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bioscanflow_env.yml
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name: bioscanflow_env
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
- _sysroot_linux-64_curr_repodata_hack=3=h69a702a_16
- alsa-lib=1.2.12=h4ab18f5_0
- argcomplete=1.12.3=pyhd3eb1b0_0
- bbmap=39.08=h92535d8_0
- binutils_impl_linux-64=2.40=ha1999f0_7
- bioconductor-biobase=2.62.0=r43ha9d7317_2
- bioconductor-biocgenerics=0.48.1=r43hdfd78af_2
- bioconductor-biocparallel=1.36.0=r43hf17093f_2
- bioconductor-biostrings=2.70.1=r43ha9d7317_2
- bioconductor-dada2=1.30.0=r43hf17093f_0
- bioconductor-data-packages=20231203=hdfd78af_0
- bioconductor-delayedarray=0.28.0=r43ha9d7317_2
- bioconductor-genomeinfodb=1.38.1=r43hdfd78af_1
- bioconductor-genomeinfodbdata=1.2.11=r43hdfd78af_1
- bioconductor-genomicalignments=1.38.0=r43ha9d7317_1
- bioconductor-genomicranges=1.54.1=r43ha9d7317_2
- bioconductor-iranges=2.36.0=r43ha9d7317_2
- bioconductor-matrixgenerics=1.14.0=r43hdfd78af_3
- bioconductor-rhtslib=2.4.0=r43ha9d7317_2
- bioconductor-rsamtools=2.18.0=r43hf17093f_2
- bioconductor-s4arrays=1.2.0=r43ha9d7317_2
- bioconductor-s4vectors=0.40.2=r43ha9d7317_2
- bioconductor-shortread=1.60.0=r43hf17093f_1
- bioconductor-sparsearray=1.2.2=r43ha9d7317_2
- bioconductor-summarizedexperiment=1.32.0=r43hdfd78af_0
- bioconductor-xvector=0.42.0=r43ha9d7317_2
- bioconductor-zlibbioc=1.48.0=r43ha9d7317_2
- biopython=1.84=py312h9a8786e_0
- blast=2.16.0=hc155240_2
- bwidget=1.9.14=ha770c72_1
- bzip2=1.0.8=h4bc722e_7
- c-ares=1.33.1=heb4867d_0
- ca-certificates=2024.8.30=hbcca054_0
- cairo=1.18.0=hebfffa5_3
- cffi=1.16.0=py312h5eee18b_1
- curl=8.10.1=hbbe4b11_0
- cutadapt=4.9=py312hf67a6ed_1
- dnaio=1.2.1=py312hf67a6ed_2
- entrez-direct=22.4=he881be0_0
- expat=2.6.3=h5888daf_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=h77eed37_2
- fontconfig=2.14.2=h14ed4e7_0
- fonts-conda-ecosystem=1=0
- fonts-conda-forge=1=0
- freetype=2.12.1=h267a509_2
- fribidi=1.0.10=h36c2ea0_0
- gawk=5.3.1=hcd3d067_0
- gcc_impl_linux-64=14.1.0=h3c94d91_1
- gfortran_impl_linux-64=14.1.0=he4a1faa_1
- giflib=5.2.2=hd590300_0
- gmp=6.3.0=hac33072_2
- graphite2=1.3.13=h59595ed_1003
- gsl=2.7=he838d99_0
- gxx_impl_linux-64=14.1.0=h8d00ecb_1
