# This file created by conda-build 3.24.0
# meta.yaml template originally from:
# /opt/recipe, last modified Thu May 18 15:28:56 2023
# ------------------------------------------------

package:
  name: bioconductor-scpipe
  version: 1.19.0
source:
  md5: 07066303d3f430ebe44329cee1a03e48
  url:
    - https://bioarchive.galaxyproject.org/scPipe_1.19.0.tar.gz
    - https://bioconductor.org/packages/3.16/bioc/src/contrib/Archive/scPipe/scPipe_1.19.0.tar.gz
    - https://bioconductor.org/packages/3.16/bioc/src/contrib/scPipe_1.19.0.tar.gz
    - https://depot.galaxyproject.org/software/bioconductor-scpipe/bioconductor-scpipe_1.19.0_src_all.tar.gz
build:
  number: '1'
  rpaths:
    - lib/
    - lib/R/lib/
  string: r42hf17093f_1
requirements:
  build:
    - _libgcc_mutex 0.1 conda_forge
    - _openmp_mutex 4.5 2_gnu
    - binutils_impl_linux-64 2.39 he00db2b_1
    - binutils_linux-64 2.39 h5fc0e48_13
    - gcc_impl_linux-64 12.2.0 hcc96c02_19
    - gcc_linux-64 12.2.0 h4798a0e_13
    - gxx_impl_linux-64 12.2.0 hcc96c02_19
    - gxx_linux-64 12.2.0 hb41e900_13
    - kernel-headers_linux-64 2.6.32 he073ed8_15
    - ld_impl_linux-64 2.39 hcc3a1bd_1
    - libgcc-devel_linux-64 12.2.0 h3b97bd3_19
    - libgcc-ng 12.2.0 h65d4601_19
    - libgomp 12.2.0 h65d4601_19
    - libsanitizer 12.2.0 h46fd767_19
    - libstdcxx-devel_linux-64 12.2.0 h3b97bd3_19
    - libstdcxx-ng 12.2.0 h46fd767_19
    - make 4.3 hd18ef5c_1
    - sysroot_linux-64 2.12 he073ed8_15
  host:
    - _libgcc_mutex 0.1 conda_forge
    - _openmp_mutex 4.5 2_gnu
    - _r-mutex 1.0.1 anacondar_1
    - argcomplete 3.0.8 pyhd8ed1ab_0
    - binutils_impl_linux-64 2.40 hf600244_0
    - bioconductor-annotationdbi 1.60.0 r42hdfd78af_0
    - bioconductor-beachmat 2.14.0 r42hc247a5b_0
    - bioconductor-biobase 2.58.0 r42ha9d7317_1
    - bioconductor-biocfilecache 2.6.0 r42hdfd78af_0
    - bioconductor-biocgenerics 0.44.0 r42hdfd78af_0
    - bioconductor-biocio 1.8.0 r42hdfd78af_0
    - bioconductor-biocneighbors 1.16.0 r42hc247a5b_0
    - bioconductor-biocparallel 1.32.5 r42hf17093f_1
    - bioconductor-biocsingular 1.14.0 r42hc247a5b_0
    - bioconductor-biomart 2.54.0 r42hdfd78af_0
    - bioconductor-biostrings 2.66.0 r42hc0cfd56_0
    - bioconductor-data-packages 20230420 hdfd78af_0
    - bioconductor-delayedarray 0.24.0 r42hc0cfd56_0
    - bioconductor-delayedmatrixstats 1.20.0 r42hdfd78af_0
    - bioconductor-genomeinfodb 1.34.9 r42hdfd78af_0
    - bioconductor-genomeinfodbdata 1.2.9 r42hdfd78af_0
    - bioconductor-genomicalignments 1.34.0 r42hc0cfd56_0
    - bioconductor-genomicranges 1.50.0 r42hc0cfd56_0
    - bioconductor-iranges 2.32.0 r42hc0cfd56_0
    - bioconductor-keggrest 1.38.0 r42hdfd78af_0
    - bioconductor-matrixgenerics 1.10.0 r42hdfd78af_0
    - bioconductor-org.hs.eg.db 3.16.0 r42hdfd78af_0
    - bioconductor-org.mm.eg.db 3.16.0 r42hdfd78af_0
    - bioconductor-rhtslib 2.0.0 r42ha9d7317_1
    - bioconductor-rsamtools 2.14.0 r42hc247a5b_0
    - bioconductor-rtracklayer 1.58.0 r42h171f361_1
    - bioconductor-s4vectors 0.36.0 r42ha9d7317_1
