core/sage-mathematics/PKGBUILD

# $Id: PKGBUILD 118896 2014-09-13 07:12:02Z arcanis $
# Maintainer: Evgeniy Alekseev <arcanis.arch at gmail dot com>
# Contributor: Daniel Wallace <danielwallace at gtmanfred dot com>
# Contributor: Antonio Rojas <arojas@archlinux.org>
# Contributor: Thomas Dziedzic <gostrc at gmail dot com>
# Contributor: Osman Ugus <ugus11 at yahoo dot com>
# Contributor: Stefan Husmann <stefan-husmann at t-online dot de>
# Special thanks to Nareto for moving the compile from the .install to the PKGBUILD

pkgname=sage-mathematics
pkgver=6.5
pkgrel=3
pkgdesc="Open Source Mathematics Software, free alternative to Magma, Maple, Mathematica, and Matlab"
arch=('i686' 'x86_64')
url="http://www.sagemath.org"
license=('GPL')
depends=('ipython2' 'ppl' 'glpk' 'mpfi' 'palp' 'polybori' 'singular' 'libcliquer' 'maxima-ecl' 'gfan' 'sympow' 'tachyon' 'python2-rpy2'
  'python2-matplotlib' 'python2-scipy' 'python2-sympy' 'python2-networkx' 'libgap' 'gap' 'flintqs' 'lcalc' 'lrcalc'
  'eclib' 'gmp-ecm' 'zn_poly' 'python2-gd' 'python2-cvxopt' 'pynac' 'linbox' 'gsl' 'rubiks' 'pari-galdata' 'pari-seadata-small'
  'sage-data-combinatorial_designs' 'sage-data-elliptic_curves' 'sage-data-graphs' 'sage-data-polytopes_db' 'sage-data-conway_polynomials')
optdepends=('cython2: to compile cython code' 'jmol: 3D plots' 'sage-notebook: Browser-based (flask) notebook interface'
  'sage-mathematics-doc: Documentation and inline help' 'sage-mathematics-src: source files needed to build cython code'
  'ipython2-notebook: IPython notebook interface'  'mathjax: IPython notebook interface'
  'coin-or-cbc: COIN backend for numerical computations' 'nauty: for generating some classes of graphs'
  'buckygen: for generating fullerene graphs' 'plantri: for generating some classes of graphs' 'benzene: for generating fusenes and benzenoids'
  'libfes: exhaustive search of solutions for boolean polynomial systems'
  'lrs: Algorithms for linear reverse search used in game theory and for computing volume of polytopes'
  'coxeter3: Coxeter groups implementation' 'cryptominisat: SAT solver')
makedepends=('cython2' 'boost' 'scons' 'ratpoints' 'symmetrica' 'fflas-ffpack' 'python2-jinja' 'coin-or-cbc' 'mcqd' 'libfes' 'coxeter3'
  'cryptominisat')
source=("$pkgname-$pkgver.tar.gz::https://github.com/sagemath/sage/archive/$pkgver.tar.gz" "http://www.sagemath.org/packages/upstream/pexpect/pexpect-2.0.tar.bz2"
'anal.h' 'package.patch' 'c_lib.patch' 'env.patch' 'paths.patch' 'clean.patch' 'skip-check.patch'
'pexpect-env.patch' 'pexpect-del.patch' 'fes02.patch' 'tests_parallel.patch' 'ipython3.patch')
md5sums=('5a173b1ecce89c845626653cfb3d199f'
         'd9a3e113ed147dcee8f89962a8dccd43'
         'a906a180d198186a39820b0a2f9a9c63'
         '0eb5ac1537aac93bd67a2925c0cfd84d'
         '5216dbb3d80cecc8ec4a36cc9706f8b5'
         '563bc42699116d71ca6b06b9f149304e'
         'acc25f13728517badafa70d220ab7b8e'
         '46c212a3a6713b0f78c370c7186d0982'
         '5947a420a0b1483f0cbc74c76895789b'
         'a83a3b1bc7fcb7cbf752a83a8311fc42'
         'f333939ea6c41377b66407c81016cee4'
         '506944613082ba7f5b34360939ca90eb'
         'f65910f4644cfe892d95e401ffb85fb6'
         '05eaaaf764cc5813120feadbe197e0a0')
# changelog=ChangeLog