- harfbuzz=9.0.0=hda332d3_1
- htslib=1.21=h5efdd21_0
- icu=75.1=he02047a_0
- importlib-metadata=2.0.0=py_1
- importlib_metadata=2.0.0=1
- isa-l=2.31.0=h4bc722e_2
- jq=1.6=h27cfd23_1000
- kernel-headers_linux-64=3.10.0=h4a8ded7_16
- keyutils=1.6.1=h166bdaf_0
- krb5=1.21.3=h659f571_0
- lcms2=2.16=hb7c19ff_0
- ld_impl_linux-64=2.40=hf3520f5_7
- lerc=4.0.0=h27087fc_0
- libasprintf=0.22.5=he8f35ee_3
- libblas=3.9.0=24_linux64_openblas
- libcblas=3.9.0=24_linux64_openblas
- libcups=2.3.3=h4637d8d_4
- libcurl=8.10.1=hbbe4b11_0
- libdeflate=1.21=h4bc722e_0
- libedit=3.1.20191231=he28a2e2_2
- libev=4.33=hd590300_2
- libexpat=2.6.3=h5888daf_0
- libffi=3.4.2=h7f98852_5
- libgcc=14.1.0=h77fa898_1
- libgcc-devel_linux-64=14.1.0=h5d3d1c9_101
- libgcc-ng=14.1.0=h69a702a_1
- libgettextpo=0.22.5=he02047a_3
- libgfortran=14.1.0=h69a702a_1
- libgfortran-ng=14.1.0=h69a702a_1
- libgfortran5=14.1.0=hc5f4f2c_1
- libgit2=1.8.1=he8d1d4c_1
- libglib=2.80.3=h315aac3_2
- libgomp=14.1.0=h77fa898_1
- libiconv=1.17=hd590300_2
- libidn2=2.3.4=h5eee18b_0
- libjpeg-turbo=3.0.0=hd590300_1
- liblapack=3.9.0=24_linux64_openblas
- libnghttp2=1.58.0=h47da74e_1
- libnsl=2.0.1=hd590300_0
- libopenblas=0.3.27=pthreads_hac2b453_1
- libpng=1.6.44=hadc24fc_0
- libsanitizer=14.1.0=hcba0ae0_1
- libsqlite=3.46.1=hadc24fc_0
- libssh2=1.11.0=h0841786_0
- libstdcxx=14.1.0=hc0a3c3a_1
- libstdcxx-devel_linux-64=14.1.0=h5d3d1c9_101
- libstdcxx-ng=14.1.0=h4852527_1
- libtiff=4.7.0=h6565414_0
- libunistring=0.9.10=h27cfd23_0
- libuuid=2.38.1=h0b41bf4_0
- libuv=1.48.0=h5eee18b_0
- libwebp-base=1.4.0=hd590300_0
- libxcb=1.16=hb9d3cd8_1
- libxcrypt=4.4.36=hd590300_1
- libxml2=2.12.7=he7c6b58_4
- libzlib=1.3.1=h4ab18f5_1
- mafft=7.525=h031d066_1
- make=4.4.1=hb9d3cd8_1
- metamate=0.4.3=pyr43h7cba7a3_0
- mpfr=4.2.1=h90cbb55_3
- ncbi-vdb=3.1.1=h4ac6f70_2
- ncurses=6.5=he02047a_1
- numpy=2.1.1=py312h58c1407_0
- oniguruma=6.9.7.1=h27cfd23_0
- openjdk=22.0.1=h8651b0f_1
- openssl=3.3.2=hb9d3cd8_0
- pandoc=2.12=h06a4308_3
- pango=1.54.0=h4c5309f_1
- pbzip2=1.1.13=h1fcc475_2
- pcre2=10.44=hba22ea6_2
- perl=5.32.1=0_h5eee18b_perl5
- perl-archive-tar=2.40=pl5321hdfd78af_0
- perl-carp=1.50=pl5321hd8ed1ab_0
- perl-common-sense=3.75=pl5321hd8ed1ab_0
- perl-compress-raw-bzip2=2.201=pl5321h166bdaf_0
