# Maintainer: Guoyi
pkgname=arb-bio
pkgver=7.0
pkgrel=1
pkgdesc="C++ library and cmdline tools for parsing and manipulating VCF files doi: 10.1101/2021.05.21.445151"
arch=('x86_64')
url="http://www.arb-home.de/"
license=('UNKNOWN')
depends=('lynx'  'imake' 'time' 'libxslt'
)
makedepends=('xerces-c' 'clang' 'libtirpc' 'boost')
source=("${pkgname}-${pkgver}.tgz::http://download.arb-home.de/production/2021_09_16/arb-r18733-source.tgz"
)

md5sums=('a491b52f74fc4ddbd0ec373311ece8a0')

prepare(){
  mv arbsrc_* ${pkgname}-${pkgver}
  cd ${srcdir}/${pkgname}-${pkgver}
  cp config.makefile.template config.makefile
  sed -i 's|-lCORE|-lCORE -ltirpc|g' Makefile

  # If use gcc, also fail.
  # gccver=$(gcc --version | grep ^gcc | sed 's/^.* //g')
  # sed "s|9.3.0|9.3.0 ${gccver}|g" -i Makefile
  # sed -i 's/LOOP_VECTORIZED//g' CORE/arb_strarray.cxx
  # sed -i 's|LOOP_VECTORIZED=2\[||g'  MULTI_PROBE/MP_sonde.cxx
}

build() {
  cd $srcdir/${pkgname}-${pkgver}
  export ARBHOME=${srcdir}/${pkgname}-${pkgver}
  export PATH=$ARBHOME/bin:$PATH
  export XINCLUDES="-I/usr/include -I/usr/include/tirpc"
  export CC=clang
  export CXX=clang++
  make
  make all
}

package() {
  cd $srcdir/arbsrc_*
  make install DESTDIR="$pkgdir"
}