# This file created by conda-build 3.24.0
# meta.yaml template originally from:
# /opt/recipe, last modified Tue May 16 11:57:46 2023
# ------------------------------------------------

package:
  name: bioconductor-msnid
  version: 1.32.0
source:
  md5: a3fbc76e3678abed4b9837d7908a1523
  url:
    - https://bioarchive.galaxyproject.org/MSnID_1.32.0.tar.gz
    - https://bioconductor.org/packages/3.16/bioc/src/contrib/MSnID_1.32.0.tar.gz
    - https://depot.galaxyproject.org/software/bioconductor-msnid/bioconductor-msnid_1.32.0_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
    - 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-affy 1.76.0 r42hc0cfd56_2
    - bioconductor-affyio 1.68.0 r42ha9d7317_1
    - bioconductor-annotationdbi 1.60.0 r42hdfd78af_0
    - bioconductor-annotationhub 3.6.0 r42hdfd78af_0
    - bioconductor-biobase 2.58.0 r42hc0cfd56_0
    - bioconductor-biocfilecache 2.6.0 r42hdfd78af_0
    - bioconductor-biocgenerics 0.44.0 r42hdfd78af_0
    - bioconductor-biocparallel 1.32.5 r42hc247a5b_0
    - bioconductor-biocstyle 2.26.0 r42hdfd78af_0
    - bioconductor-biocversion 3.16.0 r42hdfd78af_0
    - bioconductor-biostrings 2.66.0 r42hc0cfd56_0
    - bioconductor-data-packages 20230420 hdfd78af_0
    - bioconductor-edger 3.40.0 r42hc247a5b_0
    - bioconductor-genomeinfodb 1.34.9 r42hdfd78af_0
    - bioconductor-genomeinfodbdata 1.2.9 r42hdfd78af_0
    - bioconductor-impute 1.72.0 r42hefde4a7_0
    - bioconductor-interactivedisplaybase 1.36.0 r42hdfd78af_0
    - bioconductor-iranges 2.32.0 r42hc0cfd56_0
    - bioconductor-keggrest 1.38.0 r42hdfd78af_0
    - bioconductor-limma 3.54.0 r42hc0cfd56_0
    - bioconductor-mscoreutils 1.10.0 r42hc247a5b_0
    - bioconductor-msmseda 1.36.0 r42hdfd78af_0
    - bioconductor-msmstests 1.36.0 r42hdfd78af_0
    - bioconductor-msnbase 2.24.0 r42hc247a5b_0
    - bioconductor-mzid 1.36.0 r42hdfd78af_0
    - bioconductor-mzr 2.32.0 r42hc247a5b_0
    - bioconductor-pcamethods 1.90.0 r42hc247a5b_0
    - bioconductor-preprocesscore 1.60.2 r42ha9d7317_2
    - bioconductor-protgenerics 1.30.0 r42hdfd78af_0
    - bioconductor-qvalue 2.30.0 r42hdfd78af_0
    - bioconductor-rhdf5lib 1.20.0 r42ha9d7317_2
    - bioconductor-s4vectors 0.36.0 r42hc0cfd56_0
    - bioconductor-vsn 3.66.0 r42hc0cfd56_0
    - bioconductor-xvector 0.38.0 r42hc0cfd56_0
    - bioconductor-zlibbioc 1.44.0 r42ha9d7317_2
    - blosc 1.21.4 h0f2a231_0
    - bwidget 1.9.14 ha770c72_1
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    - font-ttf-source-code-pro 2.038 h77eed37_0
    - font-ttf-ubuntu 0.83 hab24e00_0
    - fontconfig 2.14.2 h14ed4e7_0