- perl-compress-raw-zlib=2.202=pl5321h166bdaf_0
- perl-encode=3.21=pl5321hd590300_0
- perl-exporter=5.74=pl5321hd8ed1ab_0
- perl-exporter-tiny=1.002002=pl5321hd8ed1ab_0
- perl-extutils-makemaker=7.70=pl5321hd8ed1ab_0
- perl-io-compress=2.201=pl5321hdbdd923_2
- perl-io-zlib=1.14=pl5321hdfd78af_0
- perl-json=4.10=pl5321hdfd78af_1
- perl-json-xs=4.03=pl5321h4ac6f70_3
- perl-list-moreutils=0.430=pl5321hdfd78af_0
- perl-list-moreutils-xs=0.430=pl5321h031d066_2
- perl-parent=0.241=pl5321hd8ed1ab_0
- perl-pathtools=3.75=pl5321h166bdaf_0
- perl-scalar-list-utils=1.63=pl5321h166bdaf_0
- perl-storable=3.15=pl5321hb9d3cd8_0
- perl-types-serialiser=1.01=pl5321hdfd78af_0
- pigz=2.8=h2797004_0
- pip=24.2=pyh8b19718_1
- pixman=0.43.2=h59595ed_0
- pthread-stubs=0.4=hb9d3cd8_1002
- pycparser=2.21=pyhd3eb1b0_0
- pysam=0.22.1=py312hcfdcdd7_2
- python=3.12.5=h2ad013b_0_cpython
- python-isal=1.7.0=py312h66e93f0_1
- python-zlib-ng=0.5.0=py312h1ba79a0_1
- python_abi=3.12=5_cp312
- pyyaml=6.0.1=py312h5eee18b_0
- r-abind=1.4_5=r43h142f84f_0
- r-ape=5.7_1=r43h884c59f_0
- r-askpass=1.2.0=r43h76d94ec_0
- r-base=4.3.3=h9967228_14
- r-base64enc=0.1_3=r43h76d94ec_4
- r-bh=1.81.0_1=r43h6115d3f_0
- r-bitops=1.0_7=r43h76d94ec_0
- r-brew=1.0_8=r43h6115d3f_0
- r-brio=1.1.3=r43h76d94ec_0
- r-bslib=0.5.1=r43h6115d3f_0
- r-cachem=1.0.8=r43h76d94ec_0
- r-callr=3.7.3=r43h6115d3f_0
- r-cli=3.6.1=r43h884c59f_0
- r-clipr=0.8.0=r43h6115d3f_0
- r-cluster=2.1.4=r43h640688f_0
- r-codetools=0.2_19=r43h6115d3f_0
- r-colorspace=2.1_0=r43h76d94ec_0
- r-commonmark=1.9.0=r43h76d94ec_0
- r-cpp11=0.4.6=r43h6115d3f_0
- r-crayon=1.5.2=r43h6115d3f_0
- r-credentials=2.0.1=r43h142f84f_0
- r-curl=5.1.0=r43h76d94ec_0
- r-deldir=1.0_9=r43h640688f_1
- r-desc=1.4.2=r43h6115d3f_0
- r-devtools=2.4.5=r43h142f84f_1
- r-diffobj=0.3.5=r43h76d94ec_0
- r-digest=0.6.33=r43h884c59f_0
- r-downlit=0.4.3=r43h6115d3f_0
- r-ellipsis=0.3.2=r43h76d94ec_0
- r-evaluate=0.22=r43h6115d3f_0
- r-fansi=1.0.5=r43h76d94ec_0
- r-farver=2.1.1=r43h884c59f_0
- r-fastcluster=1.2.3=r43h884c59f_0
- r-fastmap=1.1.1=r43h884c59f_0
- r-fontawesome=0.5.2=r43h6115d3f_0
- r-formatr=1.14=r43h6115d3f_0
- r-fs=1.6.3=r43h884c59f_0
- r-futile.logger=1.4.3=r43h6115d3f_0
- r-futile.options=1.0.1=r43h142f84f_0
- r-gert=2.1.2=r43h017ce79_0
