# This file created by conda-build 3.21.4
# meta.yaml template originally from:
# /opt/recipe, last modified Wed Mar 31 07:05:58 2021
# ------------------------------------------------

package:
  name: bioconductor-basecallqc
  version: 1.14.0
source:
  md5: 0187ef8e4c9bca29680e5ae92e738ee9
  url:
    - https://bioarchive.galaxyproject.org/basecallQC_1.14.0.tar.gz
    - https://bioconductor.org/packages/3.12/bioc/src/contrib/basecallQC_1.14.0.tar.gz
    - https://depot.galaxyproject.org/software/bioconductor-basecallqc/bioconductor-basecallqc_1.14.0_src_all.tar.gz
build:
  noarch: generic
  number: '1'
  rpaths:
    - lib/
    - lib/R/lib/
  string: r40hdfd78af_1
requirements:
  host:
    - _libgcc_mutex 0.1 conda_forge
    - _openmp_mutex 4.5 1_gnu
    - _r-mutex 1.0.1 anacondar_1
    - binutils_impl_linux-64 2.35.1 h193b22a_2
    - binutils_linux-64 2.35 h67ddf6f_30
    - bioconductor-biobase 2.50.0 r40hd029910_1
    - bioconductor-biocgenerics 0.36.0 r40hdfd78af_1
    - bioconductor-biocparallel 1.24.1 r40h399db7b_0
    - bioconductor-biostrings 2.58.0 r40hd029910_1
    - bioconductor-delayedarray 0.16.3 r40hd029910_0
    - bioconductor-genomeinfodb 1.26.4 r40hdfd78af_0
    - bioconductor-genomeinfodbdata 1.2.4 r40hdfd78af_1
    - bioconductor-genomicalignments 1.26.0 r40hd029910_1
    - bioconductor-genomicranges 1.42.0 r40hd029910_1
    - bioconductor-iranges 2.24.1 r40hd029910_0
    - bioconductor-matrixgenerics 1.2.1 r40hdfd78af_0
    - bioconductor-rhtslib 1.22.0 r40hd029910_1
    - bioconductor-rsamtools 2.6.0 r40h399db7b_1
    - bioconductor-s4vectors 0.28.1 r40hd029910_0
    - bioconductor-shortread 1.48.0 r40h399db7b_1
    - bioconductor-summarizedexperiment 1.20.0 r40hdfd78af_1
    - bioconductor-xvector 0.30.0 r40hd029910_1
    - bioconductor-zlibbioc 1.36.0 r40hd029910_1
    - bwidget 1.9.14 ha770c72_0
    - bzip2 1.0.8 h7f98852_4
    - c-ares 1.17.1 h7f98852_1
    - ca-certificates 2020.12.5 ha878542_0
    - cairo 1.16.0 h6cf1ce9_1008
    - curl 7.75.0 h979ede3_0
    - fontconfig 2.13.1 hba837de_1004
    - freetype 2.10.4 h0708190_1
    - fribidi 1.0.10 h36c2ea0_0
    - gcc_impl_linux-64 9.3.0 h70c0ae5_18
    - gcc_linux-64 9.3.0 hf25ea35_30
    - gettext 0.19.8.1 h0b5b191_1005
    - gfortran_impl_linux-64 9.3.0 hc4a2995_18
    - gfortran_linux-64 9.3.0 hdc58fab_30
    - graphite2 1.3.13 h58526e2_1001
    - gsl 2.6 he838d99_2
    - gxx_impl_linux-64 9.3.0 hd87eabc_18
    - gxx_linux-64 9.3.0 h3fbe746_30
    - harfbuzz 2.8.0 h83ec7ef_1
    - icu 68.1 h58526e2_0
    - jpeg 9d h36c2ea0_0
    - kernel-headers_linux-64 2.6.32 h77966d4_13
    - krb5 1.17.2 h926e7f8_0
    - ld_impl_linux-64 2.35.1 hea4e1c9_2
    - libblas 3.9.0 8_openblas
    - libcblas 3.9.0 8_openblas
    - libcurl 7.75.0 hc4aaa36_0
    - libedit 3.1.20191231 he28a2e2_2
    - libev 4.33 h516909a_1
    - libffi 3.3 h58526e2_2
    - libgcc-devel_linux-64 9.3.0 h7864c58_18
    - libgcc-ng 9.3.0 h2828fa1_18
    - libgfortran-ng 9.3.0 hff62375_18
    - libgfortran5 9.3.0 hff62375_18
    - libglib 2.68.0 h3e27bee_2
    - libgomp 9.3.0 h2828fa1_18
    - libiconv 1.16 h516909a_0
    - liblapack 3.9.0 8_openblas
