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Revert some commits that caused guix pull to fail.

Browse source 
This reverts commits 821e643921 through
8f9fd9b70c.

Specifically, these commits caused the build failure of
guix-package-cache.drv like this:

------
(repl-version 0 1 1)
Generating package cache for '/gnu/store/vyz7q26kxxd4z70m24rkkqqhaizdla7g-profile'...
(exception unbound-variable (value #f) (value "Unbound variable: ~S") (value (r-biobase)) (value #f))
This commit is contained in:
Leo Famulari 2021-03-15 19:48:52 -04:00
parent 8f9fd9b70c
commit 8ec0ca8faf
No known key found for this signature in database
GPG key ID: 2646FA30BACA7F08
2 changed files with 305 additions and 333 deletions
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333
gnu/packages/bioconductor.scm
View file

@ -1212,39 +1212,6 @@ (define-public r-cummerbund
used visualizations.")
(license license:artistic2.0)))
(define-public r-delayedarray
(package
(name "r-delayedarray")
(version "0.16.2")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "DelayedArray" version))
(sha256
(base32
"09lpj951v1afxkrnjvnhzp4qgklq23ykdwlny7k1lyfcdy9q6wm0"))))
(properties
`((upstream-name . "DelayedArray")))
(build-system r-build-system)
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)
("r-s4vectors" ,r-s4vectors)
("r-iranges" ,r-iranges)
("r-matrix" ,r-matrix)
("r-matrixgenerics" ,r-matrixgenerics)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://bioconductor.org/packages/DelayedArray")
(synopsis "Delayed operations on array-like objects")
(description
"Wrapping an array-like object (typically an on-disk object) in a
@code{DelayedArray} object allows one to perform common array operations on it
without loading the object in memory. In order to reduce memory usage and
optimize performance, operations on the object are either delayed or executed
using a block processing mechanism. Note that this also works on in-memory
array-like objects like @code{DataFrame} objects (typically with Rle columns),
@code{Matrix} objects, and ordinary arrays and data frames.")
(license license:artistic2.0)))
(define-public r-bluster
(package
(name "r-bluster")
@ -1571,35 +1538,6 @@ (define-public r-annotate
microarrays.")
(license license:artistic2.0)))
(define-public r-annotationdbi
(package
(name "r-annotationdbi")
(version "1.52.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "AnnotationDbi" version))
(sha256
(base32
"0zqxgh3nx6y8ry12s2vss2f4axz5vpqxha1y4ifhhcx4zhpzsglr"))))
(properties
`((upstream-name . "AnnotationDbi")))
(build-system r-build-system)
(propagated-inputs
`(("r-biobase" ,r-biobase)
("r-biocgenerics" ,r-biocgenerics)
("r-dbi" ,r-dbi)
("r-iranges" ,r-iranges)
("r-rsqlite" ,r-rsqlite)
("r-s4vectors" ,r-s4vectors)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://bioconductor.org/packages/AnnotationDbi")
(synopsis "Annotation database interface")
(description
"This package provides user interface and database connection code for
annotation data packages using SQLite data storage.")
(license license:artistic2.0)))
(define-public r-annotationforge
(package
(name "r-annotationforge")
@ -1632,148 +1570,6 @@ (define-public r-annotationforge
databases. Packages produced are intended to be used with AnnotationDbi.")
(license license:artistic2.0)))
(define-public r-biobase
(package
(name "r-biobase")
(version "2.50.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "Biobase" version))
(sha256
(base32
"11kgc4flywlm3i18603558l8ksv91c24vkc5fnnbcd375i2dhhd4"))))
(properties
`((upstream-name . "Biobase")))
(build-system r-build-system)
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)))
(home-page "https://bioconductor.org/packages/Biobase")
(synopsis "Base functions for Bioconductor")
(description
"This package provides functions that are needed by many other packages
on Bioconductor or which replace R functions.")