- r-getopt=1.20.4=r43h6115d3f_0
- r-ggplot2=3.4.4=r43h6115d3f_0
- r-gh=1.4.0=r43h142f84f_0
- r-gitcreds=0.1.2=r43h6115d3f_0
- r-glue=1.6.2=r43h76d94ec_0
- r-gtable=0.3.4=r43h6115d3f_0
- r-highr=0.10=r43h6115d3f_0
- r-htmltools=0.5.6.1=r43h76d94ec_0
- r-htmlwidgets=1.6.2=r43h6115d3f_0
- r-httpuv=1.6.15=r43ha18555a_1
- r-httr=1.4.7=r43h6115d3f_0
- r-httr2=0.2.3=r43h6115d3f_0
- r-hwriter=1.3.2.1=r43h142f84f_0
- r-ini=0.3.1=r43h142f84f_0
- r-interp=1.1_4=r43hb5eb8f6_0
- r-isoband=0.2.7=r43h884c59f_0
- r-jpeg=0.1_10=r43h76d94ec_0
- r-jquerylib=0.1.4=r43h6115d3f_0
- r-jsonlite=1.8.7=r43h76d94ec_0
- r-knitr=1.44=r43h6115d3f_0
- r-labeling=0.4.3=r43h6115d3f_0
- r-lambda.r=1.2.4=r43h142f84f_0
- r-later=1.3.1=r43h884c59f_0
- r-lattice=0.22_5=r43h76d94ec_0
- r-latticeextra=0.6_30=r43h6115d3f_0
- r-lifecycle=1.0.3=r43h142f84f_0
- r-magrittr=2.0.3=r43h76d94ec_0
- r-mass=7.3_60=r43h76d94ec_0
- r-matrix=1.6_1.1=r43h76d94ec_0
- r-matrixstats=1.0.0=r43h76d94ec_0
- r-memoise=2.0.1=r43h6115d3f_0
- r-mgcv=1.9_0=r43h76d94ec_0
- r-mime=0.12=r43h76d94ec_0
- r-miniui=0.1.1.1=r43h6115d3f_0
- r-munsell=0.5.0=r43h6115d3f_0
- r-nlme=3.1_163=r43h640688f_0
- r-openssl=2.1.1=r43h76d94ec_0
- r-pillar=1.9.0=r43h6115d3f_0
- r-pkgbuild=1.4.2=r43h142f84f_0
- r-pkgconfig=2.0.3=r43h6115d3f_0
- r-pkgdown=2.0.7=r43h142f84f_0
- r-pkgload=1.3.3=r43h142f84f_0
- r-plyr=1.8.9=r43h884c59f_0
- r-png=0.1_8=r43h76d94ec_0
- r-praise=1.0.0=r43h6115d3f_4
- r-prettyunits=1.2.0=r43h142f84f_0
- r-processx=3.8.2=r43h76d94ec_0
- r-profvis=0.3.8=r43h76d94ec_0
- r-promises=1.2.1=r43h884c59f_0
- r-ps=1.7.5=r43h76d94ec_0
- r-purrr=1.0.2=r43h76d94ec_0
- r-r6=2.5.1=r43h6115d3f_0
- r-ragg=1.2.6=r43h884c59f_0
- r-rappdirs=0.3.3=r43h76d94ec_0
- r-rcmdcheck=1.4.0=r43h142f84f_0
- r-rcolorbrewer=1.1_3=r43h6115d3f_1
- r-rcpp=1.0.11=r43h884c59f_0
- r-rcppeigen=0.3.3.9.3=r43h884c59f_0
- r-rcppparallel=5.1.7=r43h884c59f_0
- r-rcurl=1.98_1.12=r43h76d94ec_0
- r-rematch2=2.1.2=r43h142f84f_0
- r-remotes=2.4.2.1=r43h142f84f_0
- r-reshape2=1.4.4=r43h884c59f_0
- r-rlang=1.1.1=r43h884c59f_0
- r-rmarkdown=2.25=r43h6115d3f_0
- r-roxygen2=7.2.3=r43h884c59f_0
- r-rprojroot=2.0.3=r43h6115d3f_0
- r-rstudioapi=0.15.0=r43h6115d3f_0
- r-rversions=2.1.2=r43h6115d3f_0
- r-sass=0.4.7=r43h884c59f_0
- r-scales=1.2.1=r43h6115d3f_0
