BioArchLinux/Packages
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r-*: migrate a few packages to SPDX license identifiers

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Pekka Ristola 2024-01-25 18:27:37 +02:00
parent 539c180e2b
commit 1e238d4a06
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GPG key ID: 2C20BE716E05213E
31 changed files with 38 additions and 30 deletions
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2
BioArchLinux/r-fontliberation/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=4
pkgdesc="Liberation Fonts"
arch=(any)
url="https://cran.r-project.org/package=$_pkgname"
license=(custom:OFL)
license=('OFL-1.1-RFN')
depends=(
r
ttf-liberation

2
BioArchLinux/r-fontquiver/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=4
pkgdesc="Set of Installed Fonts"
arch=(any)
url="https://cran.r-project.org/package=$_pkgname"
license=(GPL3)
license=('GPL-3.0-only')
depends=(
r-fontbitstreamvera
r-fontliberation

2
BioArchLinux/r-gdtools/PKGBUILD
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@ -12,7 +12,7 @@ pkgrel=1
pkgdesc="Utilities for Graphical Rendering and Fonts Management"
arch=(x86_64)
url="https://cran.r-project.org/package=$_pkgname"
license=(GPL3)
license=('GPL-3.0-only')
depends=(
cairo
freetype2

2
BioArchLinux/r-genomicinteractionnodes/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=2
pkgdesc="A R/Bioconductor package to detect the interaction nodes from HiC/HiChIP/HiCAR data"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=(Apache)
license=('Apache-2.0')
depends=(
r-annotationdbi
r-genomeinfodb

2
BioArchLinux/r-ggrepel/PKGBUILD
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@ -10,7 +10,7 @@ pkgrel=1
pkgdesc="Automatically Position Non-Overlapping Text Labels with 'ggplot2'"
arch=(x86_64)
url="https://cran.r-project.org/package=$_pkgname"
license=(GPL3)
license=('GPL-3.0-only')
depends=(
r-ggplot2
r-rcpp

2
BioArchLinux/r-hdci/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=2
pkgdesc="High Dimensional Confidence Interval Based on Lasso and Bootstrap"
arch=(any)
url="https://cran.r-project.org/package=$_pkgname"
license=(GPL2)
license=('GPL-2.0-only')
depends=(
r-doparallel
r-foreach

2
BioArchLinux/r-hdf5r/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=1
pkgdesc="Interface to the 'HDF5' Binary Data Format"
arch=(x86_64)
url="https://cran.r-project.org/package=$_pkgname"
license=(Apache)
license=('Apache-2.0')
depends=(
hdf5
r-bit64

2
BioArchLinux/r-hermes/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=2
pkgdesc="Preprocessing, analyzing, and reporting of RNA-seq data"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=(Apache)
license=('Apache-2.0')
depends=(
r-assertthat
r-biobase

2
BioArchLinux/r-hicdoc/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=2
pkgdesc="A/B compartment detection and differential analysis"
arch=(x86_64)
url="https://bioconductor.org/packages/$_pkgname"
license=(LGPL3)
license=('LGPL-3.0-only')
depends=(
r-biocgenerics
r-biocparallel

2
BioArchLinux/r-hoodscanr/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=2
pkgdesc="Spatial cellular neighbourhood scanning in R"
arch=(x86_64)
url="https://bioconductor.org/packages/$_pkgname"
license=(GPL3)
license=('GPL-3.0-only')
depends=(
r-circlize
r-complexheatmap

2
BioArchLinux/r-httpuv/PKGBUILD
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@ -10,7 +10,7 @@ pkgrel=1
pkgdesc="HTTP and WebSocket Server Library"
arch=(x86_64)
url="https://cran.r-project.org/package=$_pkgname"
license=(GPL)
license=('GPL-2.0-or-later AND MIT')
depends=(
libuv
r-later

2
BioArchLinux/r-hunspell/PKGBUILD
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@ -11,7 +11,7 @@ pkgrel=2
pkgdesc="High-Performance Stemmer, Tokenizer, and Spell Checker"
arch=(x86_64)
url="https://cran.r-project.org/package=$_pkgname"
license=(LGPL)
license=('GPL-2.0-only OR LGPL-2.1-only OR MPL-1.1')
depends=(
r-digest
r-rcpp

2
BioArchLinux/r-igraphdata/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=2
pkgdesc="A Collection of Network Data Sets for the 'igraph' Package"
arch=(any)
url="https://cran.r-project.org/package=$_pkgname"
license=('CC-BY-SA-4.0')
license=('CC-BY-SA-4.0 AND CC-BY-SA-2.0-UK AND GPL-3.0-only')
depends=(
r
)

2
BioArchLinux/r-intact/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=1
pkgdesc="Integrate TWAS and Colocalization Analysis for Gene Set Enrichment Analysis"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=(GPL3)
license=('GPL-3.0-only AND AGPL-3.0-only')
depends=(
r-bdsmatrix
r-numderiv

2
BioArchLinux/r-katdetectr/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=2
pkgdesc="Detection, Characterization and Visualization of Kataegis in Sequencing Data"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=(GPL3)
license=('GPL-3.0-only')
depends=(
r-biobase
r-biocparallel

2
BioArchLinux/r-liger/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=2
pkgdesc="Lightweight Iterative Geneset Enrichment"
arch=(x86_64)
url="https://cran.r-project.org/package=$_pkgname"
license=(GPL3)
license=('GPL-3.0-only')
depends=(
r-matrixstats
r-rcpp

