diff --git a/BioArchLinux/htslib/PKGBUILD b/BioArchLinux/htslib/PKGBUILD index b7867e118f..89e40c0200 100644 --- a/BioArchLinux/htslib/PKGBUILD +++ b/BioArchLinux/htslib/PKGBUILD @@ -3,7 +3,7 @@ pkgname=htslib pkgver=1.16 -pkgrel=2 +pkgrel=3 pkgdesc='A C library for high-throughput sequencing data formats. https://doi.org/10.1093/gigascience/giab007' arch=('x86_64') url="https://github.com/samtools/${pkgname}" diff --git a/BioArchLinux/htslib/lilac.yaml b/BioArchLinux/htslib/lilac.yaml index a69c6b5dd0..73cce210f8 100644 --- a/BioArchLinux/htslib/lilac.yaml +++ b/BioArchLinux/htslib/lilac.yaml @@ -8,3 +8,4 @@ update_on: use_max_tag: true - source: aur aur: htslib + - alias: libcrypto diff --git a/BioArchLinux/phylosuite/PKGBUILD b/BioArchLinux/phylosuite/PKGBUILD index 880e429e9c..2bc5ddc128 100644 --- a/BioArchLinux/phylosuite/PKGBUILD +++ b/BioArchLinux/phylosuite/PKGBUILD @@ -3,7 +3,7 @@ pkgname=phylosuite pkgver=1.2.2 -pkgrel=5 +pkgrel=6 pkgdesc="an integrated and scalable desktop platform for streamlined molecular sequence data management and evolutionary phylogenetics studies. https://doi.org/10.1111/1755-0998.13096" arch=('x86_64') url="https://github.com/dongzhang0725/PhyloSuite" diff --git a/BioArchLinux/phylosuite/lilac.yaml b/BioArchLinux/phylosuite/lilac.yaml index 8efb981a11..80d810d95c 100644 --- a/BioArchLinux/phylosuite/lilac.yaml +++ b/BioArchLinux/phylosuite/lilac.yaml @@ -6,3 +6,4 @@ update_on: - source: github github: dongzhang0725/PhyloSuite use_latest_release: true + - alias: libcrypto diff --git a/BioArchLinux/python2/PKGBUILD b/BioArchLinux/python2/PKGBUILD index d07a34cb13..8e352a1e42 100644 --- a/BioArchLinux/python2/PKGBUILD +++ b/BioArchLinux/python2/PKGBUILD @@ -6,7 +6,7 @@ pkgname=python2 pkgver=2.7.18 -pkgrel=4 +pkgrel=5 _pybasever=2.7 pkgdesc="A high-level scripting language" arch=('x86_64') diff --git a/BioArchLinux/python2/lilac.yaml b/BioArchLinux/python2/lilac.yaml index 9032695e3c..db10438cc3 100644 --- a/BioArchLinux/python2/lilac.yaml +++ b/BioArchLinux/python2/lilac.yaml @@ -11,3 +11,4 @@ post_build_script: | update_on: - source: cmd cmd: curl -sS https://www.python.org/downloads/ | grep 'class="release-number"' | sed 's// /g' | awk '{print $10}' | head -n 1 + - alias: libssl time_limit_hours: 6 - - diff --git a/BioArchLinux/r-hdf5array/PKGBUILD b/BioArchLinux/r-hdf5array/PKGBUILD index b7ae60114e..a426d41fb3 100644 --- a/BioArchLinux/r-hdf5array/PKGBUILD +++ b/BioArchLinux/r-hdf5array/PKGBUILD @@ -5,7 +5,7 @@ _pkgname=HDF5Array _pkgver=1.26.0 pkgname=r-${_pkgname,,} pkgver=1.26.0 -pkgrel=1 +pkgrel=2 pkgdesc='HDF5 backend for DelayedArray objects' arch=('x86_64') url="https://bioconductor.org/packages/${_pkgname}" diff --git a/BioArchLinux/r-hdf5array/lilac.yaml b/BioArchLinux/r-hdf5array/lilac.yaml index b012e069ce..25e64e9fd6 100644 --- a/BioArchLinux/r-hdf5array/lilac.yaml +++ b/BioArchLinux/r-hdf5array/lilac.yaml @@ -15,3 +15,4 @@ update_on: source: regex url: https://bioconductor.org/packages/HDF5Array - alias: r +- alias: libcrypto diff --git a/BioArchLinux/r-rserve/PKGBUILD b/BioArchLinux/r-rserve/PKGBUILD index 8cfd430686..219c79fe7c 100644 --- a/BioArchLinux/r-rserve/PKGBUILD +++ b/BioArchLinux/r-rserve/PKGBUILD @@ -5,7 +5,7 @@ _pkgname=Rserve _pkgver=1.8-10 pkgname=r-${_pkgname,,} pkgver=1.8.10 -pkgrel=4 +pkgrel=5 pkgdesc='Binary R server' arch=('x86_64') url="https://cran.r-project.org/package=${_pkgname}" diff --git a/BioArchLinux/r-rserve/lilac.yaml b/BioArchLinux/r-rserve/lilac.yaml index 48bda41c18..88a962383c 100644 --- a/BioArchLinux/r-rserve/lilac.yaml +++ b/BioArchLinux/r-rserve/lilac.yaml @@ -6,3 +6,4 @@ update_on: source: regex url: https://cran.r-project.org/package=Rserve - alias: r +- alias: libssl diff --git a/BioArchLinux/r-s2/PKGBUILD b/BioArchLinux/r-s2/PKGBUILD index ca0ef64085..d213ffbdc7 100644 --- a/BioArchLinux/r-s2/PKGBUILD +++ b/BioArchLinux/r-s2/PKGBUILD @@ -5,7 +5,7 @@ _pkgname=s2 _pkgver=1.1.0 pkgname=r-${_pkgname,,} pkgver=1.1.0 -pkgrel=2 +pkgrel=3 pkgdesc='Spherical Geometry Operators Using the S2 Geometry Library' arch=('x86_64') url="https://cran.r-project.org/package=${_pkgname}" diff --git a/BioArchLinux/r-s2/lilac.yaml b/BioArchLinux/r-s2/lilac.yaml index cac46670d6..8076c2bcb0 100644 --- a/BioArchLinux/r-s2/lilac.yaml +++ b/BioArchLinux/r-s2/lilac.yaml @@ -10,3 +10,4 @@ update_on: source: regex url: https://cran.r-project.org/package=s2 - alias: r +- alias: libcrypto diff --git a/BioArchLinux/seqlib/PKGBUILD b/BioArchLinux/seqlib/PKGBUILD index 03e9864497..bb41a388fe 100644 --- a/BioArchLinux/seqlib/PKGBUILD +++ b/BioArchLinux/seqlib/PKGBUILD @@ -1,6 +1,6 @@ pkgname=seqlib pkgver=1.2.0 -pkgrel=3 +pkgrel=4 pkgdesc="C++ htslib/bwa-mem/fermi interface for interrogating sequence data" arch=('i686' 'x86_64') url="https://github.com/walaj/SeqLib" diff --git a/BioArchLinux/seqlib/lilac.yaml b/BioArchLinux/seqlib/lilac.yaml index d557ead0cf..f7edb6324c 100644 --- a/BioArchLinux/seqlib/lilac.yaml +++ b/BioArchLinux/seqlib/lilac.yaml @@ -14,3 +14,4 @@ update_on: - alias: alpm-lilac alpm: htslib strip_release: true + - alias: libcrypto diff --git a/BioArchLinux/shapeit4/PKGBUILD b/BioArchLinux/shapeit4/PKGBUILD index 4755f26136..d8fb73b1cd 100644 --- a/BioArchLinux/shapeit4/PKGBUILD +++ b/BioArchLinux/shapeit4/PKGBUILD @@ -1,7 +1,7 @@ # Maintainer: Ramiro Magno pkgname=shapeit4 pkgver=4.2.2 -pkgrel=3 +pkgrel=4 pkgdesc="Segmented HAPlotype Estimation and Imputation Tools" arch=('i686' 'x86_64') url="https://odelaneau.github.io/shapeit4/" @@ -25,11 +25,11 @@ build() { package() { cd "$pkgname-$pkgver" - + # Binaries install -Dm755 bin/shapeit4.2 "${pkgdir}/usr/bin/shapeit4" install -Dm755 tools/bingraphsample/bin/bingraphsample "${pkgdir}/usr/bin/bingraphsample" - + # Example data mkdir -p "${pkgdir}/usr/share/${pkgname}" install -Dm644 test/*.gmap.gz "${pkgdir}/usr/share/${pkgname}/" @@ -38,4 +38,3 @@ package() { install -Dm644 test/*.bcf "${pkgdir}/usr/share/${pkgname}/" install -Dm644 test/*.bcf.csi "${pkgdir}/usr/share/${pkgname}/" } - diff --git a/BioArchLinux/shapeit4/lilac.yaml b/BioArchLinux/shapeit4/lilac.yaml index c17ce41ce3..59d72c576d 100644 --- a/BioArchLinux/shapeit4/lilac.yaml +++ b/BioArchLinux/shapeit4/lilac.yaml @@ -13,6 +13,7 @@ update_on: - alias: alpm-lilac alpm: seqlib strip_release: true + - alias: libssl repo_depends: - htslib - seqlib