add emboss

emboss/PKGBUILD

@@ -0,0 +1,40 @@
+# Maintainer: Michael Schubert <mschu.dev at gmail>
+# Contributor: moostik <mooostik_at_gmail.com>
+# Contributor: mick elliot <micke@sfu.ca>
+pkgname=emboss
+_pkgname=EMBOSS
+pkgver=6.6.0
+pkgrel=3
+pkgdesc="A collection of molecular biology applications"
+arch=('x86_64' 'i686')
+url="http://emboss.sourceforge.net/"
+depends=('gd' 'pcre' 'java-runtime')
+optdepends=('libmariadbclient' 'postgresql-libs')
+makedepends=('libmariadbclient' 'postgresql-libs' 'java-environment')
+options=('!libtool')
+license=('GPL2')
+source=("ftp://emboss.open-bio.org/pub/EMBOSS/EMBOSS-$pkgver.tar.gz")
+sha256sums=('7184a763d39ad96bb598bfd531628a34aa53e474db9e7cac4416c2a40ab10c6e')
+
+build() {
+  cd "$srcdir/$_pkgname-$pkgver"
+
+  ./configure --prefix=/usr --enable-large --with-x
+
+  sed -i 's|$(bindir)/embossupdate|:|' Makefile
+  JAVA_CFLAGS="-I$JAVA_HOME/include -I$JAVA_HOME/include/linux" make
+}
+
+package() {
+  cd "$srcdir/$_pkgname-$pkgver"
+
+  make DESTDIR="$pkgdir" install
+
+  # provided pcre headers conflict with pcre
+  mv "$pkgdir"/usr/include "$pkgdir"/usr/emboss
+  mkdir "$pkgdir"/usr/include
+  mv "$pkgdir"/usr/emboss "$pkgdir"/usr/include/
+  
+  mv "$pkgdir"/usr/bin/{,emboss_}showdb # conflict with sqlite
+  mv "$pkgdir"/usr/bin/{,emboss_}wordcount # conflict with texlive-latexextra
+}

emboss/lilac.py

@@ -0,0 +1,10 @@
+#!/usr/bin/env python3
+
+from lilaclib import *
+
+
+def pre_build():
+  update_pkgver_and_pkgrel(_G.newver.lstrip('v'))
+
+def post_build():
+  git_pkgbuild_commit()

emboss/lilac.yaml

@@ -0,0 +1,8 @@
+maintainers:
+  - github: starsareintherose
+    email: starsareintherose@outlook.com
+build_prefix: extra-x86_64
+update_on:
+  - source: regex
+    url: "http://emboss.sourceforge.net/news/"
+    regex: 'EMBOSS Release (\d+.\d+.\d+)'