(license license:artistic2.0)))
(define-public r-biomart
(package
(name "r-biomart")
(version "2.46.3")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "biomaRt" version))
(sha256
(base32
"0gwmd0ykpv0gyh34c56g5m12lil20fvig49f3ih1jxrxf3q4wmq7"))))
(properties
`((upstream-name . "biomaRt")))
(build-system r-build-system)
(propagated-inputs
`(("r-annotationdbi" ,r-annotationdbi)
("r-biocfilecache" ,r-biocfilecache)
("r-httr" ,r-httr)
("r-openssl" ,r-openssl)
("r-progress" ,r-progress)
("r-rappdirs" ,r-rappdirs)
("r-stringr" ,r-stringr)
("r-xml" ,r-xml)
("r-xml2" ,r-xml2)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://bioconductor.org/packages/biomaRt")
(synopsis "Interface to BioMart databases")
(description
"biomaRt provides an interface to a growing collection of databases
implementing the @url{BioMart software suite, http://www.biomart.org}. The
package enables retrieval of large amounts of data in a uniform way without
the need to know the underlying database schemas or write complex SQL queries.
Examples of BioMart databases are Ensembl, COSMIC, Uniprot, HGNC, Gramene,
Wormbase and dbSNP mapped to Ensembl. These major databases give biomaRt
users direct access to a diverse set of data and enable a wide range of
powerful online queries from gene annotation to database mining.")
(license license:artistic2.0)))
(define-public r-biocparallel
(package
(name "r-biocparallel")
(version "1.24.1")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "BiocParallel" version))
(sha256
(base32
"1iryicvmcagcrj29kp49mqhiq2kn72j4idj380hi9illmdrg9ism"))))
(properties
`((upstream-name . "BiocParallel")))
(build-system r-build-system)
(arguments
`(#:phases
(modify-phases %standard-phases
(add-after 'unpack 'make-reproducible
(lambda _
;; Remove generated documentation.
(for-each delete-file
'("inst/doc/BiocParallel_BatchtoolsParam.pdf"
"inst/doc/Introduction_To_BiocParallel.pdf"
"inst/doc/Errors_Logs_And_Debugging.pdf"
"inst/doc/BiocParallel_BatchtoolsParam.R"
"inst/doc/Introduction_To_BiocParallel.R"
"inst/doc/Errors_Logs_And_Debugging.R"))
;; Remove time-dependent macro
(substitute* '("inst/doc/BiocParallel_BatchtoolsParam.Rnw"
"inst/doc/Introduction_To_BiocParallel.Rnw"
"inst/doc/Errors_Logs_And_Debugging.Rnw"
"vignettes/BiocParallel_BatchtoolsParam.Rnw"
"vignettes/Introduction_To_BiocParallel.Rnw"
"vignettes/Errors_Logs_And_Debugging.Rnw")
(("\\today") "later"))
;; Initialize the random number generator seed when building.
(substitute* "R/internal_rng_stream.R"
(("\"L'Ecuyer-CMRG\"\\)" m)
(string-append
m "; if (!is.na(Sys.getenv(\"SOURCE_DATE_EPOCH\"))) {set.seed(100)}\n"))))))))
(propagated-inputs
`(("r-futile-logger" ,r-futile-logger)
("r-snow" ,r-snow)
("r-bh" ,r-bh)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://bioconductor.org/packages/BiocParallel")
(synopsis "Bioconductor facilities for parallel evaluation")
(description
"This package provides modified versions and novel implementation of
functions for parallel evaluation, tailored to use with Bioconductor
objects.")
(license (list license:gpl2+ license:gpl3+))))
(define-public r-biostrings
(package
(name "r-biostrings")
(version "2.58.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "Biostrings" version))
(sha256
(base32
"1rbqhs73mhfr1gi0rx28jiyan7i3hb45ai3jpl1656fnrhgjfxq5"))))
(properties
`((upstream-name . "Biostrings")))
(build-system r-build-system)
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)
("r-crayon" ,r-crayon)
("r-iranges" ,r-iranges)
("r-s4vectors" ,r-s4vectors)
("r-xvector" ,r-xvector)))
(home-page "https://bioconductor.org/packages/Biostrings")
(synopsis "String objects and algorithms for biological sequences")
(description
"This package provides memory efficient string containers, string
matching algorithms, and other utilities, for fast manipulation of large
biological sequences or sets of sequences.")
