r-askpass=1.1=r41h06615bd_3
- r-assertthat=0.2.1=r41hc72bb7e_3
- r-backports=1.4.1=r41h06615bd_1
- r-base=4.1.3=h7880091_3
- r-base64enc=0.1_3=r41h06615bd_1005
- r-bbmle=1.0.25=r41hc72bb7e_1
- r-bdsmatrix=1.3_6=r41h06615bd_1
- r-biocmanager=1.30.18=r41hc72bb7e_1
- r-bit=4.0.4=r41h06615bd_1
- r-bit64=4.0.5=r41h06615bd_1
- r-bitops=1.0_7=r41h06615bd_1
- r-blob=1.2.3=r41hc72bb7e_1
- r-boot=1.3_28=r41hc72bb7e_1
- r-brew=1.0_8=r41hc72bb7e_1
- r-brio=1.1.3=r41h06615bd_1
- r-broom=1.0.1=r41hc72bb7e_1
- r-bslib=0.4.0=r41hc72bb7e_1
- r-cachem=1.0.6=r41h06615bd_1
- r-callr=3.7.2=r41hc72bb7e_1
- r-cellranger=1.1.0=r41hc72bb7e_1005
- r-class=7.3_20=r41h06615bd_1
- r-cli=3.4.1=r41h7525677_1
- r-clipr=0.8.0=r41hc72bb7e_1
- r-cluster=2.1.4=r41h8da6f51_0
- r-clustergeneration=1.3.7=r41ha770c72_1
- r-coda=0.19_4=r41hc72bb7e_1
- r-codetools=0.2_18=r41hc72bb7e_1
- r-collections=0.3.6=r41h06615bd_0
- r-colorspace=2.0_3=r41h06615bd_1
- r-combinat=0.0_8=r41hc72bb7e_1004
- r-commonmark=1.8.1=r41h06615bd_0
- r-cpp11=0.4.3=r41hc72bb7e_0
- r-crayon=1.5.2=r41hc72bb7e_1
- r-credentials=1.3.2=r41hc72bb7e_1
- r-crosstalk=1.2.0=r41hc72bb7e_1
- r-curl=4.3.3=r41h06615bd_1
- r-cyclocomp=1.1.0=r41hc72bb7e_1005
- r-data.table=1.14.4=r41h06615bd_0
- r-dbi=1.1.3=r41hc72bb7e_1
- r-dbplyr=2.2.1=r41hc72bb7e_1
- r-desc=1.4.2=r41hc72bb7e_1
- r-devtools=2.4.5=r41hc72bb7e_1
- r-diffobj=0.3.5=r41h06615bd_1
- r-digest=0.6.30=r41h7525677_0
- r-downlit=0.4.2=r41hc72bb7e_1
- r-dplyr=1.0.10=r41h7525677_1
- r-dt=0.18=r41hc72bb7e_0
- r-dtplyr=1.2.2=r41hc72bb7e_1
- r-ellipsis=0.3.2=r41h06615bd_1
- r-evaluate=0.17=r41hc72bb7e_1
- r-expm=0.999_6=r41hb361e29_1
- r-fansi=1.0.3=r41h06615bd_1
- r-farver=2.1.1=r41h7525677_1
- r-fastmap=1.1.0=r41h7525677_1
- r-fastmatch=1.1_3=r41h06615bd_1
- r-fontawesome=0.4.0=r41hc72bb7e_0
- r-forcats=0.5.2=r41hc72bb7e_1
- r-foreign=0.8_83=r41h06615bd_1
- r-fs=1.5.2=r41h7525677_2
- r-gargle=1.2.1=r41hc72bb7e_1
- r-generics=0.1.3=r41hc72bb7e_1
- r-gert=1.5.0=r41h163148b_3
- r-ggfun=0.0.7=r41hc72bb7e_1
- r-ggplot2=3.3.6=r41hc72bb7e_1
- r-ggplotify=0.1.0=r41hc72bb7e_1
- r-gh=1.3.1=r41hc72bb7e_1
- r-gitcreds=0.1.2=r41hc72bb7e_1
- r-glue=1.6.2=r41h06615bd_1
- r-googledrive=2.0.0=r41hc72bb7e_1
- r-googlesheets4=1.0.1=r41h785f33e_1
- r-gridextra=2.3=r41hc72bb7e_1004
- r-gridgraphics=0.5_1=r41hc72bb7e_1
- r-gtable=0.3.1=r41hc72bb7e_1
- r-haven=2.5.1=r41h7525677_0
- r-highr=0.9=r41hc72bb7e_1
- r-hms=1.1.2=r41hc72bb7e_1
- r-htmltools=0.5.3=r41h7525677_1
- r-htmlwidgets=1.5.4=r41hc72bb7e_1
- r-httpuv=1.6.6=r41h7525677_1
- r-httr=1.4.4=r41hc72bb7e_1
- r-ids=1.0.1=r41hc72bb7e_2
- r-igraph=1.3.5=r41hb34fc8a_0
- r-ini=0.3.1=r41hc72bb7e_1004