prepare(){
  cd sage-$pkgver

# Arch-specific patches
# assume all optional packages are installed
  patch -p0 -i "$srcdir"/package.patch
# don't assume Sage is already available (Fedora)
  patch -p0 -i "$srcdir"/c_lib.patch
# find L.h header
  sed -e 's|libLfunction|Lfunction|' -i src/module_list.py
# don't try to link against libpng 1.2
  sed -e 's|png12|png|' -i src/module_list.py
# set env variables
  patch -p0 -i "$srcdir"/env.patch
# fix paths in python imports
  patch -p0 -i "$srcdir"/paths.patch
# fix cython linking
  sed -e "s| atlas(),||" -i src/sage/misc/cython.py
# don't try to remove installed files
  patch -p0 -i "$srcdir"/clean.patch
# skip checking build status
  patch -p0 -i "$srcdir"/skip-check.patch
# supress warning about GAP install dir
  sed -e "s|gapdir = os.path.join(SAGE_LOCAL, 'gap', 'latest')|gapdir = '/usr/lib/gap'|" -i src/sage/libs/gap/util.pyx 
# fix Cremona database detection
  sed -e "s|is_package_installed('database_cremona_ellcurve')|os.path.exists('/usr/share/sage/cremona/cremona.db')|" \
   -i src/sage/databases/cremona.py

# Upstream patches  
# fix build against libfes 0.2 http://trac.sagemath.org/ticket/15209
  patch -p0 -i "$srcdir"/fes02.patch
# remove missing cython source - fixes build with cython 0.22 http://trac.sagemath.org/ticket/17657
  patch -p0 -i "$srcdir"/tests_parallel.patch
# port to IPython 3
  patch -p1 -i "$srcdir"/ipython3.patch
# fix IPython kernel path
  sed -e "s|os.path.join(SAGE_ROOT, 'sage')|'/usr/bin/sage'|" -i src/sage/repl/ipython_kernel/install.py
  
# use python2
  sed -e 's|#!/usr/bin/env python|#!/usr/bin/env python2|' -e 's|exec python|exec python2|' -i src/bin/*
  sed -e 's|cython %s %s|cython2 %s %s|' -e 's|python setup.py|python2 setup.py|' -i src/sage/misc/cython.py
  sed -e 's|exec ipython|exec ipython2|' -e 's|cygdb|cygdb2|' -i src/bin/sage
  sed -e "s|'cython'|'cython2'|" -i src/bin/sage-cython

# copy required private PARI header
  mkdir -p src/pari
  cp $srcdir/anal.h src/pari/anal.h

  cd $srcdir/pexpect-2.0
# fix env in pexpect
  patch -p1 -i "$srcdir"/pexpect-env.patch
# hide exceptions in pexpect
  patch -p1 -i "$srcdir"/pexpect-del.patch
}


build() {
  cd sage-$pkgver/src

  export SAGE_LOCAL="/usr"
  export SAGE_SRC="$PWD"

  pushd c_lib
    CXX=g++ UNAME=Linux SAGE64=auto scons
  popd
  
  python2 setup.py build

# build pexpect
  pushd $srcdir/pexpect-2.0
    python2 setup.py build
  popd
}


package() {
  cd sage-$pkgver/src

  export SAGE_ROOT="/usr"
  export SAGE_LOCAL="$SAGE_ROOT"
  export SAGE_SRC="$PWD"

  python2 setup.py install --root="$pkgdir" --optimize=1

  mkdir -p "$pkgdir"/usr/{bin,lib}
  cp c_lib/libcsage.so "$pkgdir"/usr/lib
  cp bin/sage "$pkgdir"/usr/bin
  for _i in arch-env banner cachegrind callgrind cleaner coverage coverageall CSI CSI-helper.py cython env eval grep grepdoc inline-fortran ipython \
    massif maxima.lisp native-execute notebook num-threads.py omega open preparse python rst2sws rst2txt run run-cython runtests startuptime.py \
    sws2rst valgrind version.sh
  do
    cp bin/sage-$_i "$pkgdir"/usr/bin
  done
  
  mkdir -p "$pkgdir"/usr/share/sage
  cp -r ext "$pkgdir"/usr/share/sage
  
# Create SAGE_SRC, needed for the notebook
  mkdir "$pkgdir"/usr/share/sage/src

# Install gprc.expect in SAGE_ETC
  install -Dm644 ../build/pkgs/pari/gprc.expect "$pkgdir"/etc/sage/gprc.expect

# Install Sage's own pexpect
  cd "$srcdir"/pexpect-2.0
  python2 setup.py install --root="$pkgdir" --optimize=1
  mkdir -p "$pkgdir"/usr/lib/sage/site-packages/
  mv "$pkgdir"/usr/lib/python2.7/site-packages/pexpect* "$pkgdir"/usr/lib/sage/site-packages/
}