(license license:artistic2.0)))
(define-public r-category
(package
(name "r-category")
@ -1974,37 +1770,6 @@ (define-public r-genomeinfodb
names in their natural, rather than lexicographic, order.")
(license license:artistic2.0)))
(define-public r-genomicranges
(package
(name "r-genomicranges")
(version "1.42.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "GenomicRanges" version))
(sha256
(base32
"0j4py5g6pdj35xhlaqhxxhg55j9l4mcdk3yck4dgyavv5f2dh24i"))))
(properties
`((upstream-name . "GenomicRanges")))
(build-system r-build-system)
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)
("r-genomeinfodb" ,r-genomeinfodb)
("r-iranges" ,r-iranges)
("r-s4vectors" ,r-s4vectors)
("r-xvector" ,r-xvector)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://bioconductor.org/packages/GenomicRanges")
(synopsis "Representation and manipulation of genomic intervals")
(description
"This package provides tools to efficiently represent and manipulate
genomic annotations and alignments is playing a central role when it comes to
analyzing high-throughput sequencing data (a.k.a. NGS data). The
GenomicRanges package defines general purpose containers for storing and
manipulating genomic intervals and variables defined along a genome.")
(license license:artistic2.0)))
(define-public r-gostats
(package
(name "r-gostats")
@ -2085,25 +1850,6 @@ (define-public r-hpar
the Human Protein Atlas project.")
(license license:artistic2.0)))
(define-public r-limma
(package
(name "r-limma")
(version "3.46.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "limma" version))
(sha256
(base32
"1xxv493q1kip9bjfv7v7k5dnq7hz7gvl80i983v4mvwavhgnbxfz"))))
(build-system r-build-system)
(home-page "http://bioinf.wehi.edu.au/limma")
(synopsis "Package for linear models for microarray and RNA-seq data")
(description "This package can be used for the analysis of gene expression
studies, especially the use of linear models for analysing designed experiments
and the assessment of differential expression. The analysis methods apply to
different technologies, including microarrays, RNA-seq, and quantitative PCR.")
(license license:gpl2+)))
(define-public r-rbgl
(package
(name "r-rbgl")
@ -2208,49 +1954,6 @@ (define-public r-reportingtools
browser.")
(license license:artistic2.0)))
(define-public r-rsamtools
(package
(name "r-rsamtools")
(version "2.6.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "Rsamtools" version))
(sha256
(base32
"040pggkwglc6wy90qnc7xcdnaj0v3iqlykvvsl74241409qly554"))))
(properties
`((upstream-name . "Rsamtools")))
(build-system r-build-system)
(arguments
`(#:phases
(modify-phases %standard-phases
(add-after 'unpack 'use-system-zlib
(lambda _
(substitute* "DESCRIPTION"
(("zlibbioc, ") ""))
(substitute* "NAMESPACE"
(("import\\(zlibbioc\\)") ""))
#t)))))
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)
("r-biocparallel" ,r-biocparallel)
("r-biostrings" ,r-biostrings)
("r-bitops" ,r-bitops)
("r-genomeinfodb" ,r-genomeinfodb)
("r-genomicranges" ,r-genomicranges)
("r-iranges" ,r-iranges)
("r-rhtslib" ,r-rhtslib)
("r-s4vectors" ,r-s4vectors)
("r-xvector" ,r-xvector)))
(home-page "https://bioconductor.org/packages/release/bioc/html/Rsamtools.html")
(synopsis "Interface to samtools, bcftools, and tabix")
(description
"This package provides an interface to the @code{samtools},
@code{bcftools}, and @code{tabix} utilities for manipulating SAM (Sequence
Alignment / Map), FASTA, binary variant call (BCF) and compressed indexed
tab-delimited (tabix) files.")