- r-isoband=0.2.6=r41h7525677_1
- r-jquerylib=0.1.4=r41hc72bb7e_1
- r-jsonlite=1.8.3=r41h06615bd_0
- r-kernsmooth=2.23_20=r41hd009a43_1
- r-knitr=1.40=r41hc72bb7e_1
- r-labeling=0.4.2=r41hc72bb7e_2
- r-languageserver=0.3.14=r41h06615bd_1
- r-later=1.2.0=r41h7525677_1
- r-lattice=0.20_45=r41h06615bd_1
- r-lazyeval=0.2.2=r41h06615bd_3
- r-lifecycle=1.0.3=r41hc72bb7e_1
- r-lintr=3.0.2=r41hc72bb7e_0
- r-lubridate=1.8.0=r41h7525677_1
- r-magrittr=2.0.3=r41h06615bd_1
- r-maps=3.4.0=r41h06615bd_1
- r-markdown=1.2=r41h06615bd_0
- r-mass=7.3_58.1=r41h06615bd_1
- r-matrix=1.5_1=r41h5f7b363_0
- r-memoise=2.0.1=r41hc72bb7e_1
- r-mgcv=1.8_41=r41h5f7b363_0
- r-mime=0.12=r41h06615bd_1
- r-miniui=0.1.1.1=r41hc72bb7e_1003
- r-mnormt=2.1.1=r41h8da6f51_0
- r-modelr=0.1.9=r41hc72bb7e_1
- r-munsell=0.5.0=r41hc72bb7e_1005
- r-mvtnorm=1.1_3=r41h8da6f51_1
- r-nlme=3.1_160=r41h8da6f51_0
- r-nnet=7.3_18=r41h06615bd_1
- r-numderiv=2016.8_1.1=r41hc72bb7e_4
- r-openssl=2.0.4=r41h1f3e0c5_0
- r-optimparallel=1.0_2=r41hc72bb7e_1
- r-patchwork=1.1.2=r41hc72bb7e_1
- r-phangorn=2.9.0=r41h37cf8d7_1
- r-phylotools=0.2.2=r41hc72bb7e_1
- r-phytools=1.2_0=r41hc72bb7e_1
- r-pillar=1.8.1=r41hc72bb7e_1
- r-pkgbuild=1.3.1=r41hc72bb7e_1
- r-pkgconfig=2.0.3=r41hc72bb7e_2
- r-pkgdown=2.0.6=r41hc72bb7e_1
- r-pkgload=1.3.0=r41hc72bb7e_1
- r-plotrix=3.8_2=r41hc72bb7e_1
- r-plyr=1.8.8=r41h7525677_0
- r-praise=1.0.0=r41hc72bb7e_1006
- r-prettyunits=1.1.1=r41hc72bb7e_2
- r-processx=3.7.0=r41h06615bd_1
- r-profvis=0.3.7=r41h06615bd_1
- r-progress=1.2.2=r41hc72bb7e_3
- r-promises=1.2.0.1=r41h7525677_1
- r-ps=1.7.1=r41h06615bd_1
- r-purrr=0.3.5=r41h06615bd_1
- r-quadprog=1.5_8=r41hd009a43_4
- r-r.cache=0.16.0=r41hc72bb7e_1
- r-r.methodss3=1.8.2=r41hc72bb7e_1
- r-r.oo=1.25.0=r41hc72bb7e_1
- r-r.utils=2.12.0=r41hc72bb7e_1
- r-r2d3=0.2.6=r41hc72bb7e_1
- r-r6=2.5.1=r41hc72bb7e_1
- r-ragg=1.2.4=r41hc1f6985_0
- r-rappdirs=0.3.3=r41h06615bd_1
- r-rcmdcheck=1.4.0=r41h785f33e_1
- r-rcolorbrewer=1.1_3=r41h785f33e_1
- r-rcpp=1.0.9=r41h7525677_2
- r-rcurl=1.98_1.9=r41h06615bd_1
- r-readr=2.1.1=r41h03ef668_0
- r-readxl=1.4.1=r41h3ebcfa7_1
- r-recommended=4.1=r41hd8ed1ab_1005
- r-rematch=1.0.1=r41hc72bb7e_1005
- r-rematch2=2.1.2=r41hc72bb7e_2
- r-remotes=2.4.2=r41hc72bb7e_1
- r-repr=1.1.4=r41h785f33e_1
- r-reprex=2.0.2=r41hc72bb7e_1
- r-reshape2=1.4.4=r41h7525677_2
- r-rex=1.2.1=r41hc72bb7e_1
- r-rlang=1.0.6=r41h7525677_1
- r-rmarkdown=2.10=r41hc72bb7e_0
- r-roxygen2=7.2.1=r41h7525677_1
- r-rpart=4.1.19=r41h06615bd_0
- r-rprojroot=2.0.3=r41hc72bb7e_1
- r-rstudioapi=0.14=r41hc72bb7e_1
- r-rvcheck=0.1.8=r41hc72bb7e_1
- r-rversions=2.1.2=r41hc72bb7e_1
- r-rvest=1.0.3=r41hc72bb7e_1
