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python-biopython: remove python3.13 compat patch for new upstream version

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kbipinkumar 2025-01-16 13:24:23 +05:30
parent 6e1a1a8e1c
commit 2e1f8cb783
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1 changed files with 13 additions and 14 deletions
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27
BioArchLinux/python-biopython/PKGBUILD
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@ -5,28 +5,27 @@
pkgname=python-biopython pkgname=python-biopython
_pkgname=biopython _pkgname=biopython
pkgver=1.84 pkgver=1.85
pkgrel=5 pkgrel=0
pkgdesc="Freely available Python tools for computational molecular biology" pkgdesc="Freely available Python tools for computational molecular biology"
arch=('x86_64') arch=('x86_64')
url="http://www.biopython.org" url="http://www.biopython.org"
license=('custom') license=('LicenseRef-Biopython License')
makedepends=('python-setuptools') makedepends=('python-setuptools')
checkdepends=('python-scipy' 'python-rdflib' 'python-igraph' 'python-reportlab' 'python-networkx' 'python-mmtf' 'python-matplotlib' 'python-coverage') checkdepends=('python-scipy' 'python-rdflib' 'python-igraph' 'python-reportlab' 'python-networkx' 'python-mmtf' 'python-matplotlib' 'python-coverage')
depends=('python-numpy') depends=('python-numpy' 'glibc' 'python' 'python-scipy' 'python-pillow')
optdepends=('python-mysql-connector: for BioSQL module') # optdepends from https://github.com/biopython/biopython?tab=readme-ov-file#optional-dependencies
optdepends=('python-mysql-connector: for BioSQL module'
'python-reportlab: for graph generation'
'python-networkx: for certain niche functions in Bio.Phylo module'
'python-matplotlib: to plot phylogenetic trees.'
'python-rdflib: CDAO parser under Bio.Phylo module'
)
source=("http://www.biopython.org/DIST/${_pkgname}-${pkgver}.tar.gz" source=("http://www.biopython.org/DIST/${_pkgname}-${pkgver}.tar.gz"
"compat.patch::https://patch-diff.githubusercontent.com/raw/biopython/biopython/pull/4706.patch") )
sha512sums=('cadf82959626b2b9f4482757d95d7c4db262d3e1e4a007567a2ed7f1f4114a0d6543886a4971dffbe0ff43579aa7e0c3b7132d8b5e58022e8ddf0b13dbf07f52' sha512sums=('a9bff4fdf34f71f74f35a9bbf25887d6fcf84622d77854e11b0da418b6ff88c7d6e49474d82ca2e4da782ea07cc28f03b43b219b798a806ab02e11af21cd9dab')
'8bd596602458a07857f4bbaf27dab71c6fc563417c68cefb98de2cbb9607eca5748546ae34c94e84a9f2620f31d6a93ffb80e7477c97fc324e01fdbd005f9352')
options=(!debug) options=(!debug)
prepare() {
cd "${srcdir}/${_pkgname}-${pkgver}"
# python 3.13 compability patch until biopython 1.85 is released
patch -p1 < $srcdir/compat.patch
}
build() { build() {
cd "${srcdir}/${_pkgname}-${pkgver}" cd "${srcdir}/${_pkgname}-${pkgver}"
python setup.py build python setup.py build