    - libnghttp2 1.43.0 h812cca2_0
    - libopenblas 0.3.12 pthreads_h4812303_1
    - libpng 1.6.37 h21135ba_2
    - libssh2 1.9.0 ha56f1ee_6
    - libstdcxx-devel_linux-64 9.3.0 hb016644_18
    - libstdcxx-ng 9.3.0 h6de172a_18
    - libtiff 4.2.0 hdc55705_0
    - libuuid 2.32.1 h7f98852_1000
    - libwebp-base 1.2.0 h7f98852_2
    - libxcb 1.13 h7f98852_1003
    - libxml2 2.9.10 h72842e0_3
    - lz4-c 1.9.3 h9c3ff4c_0
    - make 4.3 hd18ef5c_1
    - ncurses 6.2 h58526e2_4
    - openssl 1.1.1k h7f98852_0
    - pandoc 2.12 h7f98852_0
    - pango 1.48.4 hb8ff022_0
    - pcre 8.44 he1b5a44_0
    - pcre2 10.36 h032f7d1_1
    - pixman 0.40.0 h36c2ea0_0
    - pthread-stubs 0.4 h36c2ea0_1001
    - r-assertthat 0.2.1 r40h6115d3f_2
    - r-backports 1.2.1 r40hcfec24a_0
    - r-base 4.0.3 h349a78a_8
    - r-base64enc 0.1_3 r40hcdcec82_1004
    - r-bh 1.75.0_0 r40hc72bb7e_0
    - r-bitops 1.0_6 r40hcdcec82_1004
    - r-brio 1.1.1 r40hcfec24a_0
    - r-callr 3.6.0 r40hc72bb7e_0
    - r-cli 2.3.1 r40hc72bb7e_0
    - r-colorspace 2.0_0 r40h9e2df91_0
    - r-crayon 1.4.1 r40hc72bb7e_0
    - r-crosstalk 1.1.1 r40hc72bb7e_0
    - r-data.table 1.14.0 r40hcfec24a_0
    - r-desc 1.3.0 r40hc72bb7e_0
    - r-diffobj 0.3.3 r40hcfec24a_0
    - r-digest 0.6.27 r40h1b71b39_0
    - r-dplyr 1.0.5 r40h03ef668_0
    - r-dt 0.17 r40hc72bb7e_0
    - r-ellipsis 0.3.1 r40hcdcec82_0
    - r-evaluate 0.14 r40h6115d3f_2
    - r-fansi 0.4.2 r40hcfec24a_0
    - r-farver 2.1.0 r40h03ef668_0
    - r-formatr 1.8 r40hc72bb7e_0
    - r-futile.logger 1.4.3 r40h6115d3f_1003
    - r-futile.options 1.0.1 r40h6115d3f_1002
    - r-generics 0.1.0 r40hc72bb7e_0
    - r-ggplot2 3.3.3 r40hc72bb7e_0
    - r-glue 1.4.2 r40hcfec24a_0
    - r-gtable 0.3.0 r40h6115d3f_3
    - r-highr 0.8 r40h6115d3f_2
    - r-htmltools 0.5.1.1 r40h03ef668_0
    - r-htmlwidgets 1.5.3 r40hc72bb7e_0
    - r-hwriter 1.3.2 r40h6115d3f_1003
    - r-isoband 0.2.4 r40h03ef668_0
    - r-jpeg 0.1_8.1 r40hcdcec82_1
    - r-jsonlite 1.7.2 r40hcfec24a_0
    - r-knitr 1.31 r40hc72bb7e_0
    - r-labeling 0.4.2 r40h142f84f_0
    - r-lambda.r 1.2.4 r40h6115d3f_1
    - r-later 1.1.0.1 r40h0357c0b_0
    - r-lattice 0.20_41 r40hcfec24a_3
    - r-latticeextra 0.6_29 r40h6115d3f_1
    - r-lazyeval 0.2.2 r40hcdcec82_2
    - r-lifecycle 1.0.0 r40hc72bb7e_0
    - r-magrittr 2.0.1 r40hcfec24a_1
    - r-markdown 1.1 r40hcfec24a_1
    - r-mass 7.3_53.1 r40hcfec24a_0
    - r-matrix 1.3_2 r40he454529_0
    - r-matrixstats 0.58.0 r40hcfec24a_0
    - r-mgcv 1.8_34 r40he454529_0
    - r-mime 0.10 r40hcfec24a_0
    - r-munsell 0.5.0 r40h6115d3f_1003
    - r-nlme 3.1_152 r40h859d828_0
    - r-pillar 1.5.1 r40hc72bb7e_0
    - r-pkgbuild 1.2.0 r40hc72bb7e_0
    - r-pkgconfig 2.0.3 r40h6115d3f_1
    - r-pkgload 1.2.0 r40h03ef668_0
    - r-png 0.1_7 r40hcdcec82_1004
    - r-praise 1.0.0 r40h6115d3f_1004
    - r-prettydoc 0.4.1 r40hc72bb7e_0
    - r-prettyunits 1.1.1 r40h6115d3f_1
    - r-processx 3.5.0 r40hcfec24a_0
    - r-promises 1.2.0.1 r40h03ef668_0
    - r-ps 1.6.0 r40hcfec24a_0
    - r-purrr 0.3.4 r40hcdcec82_1
    - r-r6 2.5.0 r40hc72bb7e_0
    - r-raster 3.4_5 r40he524a50_0