2
BioArchLinux/r-loder/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=2
pkgdesc="Dependency-Free Access to PNG Image Files"
arch=(x86_64)
url="https://cran.r-project.org/package=$_pkgname"
license=(BSD)
license=('BSD-3-Clause')
depends=(
r
)

2
BioArchLinux/r-msa2dist/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=2
pkgdesc="MSA2dist calculates pairwise distances between all sequences of a DNAStringSet or a AAStringSet using a custom score matrix and conducts codon based analysis"
arch=(x86_64)
url="https://bioconductor.org/packages/$_pkgname"
license=(GPL3)
license=('GPL-3.0-only')
depends=(
r-ape
r-biostrings

2
BioArchLinux/r-multirnaflow/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=2
pkgdesc="An R package for analysing RNA-seq raw counts with several biological conditions and different time points"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=(GPL3)
license=('GPL-3.0-only')
depends=(
r-biobase
r-complexheatmap

2
BioArchLinux/r-osqp/PKGBUILD
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@ -9,7 +9,7 @@ pkgrel=1
pkgdesc="Quadratic Programming Solver using the 'OSQP' Library"
arch=(x86_64)
url="https://cran.r-project.org/package=$_pkgname"
license=(Apache)
license=('Apache-2.0')
depends=(
r-r6
r-rcpp

2
BioArchLinux/r-peacoqc/PKGBUILD
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@ -9,7 +9,7 @@ pkgrel=1
pkgdesc="Peak-based selection of high quality cytometry data"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=(GPL3)
license=('GPL-3.0-or-later')
depends=(
r-circlize
r-complexheatmap

2
BioArchLinux/r-radiant.data/PKGBUILD
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@ -9,7 +9,7 @@ pkgrel=1
pkgdesc="Data Menu for Radiant: Business Analytics using R and Shiny"
arch=(any)
url="https://cran.r-project.org/package=$_pkgname"
license=(AGPL3)
license=('AGPL-3.0-only AND CC-BY-SA-4.0')
depends=(
r-arrow
r-base64enc

2
BioArchLinux/r-resolve/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=3
pkgdesc="An R package for the efficient analysis of mutational signatures from cancer genomes"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=(Apache)
license=('Apache-2.0')
depends=(
r-biostrings
r-bsgenome

2
BioArchLinux/r-rifi/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=2
pkgdesc="'rifi' analyses data from rifampicin time series created by microarray or RNAseq"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=(GPL3)
license=('GPL-3.0-only')
depends=(
r-car
r-cowplot

5
BioArchLinux/r-rificomparative/PKGBUILD
View file

@ -8,7 +8,7 @@ pkgrel=2
pkgdesc="'rifiComparative' compares the output of rifi from two different conditions"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=(GPL3)
license=('GPL-3.0-only AND MIT')
depends=(
r-cowplot
r-devtools
@ -48,4 +48,7 @@ build() {
package() {
install -d "$pkgdir/usr/lib/R/library"
cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
install -d "$pkgdir/usr/share/licenses/$pkgname"
ln -s "/usr/lib/R/library/$_pkgname/LICENSE" "$pkgdir/usr/share/licenses/$pkgname"
}

2
BioArchLinux/r-rificomparative/lilac.yaml
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@ -28,3 +28,5 @@ update_on:
repo: bioc
md5: true
- alias: r
- source: manual
manual: 1

2
BioArchLinux/r-rnaseqpower/PKGBUILD
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@ -9,7 +9,7 @@ pkgrel=1
pkgdesc="Sample size for RNAseq studies"
arch=(any)
url="https://bioconductor.org/packages/$_pkgname"
license=(LGPL)
license=('LGPL-2.0-or-later')
depends=(
r
)

2
BioArchLinux/r-rnetcdf/PKGBUILD
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@ -8,7 +8,7 @@ pkgrel=1
pkgdesc="Interface to 'NetCDF' Datasets"
arch=(x86_64)
url="https://cran.r-project.org/package=$_pkgname"
license=(GPL)
license=('GPL-2.0-or-later')
depends=(
netcdf-openmpi
openmpi

2
BioArchLinux/r-rprotobuflib/PKGBUILD
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@ -9,7 +9,7 @@ pkgrel=2
pkgdesc="C++ headers and static libraries of Protocol buffers"
arch=(x86_64)
url="https://bioconductor.org/packages/$_pkgname"
license=(BSD)
license=('LicenseRef-RProtoBufLib')
depends=(
protobuf
r

5
BioArchLinux/r-rserve/PKGBUILD
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@ -9,7 +9,7 @@ pkgrel=1
pkgdesc="Binary R server"
arch=(x86_64)
url="https://cran.r-project.org/package=$_pkgname"
license=(GPL2)
license=('GPL-2.0-only WITH openvpn-openssl-exception')
depends=(
libxcrypt
openssl
@ -41,6 +41,9 @@ package() {
install -d "$pkgdir/usr/lib/R/library"
cp -a --no-preserve=ownership "build/$_pkgname" "$pkgdir/usr/lib/R/library"
install -d "$pkgdir/usr/share/licenses/$pkgname"
ln -s "/usr/lib/R/library/$_pkgname/LICENSE" "$pkgdir/usr/share/licenses/$pkgname"
# symlink executables to R_HOME
install -d "$pkgdir/usr/lib/R/bin"
ln -s "../library/$_pkgname/libs/Rserve"{,.dbg} "$pkgdir/usr/lib/R/bin"

2
BioArchLinux/r-rserve/lilac.yaml
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@ -24,4 +24,4 @@ update_on:
provided: libssl.so
strip_release: true
- source: manual
manual: 1
manual: 2