(license license:expat)))
(define-public r-shortread
(package
(name "r-shortread")
@ -2386,42 +2089,6 @@ (define-public r-variantannotation
coding changes and predict coding outcomes.")
(license license:artistic2.0)))
(define-public r-xvector
(package
(name "r-xvector")
(version "0.30.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "XVector" version))
(sha256
(base32
"1pqljikg4f6jb7wgm5537zwgq5b013nyz1agjrwfq2cljb0ym6lq"))))
(properties
`((upstream-name . "XVector")))
(build-system r-build-system)
(arguments
`(#:phases
(modify-phases %standard-phases
(add-after 'unpack 'use-system-zlib
(lambda _
(substitute* "DESCRIPTION"
(("zlibbioc, ") ""))
(substitute* "NAMESPACE"
(("import\\(zlibbioc\\)") ""))
#t)))))
(inputs
`(("zlib" ,zlib)))
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)
("r-iranges" ,r-iranges)
("r-s4vectors" ,r-s4vectors)))
(home-page "https://bioconductor.org/packages/XVector")
(synopsis "Representation and manpulation of external sequences")
(description
"This package provides memory efficient S4 classes for storing sequences
\"externally\" (behind an R external pointer, or on disk).")
(license license:artistic2.0)))
(define-public r-geneplotter
(package
(name "r-geneplotter")

305
gnu/packages/bioinformatics.scm
View file

@ -7691,6 +7691,311 @@ (define-public bio-vcf
(home-page "https://github.com/vcflib/bio-vcf")
(license license:expat)))
(define-public r-limma
(package
(name "r-limma")
(version "3.46.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "limma" version))
(sha256
(base32
"1xxv493q1kip9bjfv7v7k5dnq7hz7gvl80i983v4mvwavhgnbxfz"))))
(build-system r-build-system)
(home-page "http://bioinf.wehi.edu.au/limma")
(synopsis "Package for linear models for microarray and RNA-seq data")
(description "This package can be used for the analysis of gene expression
studies, especially the use of linear models for analysing designed experiments
and the assessment of differential expression. The analysis methods apply to
different technologies, including microarrays, RNA-seq, and quantitative PCR.")
(license license:gpl2+)))
(define-public r-xvector
(package
(name "r-xvector")
(version "0.30.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "XVector" version))
(sha256
(base32
"1pqljikg4f6jb7wgm5537zwgq5b013nyz1agjrwfq2cljb0ym6lq"))))
(properties
`((upstream-name . "XVector")))
(build-system r-build-system)
(arguments
`(#:phases
(modify-phases %standard-phases
(add-after 'unpack 'use-system-zlib
(lambda _
(substitute* "DESCRIPTION"
(("zlibbioc, ") ""))
(substitute* "NAMESPACE"
(("import\\(zlibbioc\\)") ""))
#t)))))
(inputs
`(("zlib" ,zlib)))
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)
("r-iranges" ,r-iranges)
("r-s4vectors" ,r-s4vectors)))
(home-page "https://bioconductor.org/packages/XVector")
(synopsis "Representation and manpulation of external sequences")
(description
"This package provides memory efficient S4 classes for storing sequences
\"externally\" (behind an R external pointer, or on disk).")
(license license:artistic2.0)))
(define-public r-genomicranges
(package
(name "r-genomicranges")
(version "1.42.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "GenomicRanges" version))
(sha256
(base32
"0j4py5g6pdj35xhlaqhxxhg55j9l4mcdk3yck4dgyavv5f2dh24i"))))
(properties
`((upstream-name . "GenomicRanges")))
(build-system r-build-system)
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)
("r-genomeinfodb" ,r-genomeinfodb)
("r-iranges" ,r-iranges)
("r-s4vectors" ,r-s4vectors)
("r-xvector" ,r-xvector)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://bioconductor.org/packages/GenomicRanges")
(synopsis "Representation and manipulation of genomic intervals")
(description
"This package provides tools to efficiently represent and manipulate
genomic annotations and alignments is playing a central role when it comes to
analyzing high-throughput sequencing data (a.k.a. NGS data). The
GenomicRanges package defines general purpose containers for storing and
manipulating genomic intervals and variables defined along a genome.")