    - r-rcolorbrewer 1.1_2 r40h6115d3f_1003
    - r-rcpp 1.0.6 r40h03ef668_0
    - r-rcurl 1.98_1.3 r40hcfec24a_0
    - r-rematch2 2.1.2 r40h6115d3f_1
    - r-rlang 0.4.10 r40hcfec24a_0
    - r-rmarkdown 2.7 r40hc72bb7e_0
    - r-rprojroot 2.0.2 r40hc72bb7e_0
    - r-rstudioapi 0.13 r40hc72bb7e_0
    - r-scales 1.1.1 r40h6115d3f_0
    - r-snow 0.4_3 r40h6115d3f_1002
    - r-sp 1.4_5 r40hcfec24a_0
    - r-stringi 1.5.3 r40hcabe038_1
    - r-stringr 1.4.0 r40h6115d3f_2
    - r-testthat 3.0.2 r40h03ef668_0
    - r-tibble 3.1.0 r40hcfec24a_1
    - r-tidyr 1.1.3 r40h03ef668_0
    - r-tidyselect 1.1.0 r40h6115d3f_0
    - r-tinytex 0.31 r40hc72bb7e_0
    - r-utf8 1.2.1 r40hcfec24a_0
    - r-vctrs 0.3.7 r40hcfec24a_0
    - r-viridislite 0.3.0 r40h6115d3f_1003
    - r-waldo 0.2.5 r40hc72bb7e_0
    - r-withr 2.4.1 r40hc72bb7e_0
    - r-xfun 0.20 r40hcfec24a_0
    - r-xml 3.99_0.6 r40hcfec24a_0
    - r-yaml 2.2.1 r40hcfec24a_1
    - r-zeallot 0.1.0 r40h6115d3f_1002
    - readline 8.0 he28a2e2_2
    - sed 4.8 he412f7d_0
    - sysroot_linux-64 2.12 h77966d4_13
    - tk 8.6.10 h21135ba_1
    - tktable 2.10 hb7b940f_3
    - xorg-kbproto 1.0.7 h7f98852_1002
    - xorg-libice 1.0.10 h7f98852_0
    - xorg-libsm 1.2.3 hd9c2040_1000
    - xorg-libx11 1.7.0 h7f98852_0
    - xorg-libxau 1.0.9 h7f98852_0
    - xorg-libxdmcp 1.1.3 h7f98852_0
    - xorg-libxext 1.3.4 h7f98852_1
    - 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 5.2.5 h516909a_1
    - zlib 1.2.11 h516909a_1010
    - zstd 1.4.9 ha95c52a_0
  run:
    - bioconductor-shortread >=1.48.0,<1.49.0
    - r-base >=4.0,<4.1.0a0
    - r-data.table
    - r-dplyr
    - r-dt
    - r-ggplot2
    - r-knitr
    - r-lazyeval
    - r-magrittr
    - r-prettydoc
    - r-raster
    - r-rmarkdown
    - r-stringr
    - r-tidyr
    - r-xml
    - r-yaml
test:
  commands:
    - $R -e "library('basecallQC')"
about:
  description: The basecallQC package provides tools to work with Illumina bcl2Fastq
    (versions >= 2.1.7) software.Prior to basecalling and demultiplexing using the
    bcl2Fastq software, basecallQC functions allow the user to update Illumina sample
    sheets from versions <= 1.8.9 to >= 2.1.7 standards, clean sample sheets of common
    problems such as invalid sample names and IDs, create read and index basemasks
    and the bcl2Fastq command. Following the generation of basecalled and demultiplexed
    data, the basecallQC packages allows the user to generate HTML tables, plots and
    a self contained report of summary metrics from Illumina XML output files.
  home: https://bioconductor.org/packages/3.12/bioc/html/basecallQC.html
  license: GPL (>= 3)
  license_file: /opt/conda/conda-bld/bioconductor-basecallqc_1617186426073/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold/lib/R/share/licenses/GPL-3
  summary: Working with Illumina Basecalling and Demultiplexing input and output files
extra:
  copy_test_source_files: true
  final: true
  notes: '''This package relies on bcl2fastq being available in the system PATH.  Due
    to licensing

    restrictions Bioconda does not provide this package.''

    '