    - bioconductor-scaledmatrix 1.6.0 r42hdfd78af_0
    - bioconductor-scater 1.26.0 r42hdfd78af_0
    - bioconductor-scuttle 1.8.0 r42hc247a5b_0
    - bioconductor-singlecellexperiment 1.20.0 r42hdfd78af_0
    - bioconductor-sparsematrixstats 1.10.0 r42hf17093f_1
    - bioconductor-summarizedexperiment 1.28.0 r42hdfd78af_0
    - bioconductor-xvector 0.38.0 r42hc0cfd56_0
    - bioconductor-zlibbioc 1.44.0 r42ha9d7317_2
    - bwidget 1.9.14 ha770c72_1
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    - font-ttf-ubuntu 0.83 hab24e00_0
    - fontconfig 2.14.2 h14ed4e7_0
    - fonts-conda-ecosystem 1 0
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    - gcc_impl_linux-64 12.2.0 hcc96c02_19
    - gettext 0.21.1 h27087fc_0
    - gfortran_impl_linux-64 12.2.0 h55be85b_19
    - graphite2 1.3.13 h58526e2_1001
    - gsl 2.7 he838d99_0
    - gxx_impl_linux-64 12.2.0 hcc96c02_19
    - harfbuzz 6.0.0 h8e241bc_0
    - icu 70.1 h27087fc_0
    - jpeg 9e h0b41bf4_3
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    - kernel-headers_linux-64 2.6.32 he073ed8_15
    - keyutils 1.6.1 h166bdaf_0
    - krb5 1.20.1 hf9c8cef_0
    - ld_impl_linux-64 2.40 h41732ed_0
    - lerc 4.0.0 h27087fc_0
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    - libcblas 3.9.0 5_h92ddd45_netlib
    - libcurl 7.87.0 h6312ad2_0
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    - libgfortran5 12.2.0 h337968e_19
    - libglib 2.76.2 hebfc3b9_0
    - libgomp 12.2.0 h65d4601_19
    - libiconv 1.17 h166bdaf_0
    - liblapack 3.9.0 5_h92ddd45_netlib
    - libnghttp2 1.51.0 hdcd2b5c_0
    - libnsl 2.0.0 h7f98852_0
    - libpng 1.6.39 h753d276_0
    - libsanitizer 12.2.0 h46fd767_19
    - libsqlite 3.42.0 h2797004_0
    - libssh2 1.10.0 haa6b8db_3
    - libstdcxx-devel_linux-64 12.2.0 h3b97bd3_19
    - libstdcxx-ng 12.2.0 h46fd767_19
    - libtiff 4.5.0 h6adf6a1_2
    - libuuid 2.38.1 h0b41bf4_0
    - libwebp-base 1.3.0 h0b41bf4_0
    - libxcb 1.13 h7f98852_1004
    - libxml2 2.10.3 hca2bb57_4
    - libzlib 1.2.13 h166bdaf_4
    - make 4.3 hd18ef5c_1
    - ncurses 6.3 h27087fc_1
    - oniguruma 6.9.8 h166bdaf_0
    - openssl 1.1.1t h0b41bf4_0
    - pango 1.50.14 hd33c08f_0
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    - pip 23.1.2 pyhd8ed1ab_0
    - pixman 0.40.0 h36c2ea0_0
    - pthread-stubs 0.4 h36c2ea0_1001
    - python 3.11.0 h10a6764_1_cpython
    - python_abi 3.11 3_cp311
    - pyyaml 6.0 py311hd4cff14_5
    - r-askpass 1.1 r42h06615bd_3
    - r-assertthat 0.2.1 r42hc72bb7e_3
    - r-backports 1.4.1 r42h06615bd_1
    - r-base 4.2.2 ha7d60f8_3
    - r-beeswarm 0.4.0 r42h06615bd_2
    - r-bh 1.81.0_1 r42hc72bb7e_0
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    - r-brio 1.1.3 r42h06615bd_1
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    - r-ggally 2.1.2 r42hc72bb7e_1
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    - r-magrittr 2.0.3 r42h06615bd_1
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    - r-matrix 1.5_4 r42he1ae0d6_0