(license license:artistic2.0)))
(define-public r-biobase
(package
(name "r-biobase")
(version "2.50.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "Biobase" version))
(sha256
(base32
"11kgc4flywlm3i18603558l8ksv91c24vkc5fnnbcd375i2dhhd4"))))
(properties
`((upstream-name . "Biobase")))
(build-system r-build-system)
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)))
(home-page "https://bioconductor.org/packages/Biobase")
(synopsis "Base functions for Bioconductor")
(description
"This package provides functions that are needed by many other packages
on Bioconductor or which replace R functions.")
(license license:artistic2.0)))
(define-public r-annotationdbi
(package
(name "r-annotationdbi")
(version "1.52.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "AnnotationDbi" version))
(sha256
(base32
"0zqxgh3nx6y8ry12s2vss2f4axz5vpqxha1y4ifhhcx4zhpzsglr"))))
(properties
`((upstream-name . "AnnotationDbi")))
(build-system r-build-system)
(propagated-inputs
`(("r-biobase" ,r-biobase)
("r-biocgenerics" ,r-biocgenerics)
("r-dbi" ,r-dbi)
("r-iranges" ,r-iranges)
("r-rsqlite" ,r-rsqlite)
("r-s4vectors" ,r-s4vectors)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://bioconductor.org/packages/AnnotationDbi")
(synopsis "Annotation database interface")
(description
"This package provides user interface and database connection code for
annotation data packages using SQLite data storage.")
(license license:artistic2.0)))
(define-public r-biomart
(package
(name "r-biomart")
(version "2.46.3")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "biomaRt" version))
(sha256
(base32
"0gwmd0ykpv0gyh34c56g5m12lil20fvig49f3ih1jxrxf3q4wmq7"))))
(properties
`((upstream-name . "biomaRt")))
(build-system r-build-system)
(propagated-inputs
`(("r-annotationdbi" ,r-annotationdbi)
("r-biocfilecache" ,r-biocfilecache)
("r-httr" ,r-httr)
("r-openssl" ,r-openssl)
("r-progress" ,r-progress)
("r-rappdirs" ,r-rappdirs)
("r-stringr" ,r-stringr)
("r-xml" ,r-xml)
("r-xml2" ,r-xml2)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://bioconductor.org/packages/biomaRt")
(synopsis "Interface to BioMart databases")
(description
"biomaRt provides an interface to a growing collection of databases
implementing the @url{BioMart software suite, http://www.biomart.org}. The
package enables retrieval of large amounts of data in a uniform way without
the need to know the underlying database schemas or write complex SQL queries.
Examples of BioMart databases are Ensembl, COSMIC, Uniprot, HGNC, Gramene,
Wormbase and dbSNP mapped to Ensembl. These major databases give biomaRt
users direct access to a diverse set of data and enable a wide range of
powerful online queries from gene annotation to database mining.")
(license license:artistic2.0)))
(define-public r-biocparallel
(package
(name "r-biocparallel")
(version "1.24.1")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "BiocParallel" version))
(sha256
(base32
"1iryicvmcagcrj29kp49mqhiq2kn72j4idj380hi9illmdrg9ism"))))
(properties
`((upstream-name . "BiocParallel")))
(build-system r-build-system)
(propagated-inputs
`(("r-futile-logger" ,r-futile-logger)
("r-snow" ,r-snow)
("r-bh" ,r-bh)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://bioconductor.org/packages/BiocParallel")
(synopsis "Bioconductor facilities for parallel evaluation")
(description
"This package provides modified versions and novel implementation of
functions for parallel evaluation, tailored to use with Bioconductor
objects.")