- r-sessioninfo=1.2.2=r43h142f84f_0
- r-shiny=1.7.5.1=r43h6115d3f_0
- r-snow=0.4_4=r43h142f84f_0
- r-sourcetools=0.1.7_1=r43h884c59f_0
- r-stringi=1.8.4=r43h33cde33_3
- r-stringr=1.5.0=r43h6115d3f_0
- r-sys=3.4.2=r43h76d94ec_0
- r-systemfonts=1.0.5=r43h884c59f_0
- r-testthat=3.2.0=r43h884c59f_0
- r-textshaping=0.3.7=r43h884c59f_0
- r-tibble=3.2.1=r43h76d94ec_0
- r-tinytex=0.48=r43h142f84f_0
- r-urlchecker=1.0.1=r43h6115d3f_0
- r-usethis=2.2.2=r43h142f84f_0
- r-utf8=1.2.4=r43h76d94ec_0
- r-vctrs=0.6.4=r43h884c59f_0
- r-viridislite=0.4.2=r43h6115d3f_0
- r-waldo=0.5.1=r43h6115d3f_0
- r-whisker=0.4.1=r43h6115d3f_0
- r-withr=2.5.1=r43h6115d3f_0
- r-xfun=0.40=r43h76d94ec_0
- r-xml2=1.3.6=r43h8194278_2
- r-xopen=1.0.0=r43h142f84f_0
- r-xtable=1.8_4=r43h6115d3f_0
- r-yaml=2.3.7=r43h76d94ec_0
- r-zip=2.3.0=r43h76d94ec_0
- r-dplyr
- r-data.table
- r-seqinr
- rdp_classifier=2.14=hdfd78af_0
- readline=8.2=h8228510_1
- rpsbproc=0.5.0=h6a68c12_0
- samtools=1.21=h50ea8bc_0
- scipy=1.14.1=py312h7d485d2_0
- sed=4.8=he412f7d_0
- setuptools=74.1.2=pyhd8ed1ab_0
- sysroot_linux-64=2.17=h4a8ded7_16
- tk=8.6.13=noxft_h4845f30_101
- tktable=2.10=h8bc8fbc_6
- toml=0.10.2=pyhd3eb1b0_0
- tzdata=2024a=h8827d51_1
- vsearch=2.28.1=h6a68c12_1
- wget=1.21.4=hda4d442_0
- wheel=0.44.0=pyhd8ed1ab_0
- xmltodict=0.13.0=py312h06a4308_0
- xopen=2.0.2=pyh707e725_1
- xorg-fixesproto=5.0=h7f98852_1002
- xorg-inputproto=2.3.2=hb9d3cd8_1003
- xorg-kbproto=1.0.7=h7f98852_1002
- xorg-libice=1.1.1=hd590300_0
- xorg-libsm=1.2.4=h7391055_0
- xorg-libx11=1.8.9=hb711507_1
- xorg-libxau=1.0.11=hd590300_0
- xorg-libxdmcp=1.1.3=h7f98852_0
- xorg-libxext=1.3.4=h0b41bf4_2
- xorg-libxfixes=5.0.3=h7f98852_1004
- xorg-libxi=1.7.10=h4bc722e_1
- xorg-libxrender=0.9.11=hd590300_0
- xorg-libxt=1.3.0=hd590300_1
- xorg-libxtst=1.2.5=h4bc722e_0
- xorg-recordproto=1.14.2=h7f98852_1002
- xorg-renderproto=0.11.1=hb9d3cd8_1003
- xorg-xextproto=7.3.0=h0b41bf4_1003
- xorg-xproto=7.0.31=h7f98852_1007
- xz=5.2.6=h166bdaf_0
- yaml=0.2.5=h7b6447c_0
- yq=2.12.0=pyhd3eb1b0_0
- zipp=3.17.0=py312h06a4308_0
- zlib=1.3.1=h4ab18f5_1
- zlib-ng=2.2.2=h5888daf_0
- zstandard=0.19.0=py312h5eee18b_0
- zstd=1.5.6=ha6fb4c9_0
- seqkit=2.8.2
- pigz=2.8
- itsx=1.1.3
prefix: /root/miniconda3/envs/metamate_env