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| author | BioArchLinuxBot | 2023-03-13 06:06:32 +0000 |
|---|---|---|
| committer | BioArchLinuxBot | 2023-03-13 06:06:32 +0000 |
| commit | 0c80ff940368baf37f3fe4bca0fdb3f0ac76ca1d (patch) | |
| tree | 607a3bd56b110f9e6305e83e3724deb57322af3b | |
| parent | f23c31e7cf87cee1a3bba06fed9c68d0f39a6555 (diff) | |
| download | aur-0c80ff940368baf37f3fe4bca0fdb3f0ac76ca1d.tar.gz | |
[lilac] updated to 1.10.1-3
| -rw-r--r-- | .SRCINFO | 7 | ||||
| -rw-r--r-- | PKGBUILD | 32 |
2 files changed, 25 insertions, 14 deletions
@@ -1,18 +1,19 @@ pkgbase = salmon pkgdesc = Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using lightweight alignments pkgver = 1.10.1 - pkgrel = 1 + pkgrel = 3 url = https://combine-lab.github.io/salmon/ arch = x86_64 - license = GPL + license = GPL3 makedepends = boost>=1.55 makedepends = cmake makedepends = unzip makedepends = cereal + makedepends = curl + makedepends = bzip2 depends = intel-tbb depends = jemalloc depends = boost-libs - depends = bzip2 options = !emptydirs source = salmon-1.10.1.tar.gz::https://github.com/COMBINE-lab/salmon/archive/v1.10.1.tar.gz sha256sums = babd9ccc189cfea07566d8a11d047f25fad5b446b4b69257bc6ad8869f8b7707 @@ -1,15 +1,15 @@ -# Maintainer: bipin kumar <bipin@ccmb.res.in> +# Maintainer: bipin kumar <kbipinkumar@pm.me> # Contributor: Saulius Lukauskas <luksaulius@gmail.com> # Contributor: Thiago L. A. Miller <thiago_leisrael@hotmail.com> pkgname=salmon pkgver=1.10.1 -pkgrel=1 +pkgrel=3 pkgdesc="Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using lightweight alignments" arch=('x86_64') url="https://combine-lab.github.io/$pkgname/" -license=('GPL') -depends=('intel-tbb' 'jemalloc' 'boost-libs' 'bzip2') -makedepends=('boost>=1.55' 'cmake' 'unzip' 'cereal') +license=('GPL3') +depends=('intel-tbb' 'jemalloc' 'boost-libs') +makedepends=('boost>=1.55' 'cmake' 'unzip' 'cereal' 'curl' 'bzip2') options=('!emptydirs') source=("$pkgname-$pkgver.tar.gz"::"https://github.com/COMBINE-lab/$pkgname/archive/v$pkgver.tar.gz") sha256sums=('babd9ccc189cfea07566d8a11d047f25fad5b446b4b69257bc6ad8869f8b7707') @@ -27,22 +27,32 @@ build() { # FIXME: NO_IPO=TRUE is for some reason needed in 1.3.0 # Otherwise it is segfaulting... - cmake \ + cmake -B build \ -DNO_IPO:BOOL='TRUE' \ -DCMAKE_COLOR_MAKEFILE:BOOL='ON' \ -DCMAKE_INSTALL_PREFIX:PATH='/usr' \ + -DCMAKE_SKIP_RPATH=YES \ -Wno-dev \ - -DUSE_SHARED_LIBS=ON \ - . + -DBOOST_INCLUDEDIR='/usr/include' \ + -DBOOST_LIBRARYDIR='/usr/lib' \ + -DUSE_SHARED_LIBS=ON + + cmake --build build +} + +check() { + cd "$pkgname-$pkgver" + + ctest --test-dir build --output-on-failure - make } package() { cd "$pkgname-$pkgver" - make DESTDIR="$pkgdir" install + + DESTDIR="$pkgdir" cmake --install build - install -Dm644 include/{*.h,*.hpp,*.tpp} -t ${pkgdir}/usr/include/${pkgname} + install -Dm644 include/{*.h,*.hpp,*.tpp} -t ${pkgdir}/usr/include/${pkgname} # clear cmake files rm -rf ${pkgdir}/usr/lib/{graphdump,ntcard,twopaco} |