    - fonts-conda-ecosystem 1 0
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    - fribidi 1.0.10 h36c2ea0_0
    - 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 7.3.0 hdb3a94d_0
    - hdf4 4.2.15 h501b40f_6
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    - icu 72.1 hcb278e6_0
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    - krb5 1.20.1 h81ceb04_0
    - ld_impl_linux-64 2.40 h41732ed_0
    - lerc 4.0.0 h27087fc_0
    - libaec 1.0.6 hcb278e6_1
    - libblas 3.9.0 5_h92ddd45_netlib
    - libcblas 3.9.0 5_h92ddd45_netlib
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    - libedit 3.1.20191231 he28a2e2_2
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    - libgomp 12.2.0 h65d4601_19
    - libiconv 1.17 h166bdaf_0
    - libjpeg-turbo 2.1.5.1 h0b41bf4_0
    - liblapack 3.9.0 5_h92ddd45_netlib
    - libnetcdf 4.9.2 nompi_hdf9a29f_104
    - libnghttp2 1.52.0 h61bc06f_0
    - libnsl 2.0.0 h7f98852_0
    - libpng 1.6.39 h753d276_0
    - libsanitizer 12.2.0 h46fd767_19
    - libsqlite 3.41.2 h2797004_1
    - libssh2 1.10.0 hf14f497_3
    - libstdcxx-devel_linux-64 12.2.0 h3b97bd3_19
    - libstdcxx-ng 12.2.0 h46fd767_19
    - libtiff 4.5.0 ha587672_6
    - libuuid 2.38.1 h0b41bf4_0
    - libwebp-base 1.3.0 h0b41bf4_0
    - libxcb 1.13 h7f98852_1004
    - libxml2 2.10.4 hfdac1af_0
    - libzip 1.9.2 hc929e4a_1
    - libzlib 1.2.13 h166bdaf_4
    - lz4-c 1.9.4 hcb278e6_0
    - make 4.3 hd18ef5c_1
    - ncurses 6.3 h27087fc_1
    - oniguruma 6.9.8 h166bdaf_0
    - openssl 3.1.0 hd590300_3
    - pandoc 2.19.2 h32600fe_2
    - pango 1.50.14 heaa33ce_1
    - pcre2 10.40 hc3806b6_0
    - pip 23.1.2 pyhd8ed1ab_0
    - pixman 0.40.0 h36c2ea0_0
    - pthread-stubs 0.4 h36c2ea0_1001
    - python 3.11.3 h2755cc3_0_cpython
    - python_abi 3.11 3_cp311
    - pyyaml 6.0 py311hd4cff14_5
    - r-askpass 1.1 r42h06615bd_3
    - r-base 4.2.3 h4a03800_2
    - r-base64enc 0.1_3 r42h06615bd_1005
    - r-bh 1.81.0_1 r42hc72bb7e_0
    - r-biocmanager 1.30.20 r42hc72bb7e_0
    - r-bit 4.0.5 r42h06615bd_0
    - r-bit64 4.0.5 r42h06615bd_1
    - r-bitops 1.0_7 r42h06615bd_1
    - r-blob 1.2.4 r42hc72bb7e_0
    - r-bookdown 0.34 r42hc72bb7e_0
    - r-bslib 0.4.2 r42hc72bb7e_0
    - r-cachem 1.0.8 r42h57805ef_0
    - r-catools 1.18.2 r42h7525677_1
    - r-cli 3.6.1 r42h38f115c_0
    - r-clue 0.3_64 r42h133d619_0
    - r-cluster 2.1.4 r42h8da6f51_0
    - r-codetools 0.2_19 r42hc72bb7e_0
    - r-colorspace 2.1_0 r42h133d619_0
    - r-commonmark 1.9.0 r42h133d619_0
    - r-cpp11 0.4.3 r42hc72bb7e_0
    - r-crayon 1.5.2 r42hc72bb7e_1
    - r-crosstalk 1.2.0 r42hc72bb7e_1