    - r-matrixstats 0.63.0 r42h06615bd_0
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    - r-systemfonts 1.0.4 r42h0ff29ef_1
    - r-testthat 3.1.8 r42ha503ecb_0
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    - r-viridislite 0.4.1 r42hc72bb7e_1
    - r-waldo 0.5.1 r42hc72bb7e_0
    - r-withr 2.5.0 r42hc72bb7e_1
    - r-xml 3.99_0.14 r42hb43fdd4_0
    - r-xml2 1.3.3 r42h044e5c7_2
    - r-yaml 2.3.7 r42h133d619_0
    - readline 8.2 h8228510_1
    - sed 4.8 he412f7d_0
    - setuptools 67.7.2 pyhd8ed1ab_0
    - sysroot_linux-64 2.12 he073ed8_15
    - tk 8.6.12 h27826a3_0
    - tktable 2.10 hb7b940f_3
    - toml 0.10.2 pyhd8ed1ab_0
    - tomlkit 0.11.8 pyha770c72_0
    - tzdata 2023c h71feb2d_0
    - wheel 0.40.0 pyhd8ed1ab_0
    - xmltodict 0.13.0 pyhd8ed1ab_0
    - xorg-kbproto 1.0.7 h7f98852_1002
    - xorg-libice 1.0.10 h7f98852_0
    - xorg-libsm 1.2.3 hd9c2040_1000
    - xorg-libx11 1.8.4 h0b41bf4_0
    - xorg-libxau 1.0.9 h7f98852_0
    - xorg-libxdmcp 1.1.3 h7f98852_0
    - xorg-libxext 1.3.4 h0b41bf4_2
    - 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 h0b41bf4_1003
    - xorg-xproto 7.0.31 h7f98852_1007
    - xz 5.2.6 h166bdaf_0
    - yaml 0.2.5 h7f98852_2
    - yq 3.2.2 pyhd8ed1ab_0
    - zlib 1.2.13 h166bdaf_4
    - zstd 1.5.2 h3eb15da_6
  run:
    - bioconductor-annotationdbi >=1.60.0,<1.61.0
    - bioconductor-biocgenerics >=0.44.0,<0.45.0
    - bioconductor-biomart >=2.54.0,<2.55.0
    - bioconductor-genomicranges >=1.50.0,<1.51.0
    - bioconductor-org.hs.eg.db >=3.16.0,<3.17.0
    - bioconductor-org.mm.eg.db >=3.16.0,<3.17.0
    - bioconductor-rhtslib >=2.0.0,<2.1.0
    - bioconductor-rtracklayer >=1.58.0,<1.59.0
    - bioconductor-s4vectors >=0.36.0,<0.37.0
    - bioconductor-scater >=1.26.0,<1.27.0
    - bioconductor-singlecellexperiment >=1.20.0,<1.21.0
    - bioconductor-summarizedexperiment >=1.28.0,<1.29.0
    - bioconductor-zlibbioc >=1.44.0,<1.45.0
    - libblas >=3.9.0,<4.0a0
    - libgcc-ng >=12
    - liblapack >=3.9.0,<4.0a0
    - libstdcxx-ng >=12
    - r-base >=4.2,<4.3.0a0
    - r-dplyr
    - r-ggally
    - r-ggplot2
    - r-glue >=1.3.0
    - r-hash
    - r-magrittr
    - r-mass
    - r-mclust
    - r-rcpp >=0.11.3
    - r-reshape
    - r-rlang
    - r-robustbase
    - r-scales
    - r-stringr
    - r-testthat
test:
  commands:
    - $R -e "library('scPipe')"
about:
  description: A preprocessing pipeline for single cell RNA-seq data that starts from
    the fastq files and produces a gene count matrix with associated quality control
    information. It can process fastq data generated by CEL-seq, MARS-seq, Drop-seq,
    Chromium 10x and SMART-seq protocols.
  home: https://bioconductor.org/packages/3.16/bioc/html/scPipe.html
  license: GPL (>= 2)
  license_file: /opt/conda/conda-bld/bioconductor-scpipe_1684430608560/_h_env_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_placehold_pla/lib/R/share/licenses/GPL-3
  summary: pipeline for single cell RNA-seq data analysis
extra:
  copy_test_source_files: true
  final: true