- r-sass=0.4.2=r41h7525677_1
- r-scales=1.2.1=r41hc72bb7e_1
- r-scatterplot3d=0.3_42=r41hc72bb7e_1
- r-selectr=0.4_2=r41hc72bb7e_2
- r-sessioninfo=1.2.2=r41hc72bb7e_1
- r-shiny=1.7.3=r41h785f33e_0
- r-sourcetools=0.1.7=r41h7525677_1003
- r-spatial=7.3_15=r41h06615bd_1
- r-stringdist=0.9.9=r41h06615bd_0
- r-stringi=1.7.8=r41h30a9eb7_1
- r-stringr=1.4.1=r41hc72bb7e_1
- r-styler=1.8.0=r41hc72bb7e_0
- r-survival=3.4_0=r41h06615bd_1
- r-sys=3.4.1=r41h06615bd_0
- r-systemfonts=1.0.4=r41h0ff29ef_1
- r-testthat=3.1.5=r41h7525677_1
- r-textshaping=0.3.6=r41h9354b80_3
- r-tibble=3.1.8=r41h06615bd_1
- r-tidyr=1.2.1=r41h7525677_1
- r-tidyselect=1.2.0=r41hc72bb7e_0
- r-tidytree=0.3.5=r41hc72bb7e_0
- r-tidyverse=1.3.2=r41hc72bb7e_1
- r-tinytex=0.42=r41hc72bb7e_1
- r-tmvnsim=1.0_2=r41h8da6f51_4
- r-tzdb=0.3.0=r41h7525677_1
- r-urlchecker=1.0.1=r41hc72bb7e_1
- r-usethis=2.1.6=r41hc72bb7e_1
- r-utf8=1.2.2=r41h06615bd_1
- r-uuid=1.1_0=r41h06615bd_1
- r-vctrs=0.5.0=r41h7525677_0
- r-viridis=0.6.2=r41hc72bb7e_1
- r-viridislite=0.4.1=r41hc72bb7e_1
- r-vroom=1.6.0=r41h7525677_1
- r-waldo=0.4.0=r41hc72bb7e_1
- r-whisker=0.4=r41hc72bb7e_2
- r-withr=2.5.0=r41hc72bb7e_1
- r-xfun=0.34=r41h7525677_0
- r-xml2=1.3.3=r41h044e5c7_2
- r-xmlparsedata=1.0.5=r41hc72bb7e_1
- r-xopen=1.0.0=r41hc72bb7e_1004
- r-xtable=1.8_4=r41hc72bb7e_4
- r-yaml=2.3.6=r41h06615bd_0
- r-yulab.utils=0.0.5=r41hc72bb7e_1
- r-zip=2.2.2=r41h06615bd_0
- readline=8.1.2=h0f457ee_0
- scipy=1.9.3=py39hddc5342_0
- sed=4.8=he412f7d_0
- selenium=4.3.0=pyhd8ed1ab_0
- setuptools=65.5.0=pyhd8ed1ab_0
- six=1.16.0=pyh6c4a22f_0
- sniffio=1.3.0=pyhd8ed1ab_0
- sortedcontainers=2.4.0=pyhd8ed1ab_0
- sqlite=3.39.4=h4ff8645_0
- svt-av1=1.3.0=h27087fc_0
- sysroot_linux-64=2.12=he073ed8_15
- tk=8.6.12=h27826a3_0
- tktable=2.10=hb7b940f_3
- treetime=0.9.4=pyh7cba7a3_0
- trio=0.22.0=py39hf3d152e_1
- trio-websocket=0.9.2=pyhd8ed1ab_0
- typing_extensions=4.4.0=pyha770c72_0
- tzdata=2022e=h191b570_0
- unicodedata2=14.0.0=py39hb9d737c_1
- webdriver-manager=3.7.1=pyhd8ed1ab_0
- wheel=0.37.1=pyhd8ed1ab_0
- wsproto=1.2.0=pyhd8ed1ab_0
- x264=1!164.3095=h166bdaf_2
- x265=3.5=h924138e_3
- xorg-fixesproto=5.0=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-libxrender=0.9.10=h7f98852_1003
- xorg-libxt=1.2.1=h7f98852_2
- 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
- zlib=1.2.13=h166bdaf_4
- zstd=1.5.2=h6239696_4
- pip:
- beautifulsoup4==4.11.1
- certifi==2022.9.24
- dnastack-client-library==3.0.56a1648737133
- imagination==3.3.1
- kotoba==3.1.0
- pbkdf2==1.3
- pycryptodome==3.16.0
- pydantic==1.10.2
- pyyaml==6.0
- requests==2.28.1
- requests-toolbelt==0.10.0
- soupsieve==2.3.2.post1
- urllib3==1.26.12