    - r-curl 4.3.3 r42hf9611b0_2
    - r-data.table 1.14.8 r42h133d619_0
    - r-dbi 1.1.3 r42hc72bb7e_1
    - r-dbplyr 2.3.2 r42hc72bb7e_0
    - r-digest 0.6.31 r42h38f115c_0
    - r-doparallel 1.0.17 r42hc72bb7e_1
    - r-dplyr 1.1.2 r42ha503ecb_0
    - r-dt 0.27 r42hc72bb7e_0
    - r-ellipsis 0.3.2 r42h06615bd_1
    - r-evaluate 0.21 r42hc72bb7e_0
    - r-fansi 1.0.4 r42h133d619_0
    - r-farver 2.1.1 r42h7525677_1
    - r-fastmap 1.1.1 r42h38f115c_0
    - r-filelock 1.0.2 r42h133d619_1003
    - r-fontawesome 0.5.1 r42hc72bb7e_0
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    - r-formatr 1.14 r42hc72bb7e_0
    - r-fs 1.6.2 r42ha503ecb_0
    - r-futile.logger 1.4.3 r42hc72bb7e_1004
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    - r-ggplot2 3.4.2 r42hc72bb7e_0
    - r-glue 1.6.2 r42h06615bd_1
    - r-gplots 3.1.3 r42hc72bb7e_1
    - r-gtable 0.3.3 r42hc72bb7e_0
    - r-gtools 3.9.4 r42h06615bd_0
    - r-highr 0.10 r42hc72bb7e_0
    - r-htmltools 0.5.5 r42h38f115c_0
    - r-htmlwidgets 1.6.2 r42hc72bb7e_0
    - r-httpuv 1.6.11 r42ha503ecb_0
    - r-httr 1.4.6 r42hc72bb7e_0
    - r-isoband 0.2.7 r42h38f115c_1
    - r-iterators 1.0.14 r42hc72bb7e_1
    - r-jquerylib 0.1.4 r42hc72bb7e_1
    - r-jsonlite 1.8.4 r42h133d619_0
    - r-kernsmooth 2.23_21 r42h13b3f57_0
    - r-knitr 1.42 r42hc72bb7e_1
    - r-labeling 0.4.2 r42hc72bb7e_2
    - r-lambda.r 1.2.4 r42hc72bb7e_2
    - r-later 1.3.1 r42ha503ecb_0
    - r-lattice 0.21_8 r42h133d619_0
    - r-lazyeval 0.2.2 r42h06615bd_3
    - r-lifecycle 1.0.3 r42hc72bb7e_1
    - r-locfit 1.5_9.7 r42h133d619_0
    - r-magrittr 2.0.3 r42h06615bd_1
    - r-maldiquant 1.22.1 r42h133d619_0
    - r-mass 7.3_60 r42h57805ef_0
    - r-matrix 1.5_4 r42he1ae0d6_0
    - r-memoise 2.0.1 r42hc72bb7e_1
    - r-mgcv 1.8_42 r42he1ae0d6_0
    - r-mime 0.12 r42h06615bd_1
    - r-munsell 0.5.0 r42hc72bb7e_1005
    - r-ncdf4 1.21 r42h0cc7714_3
    - r-nlme 3.1_162 r42hac0b197_0
    - r-openssl 2.0.6 r42habfbb5e_0
    - r-pillar 1.9.0 r42hc72bb7e_0
    - r-pkgconfig 2.0.3 r42hc72bb7e_2
    - r-plogr 0.2.0 r42hc72bb7e_1004
    - r-plyr 1.8.8 r42h7525677_0
    - r-png 0.1_8 r42h10cf519_0
    - r-promises 1.2.0.1 r42h7525677_1
    - r-purrr 1.0.1 r42h133d619_0
    - r-r.cache 0.16.0 r42hc72bb7e_1
    - r-r.methodss3 1.8.2 r42hc72bb7e_1
    - r-r.oo 1.25.0 r42hc72bb7e_1
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    - r-r6 2.5.1 r42hc72bb7e_1
    - r-rappdirs 0.3.3 r42h06615bd_1
    - r-rcolorbrewer 1.1_3 r42h785f33e_1
    - r-rcpp 1.0.10 r42h38f115c_0
    - r-rcurl 1.98_1.12 r42hf9611b0_1
    - r-reshape2 1.4.4 r42h7525677_2