(license (list license:gpl2+ license:gpl3+))))
(define-public r-biostrings
(package
(name "r-biostrings")
(version "2.58.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "Biostrings" version))
(sha256
(base32
"1rbqhs73mhfr1gi0rx28jiyan7i3hb45ai3jpl1656fnrhgjfxq5"))))
(properties
`((upstream-name . "Biostrings")))
(build-system r-build-system)
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)
("r-crayon" ,r-crayon)
("r-iranges" ,r-iranges)
("r-s4vectors" ,r-s4vectors)
("r-xvector" ,r-xvector)))
(home-page "https://bioconductor.org/packages/Biostrings")
(synopsis "String objects and algorithms for biological sequences")
(description
"This package provides memory efficient string containers, string
matching algorithms, and other utilities, for fast manipulation of large
biological sequences or sets of sequences.")
(license license:artistic2.0)))
(define-public r-rsamtools
(package
(name "r-rsamtools")
(version "2.6.0")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "Rsamtools" version))
(sha256
(base32
"040pggkwglc6wy90qnc7xcdnaj0v3iqlykvvsl74241409qly554"))))
(properties
`((upstream-name . "Rsamtools")))
(build-system r-build-system)
(arguments
`(#:phases
(modify-phases %standard-phases
(add-after 'unpack 'use-system-zlib
(lambda _
(substitute* "DESCRIPTION"
(("zlibbioc, ") ""))
(substitute* "NAMESPACE"
(("import\\(zlibbioc\\)") ""))
#t)))))
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)
("r-biocparallel" ,r-biocparallel)
("r-biostrings" ,r-biostrings)
("r-bitops" ,r-bitops)
("r-genomeinfodb" ,r-genomeinfodb)
("r-genomicranges" ,r-genomicranges)
("r-iranges" ,r-iranges)
("r-rhtslib" ,r-rhtslib)
("r-s4vectors" ,r-s4vectors)
("r-xvector" ,r-xvector)))
(home-page "https://bioconductor.org/packages/release/bioc/html/Rsamtools.html")
(synopsis "Interface to samtools, bcftools, and tabix")
(description
"This package provides an interface to the @code{samtools},
@code{bcftools}, and @code{tabix} utilities for manipulating SAM (Sequence
Alignment / Map), FASTA, binary variant call (BCF) and compressed indexed
tab-delimited (tabix) files.")
(license license:expat)))
(define-public r-delayedarray
(package
(name "r-delayedarray")
(version "0.16.2")
(source (origin
(method url-fetch)
(uri (bioconductor-uri "DelayedArray" version))
(sha256
(base32
"09lpj951v1afxkrnjvnhzp4qgklq23ykdwlny7k1lyfcdy9q6wm0"))))
(properties
`((upstream-name . "DelayedArray")))
(build-system r-build-system)
(propagated-inputs
`(("r-biocgenerics" ,r-biocgenerics)
("r-s4vectors" ,r-s4vectors)
("r-iranges" ,r-iranges)
("r-matrix" ,r-matrix)
("r-matrixgenerics" ,r-matrixgenerics)))
(native-inputs
`(("r-knitr" ,r-knitr)))
(home-page "https://bioconductor.org/packages/DelayedArray")
(synopsis "Delayed operations on array-like objects")
(description
"Wrapping an array-like object (typically an on-disk object) in a
@code{DelayedArray} object allows one to perform common array operations on it
without loading the object in memory. In order to reduce memory usage and
optimize performance, operations on the object are either delayed or executed
using a block processing mechanism. Note that this also works on in-memory
array-like objects like @code{DataFrame} objects (typically with Rle columns),
@code{Matrix} objects, and ordinary arrays and data frames.")
(license license:artistic2.0)))
(define-public r-summarizedexperiment
(package
(name "r-summarizedexperiment")