diff options
| -rw-r--r-- | .SRCINFO | 25 | ||||
| -rw-r--r-- | PKGBUILD | 64 | ||||
| -rw-r--r-- | percolator.patch | 13 |
3 files changed, 102 insertions, 0 deletions
diff --git a/.SRCINFO b/.SRCINFO new file mode 100644 index 000000000000..9ff5209d5fb5 --- /dev/null +++ b/.SRCINFO @@ -0,0 +1,25 @@ +pkgbase = percolator-git + pkgdesc = Software for postprocessing of shotgun proteomics data + format converters + Elude tool + pkgver = 2.10.r1.gd92d600 + pkgrel = 1 + url = http://per-colator.com/ + arch = x86_64 + arch = i686 + license = Apache + makedepends = git + makedepends = xsd + makedepends = cmake + makedepends = boost + makedepends = zlib + depends = tokyocabinet + depends = xerces-c + depends = sqlite + provides = percolator + conflicts = percolator + source = source::git+https://github.com/percolator/percolator + source = percolator.patch + md5sums = SKIP + md5sums = 4e1432640f09fa3dc2f3d9894ec380f4 + +pkgname = percolator-git + diff --git a/PKGBUILD b/PKGBUILD new file mode 100644 index 000000000000..a5d5bc8eb643 --- /dev/null +++ b/PKGBUILD @@ -0,0 +1,64 @@ +# Maintainer: Lev Levitsky <levlev@mail.ru> +pkgname=percolator-git +pkgver=2.10.r1.gd92d600 +pkgrel=1 +pkgdesc="Software for postprocessing of shotgun proteomics data + format converters + Elude tool" +url="http://per-colator.com/" +license=('Apache') +depends=('tokyocabinet' 'xerces-c' 'sqlite') +arch=('x86_64' 'i686') +makedepends=('git' 'xsd' 'cmake' 'boost' 'zlib' ) +provides=("${pkgname%-git}") +conflicts=("${pkgname%-git}") +source=('source::git+https://github.com/percolator/percolator' + 'percolator.patch') +md5sums=('SKIP' + '4e1432640f09fa3dc2f3d9894ec380f4') + +pkgver() { + cd "${srcdir}/source" + git describe --match='rel*' --tags | sed 's/\([^-]*-g\)/r\1/;s/rel-//;s/-/./g' +} + +prepare() { + cd "${srcdir}/source" + patch -p1 -i "$srcdir/${pkgname%-git}.patch" +} + +build() { + cd "$BUILDDIR" + mkdir percolator converters elude + cd percolator + echo "------------------------" + echo "Building percolator ..." + echo "------------------------" + cmake "${srcdir}/source" + make + echo "------------------------" + echo "Building converters ..." + echo "------------------------" + cd ../converters + cmake -DSERIALIZE="TokyoCabinet" "${srcdir}/source/src/converters" + make + echo "------------------------" + echo "Building Elude ..." + echo "------------------------" + cd ../elude + cmake "${srcdir}/source/src/elude_tool" + make +} + +package() { + cd "$BUILDDIR/percolator" + make DESTDIR="$pkgdir/" install + cd "$BUILDDIR/converters" + make DESTDIR="$pkgdir/" install + cd "$BUILDDIR/elude" + make DESTDIR="$pkgdir/" install + install -D "${srcdir}/source/license.txt" "${pkgdir}/usr/share/licenses/percolator/license.txt" + install -d "$pkgdir/usr/bin" + install -d "$pkgdir/usr/share/${pkgname%-git}" + mv "$pkgdir"/usr/local/share/* "$pkgdir/usr/share/${pkgname%-git}" + mv "$pkgdir"/usr/local/bin/* "$pkgdir/usr/bin" + rm -r "$pkgdir/usr/local" +} diff --git a/percolator.patch b/percolator.patch new file mode 100644 index 000000000000..add4b7ca1acf --- /dev/null +++ b/percolator.patch @@ -0,0 +1,13 @@ +diff --git a/cmake/FindXsd.cmake b/cmake/FindXsd.cmake +index 5b4e084..d11970b 100755 +--- a/cmake/FindXsd.cmake ++++ b/cmake/FindXsd.cmake +@@ -20,7 +20,7 @@ PATH_SUFFIXES + + FIND_PROGRAM(XSD_EXECUTABLE + NAMES +- xsd xsdcxx ++ xsdcxx xsd + PATHS + $ENV{XSDDIR}/bin + /usr/local/bin |