Fix bug 20 + other various bugs, add package bpp

BioArchLinux/bayesass/lilac.yaml

@@ -4,6 +4,6 @@ maintainers:
     email: m.g.elliot@rug.nl
 update_on:
   - source: github
-    github: Fbrannala/BA3
+    github: brannala/BA3
     use_max_tag: true
 

BioArchLinux/bpp/PKGBUILD

@@ -0,0 +1,27 @@
+# Maintainer:  Mick Elliot <m.g.elliot@rug.nl>
+# Contributor: Mick Elliot <m.g.elliot@rug.nl>
+
+pkgname=bpp
+pkgver=4.4.1
+pkgrel=1
+pkgdesc="High-performance Bayesian phylogenetics and phylogeography. https://doi.org/10.1093/sysbio/syw119"
+arch=('x86_64')
+url="https://github.com/bpp/bpp"
+license=('Affero')
+source=("${url}/archive/refs/tags/v${pkgver}.tar.gz")
+depends=(glibc)
+
+sha256sums=('5e1e3dade3613d191f384077705e821081fcbc09e991c3c8a92b3a9306d4d295')
+
+build() {
+  cd "${pkgname}-${pkgver}/src"
+  make
+}
+
+package() {
+  cd "${pkgname}-${pkgver}/src"
+  install -Dm755 bpp "${pkgdir}/usr/bin/bpp"
+  install -Dm644 ../LICENSE "${pkgdir}/usr/share/licenses/${pkgname}/LICENSE"
+}
+
+

BioArchLinux/bpp/lilac.py

@@ -0,0 +1,11 @@
+#!/usr/bin/env python3
+
+from lilaclib import *
+
+def pre_build():
+  update_pkgver_and_pkgrel(_G.newver.lstrip('v'))
+
+def post_build():
+  git_add_files('PKGBUILD')
+  git_commit()
+

BioArchLinux/bpp/lilac.yaml

@@ -0,0 +1,9 @@
+build_prefix: extra-x86_64
+maintainers:
+  - github: michael.g.elliot
+    email: m.g.elliot@rug.nl
+update_on:
+  - source: github
+    github: bpp/bpp
+    use_max_tag: true
+

BioArchLinux/migrate-n-mpi/PKGBUILD

@@ -5,7 +5,7 @@ pkgname=migrate-n-mpi
 _pkgname=migrate
 pkgver=4.4.4
 pkgrel=1
-pkgdesc="Bayesian estimation of effective population sizes, migration rates, and population divergences or admixture, multithreaded version"
+pkgdesc="Bayesian estimation of effective population sizes, migration rates, and population divergences or admixture, mpi version"
 arch=('x86_64')
 url="https://peterbeerli.com/migrate-html5"
 license=('MIT')

BioArchLinux/phyx/PKGBUILD

@@ -10,8 +10,7 @@ url="http://${sfname}.sourceforge.net/"
 license=('GPL')
 depends=(libarmadillo nlopt lapack)
 makedepends=(curl)
-optdepends=()
-provides=()
+TESTdepends=(python)
 source=("https://github.com/FePhyFoFum/${pkgname}/archive/refs/tags/v${pkgver}.tar.gz")
 
 sha256sums=('b09677f98f997838b39cd2724463be06d0627ddc90a7e659dc90d4e02db624eb')