    - r-rlang 1.1.1 r42ha503ecb_0
    - r-rmarkdown 2.21 r42hc72bb7e_0
    - r-rsqlite 2.3.1 r42h38f115c_0
    - r-runit 0.4.32 r42hc72bb7e_1003
    - r-sass 0.4.6 r42ha503ecb_0
    - r-scales 1.2.1 r42hc72bb7e_1
    - r-shiny 1.7.4 r42h785f33e_0
    - r-snow 0.4_4 r42hc72bb7e_1
    - r-sourcetools 0.1.7_1 r42h38f115c_0
    - r-stringi 1.7.12 r42hc0c3e09_1
    - r-stringr 1.5.0 r42h785f33e_0
    - r-sys 3.4.1 r42h06615bd_0
    - r-tibble 3.2.1 r42h133d619_1
    - r-tidyr 1.3.0 r42h38f115c_0
    - r-tidyselect 1.2.0 r42hc72bb7e_0
    - r-tinytex 0.45 r42hc72bb7e_0
    - r-utf8 1.2.3 r42h133d619_0
    - r-vctrs 0.6.2 r42ha503ecb_0
    - r-viridislite 0.4.1 r42hc72bb7e_1
    - r-withr 2.5.0 r42hc72bb7e_1
    - r-xfun 0.39 r42ha503ecb_0
    - r-xml 3.99_0.14 r42hb43fdd4_0
    - r-xtable 1.8_4 r42hc72bb7e_4
    - r-yaml 2.3.7 r42h133d619_0
    - readline 8.2 h8228510_1
    - sed 4.8 he412f7d_0
    - setuptools 67.7.2 pyhd8ed1ab_0
    - snappy 1.1.10 h9fff704_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-annotationhub >=3.6.0,<3.7.0
    - bioconductor-biobase >=2.58.0,<2.59.0
    - bioconductor-biocgenerics >=0.44.0,<0.45.0
    - bioconductor-biocstyle >=2.26.0,<2.27.0
    - bioconductor-biostrings >=2.66.0,<2.67.0
    - bioconductor-msmstests >=1.36.0,<1.37.0
    - bioconductor-msnbase >=2.24.0,<2.25.0
    - bioconductor-mzid >=1.36.0,<1.37.0
    - bioconductor-mzr >=2.32.0,<2.33.0
    - bioconductor-protgenerics >=1.30.0,<1.31.0
    - 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-data.table
    - r-doparallel
    - r-dplyr
    - r-foreach
    - r-ggplot2
    - r-iterators
    - r-purrr
    - r-r.cache
    - r-rcpp
    - r-reshape2
    - r-rlang
    - r-runit
    - r-stringr
    - r-tibble
    - r-xtable
test:
  commands:
    - $R -e "library('MSnID')"
about:
  description: Extracts MS/MS ID data from mzIdentML (leveraging mzID package) or
    text files. After collating the search results from multiple datasets it assesses
    their identification quality and optimize filtering criteria to achieve the maximum
    number of identifications while not exceeding a specified false discovery rate.
    Also contains a number of utilities to explore the MS/MS results and assess missed
    and irregular enzymatic cleavages, mass measurement accuracy, etc.
  home: https://bioconductor.org/packages/3.16/bioc/html/MSnID.html
  license: Artistic-2.0
  summary: Utilities for Exploration and Assessment of Confidence of LC-MSn Proteomics
    Identifications
extra:
  copy_test_source_files: true
  final: true
  identifiers:
    - biotools:msnid
    - doi:10.1038/nmeth.3252
