# Description: A multiple sequence alignment program
# URL: https://mafft.cbrc.jp/alignment/software/
# Maintainer: Petar Petrov, slackalaxy at gmail dot com

name=mafft
version=dc90a8b
release=1
source=(https://gitlab.com/sysimm/mafft/-/archive/dc90a8bc4d3396048b08e9f2e24759f06f733a6f/mafft-dc90a8bc4d3396048b08e9f2e24759f06f733a6f.tar.gz)

build() {
	cd $name-${version}*
	
	cd core
	make clean
	PREFIX=/usr \
	LIBDIR=/usr/lib/$name \
	make -e

	cd ../extensions
	make clean
	PREFIX=/usr \
	LIBDIR=/usr/lib/$name \
	make -e

	cd ../core
	make \
	PREFIX=$PKG/usr \
	LIBDIR=$PKG/usr/lib/$name \
	install

	cd ../extensions
	make \
	PREFIX=$PKG/usr \
	LIBDIR=$PKG/usr/lib/$name \
	install

	cd ..

	chmod 0755 $PKG/usr/bin/*
	
	# Clean up
	rm -rf $PKG/usr/lib/$name/{$name.1,$name-homologs.1}

	# Fix two wrong links
	( cd $PKG/usr/bin
	rm -f mafft-distance mafft-profile
	ln -s ../lib/$name/mafft-distance mafft-distance
	ln -s ../lib/$name/mafft-profile mafft-profile )

	# Copy some samples
	mkdir -p $PKG/usr/share/$name
	cp -a test $PKG/usr/share/$name
	chmod 0644 $PKG/usr/share/mafft/test/*
}