[gentoo-commits] gentoo-x86 commit in sci-chemistry/pdb-tools: ChangeLog pdb-tools-0.2.1-r2.ebuild pdb-tools-0.1.4-r3.ebuild pdb-tools-0.1.4-r4.ebuild pdb-tools-0.2.1.ebuild

[gentoo-commits] gentoo-x86 commit in sci-chemistry/pdb-tools: ChangeLog pdb-tools-0.2.1-r2.ebuild pdb-tools-0.1.4-r3.ebuild pdb-tools-0.1.4-r4.ebuild pdb-tools-0.2.1.ebuild

[Justin Lecher (jlec)]

jlec        13/08/11 12:14:34

  Modified:             ChangeLog
  Added:                pdb-tools-0.2.1-r2.ebuild
  Removed:              pdb-tools-0.1.4-r3.ebuild pdb-tools-0.1.4-r4.ebuild
                        pdb-tools-0.2.1.ebuild
  Log:
  sci-chemistry/pdb-tools: Drop old, #478590; mv generic helper modules to PN subdir, #480026
  
  (Portage version: 2.2.0_alpha196/cvs/Linux x86_64, signed Manifest commit with key B9D4F231BD1558AB!)

Revision  Changes    Path
1.17                 sci-chemistry/pdb-tools/ChangeLog

file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-chemistry/pdb-tools/ChangeLog?rev=1.17&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-chemistry/pdb-tools/ChangeLog?rev=1.17&content-type=text/plain
diff : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-chemistry/pdb-tools/ChangeLog?r1=1.16&r2=1.17

Index: ChangeLog
===================================================================
RCS file: /var/cvsroot/gentoo-x86/sci-chemistry/pdb-tools/ChangeLog,v
retrieving revision 1.16
retrieving revision 1.17
diff -u -r1.16 -r1.17
--- ChangeLog	7 Aug 2013 11:55:07 -0000	1.16
+++ ChangeLog	11 Aug 2013 12:14:34 -0000	1.17
@@ -1,6 +1,13 @@
 # ChangeLog for sci-chemistry/pdb-tools
 # Copyright 1999-2013 Gentoo Foundation; Distributed under the GPL v2
-# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/pdb-tools/ChangeLog,v 1.16 2013/08/07 11:55:07 mgorny Exp $
+# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/pdb-tools/ChangeLog,v 1.17 2013/08/11 12:14:34 jlec Exp $
+
+*pdb-tools-0.2.1-r2 (11 Aug 2013)
+
+  11 Aug 2013; Justin Lecher <jlec@gentoo.org> -pdb-tools-0.1.4-r3.ebuild,
+  -pdb-tools-0.1.4-r4.ebuild, -pdb-tools-0.2.1.ebuild,
+  +pdb-tools-0.2.1-r2.ebuild:
+  Drop old, #478590; mv generic helper modules to PN subdir, #480026
 
   07 Aug 2013; Michał Górny <mgorny@gentoo.org> pdb-tools-0.1.4-r4.ebuild,
   pdb-tools-0.2.1-r1.ebuild, pdb-tools-0.2.1.ebuild:



1.1                  sci-chemistry/pdb-tools/pdb-tools-0.2.1-r2.ebuild

file : http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-chemistry/pdb-tools/pdb-tools-0.2.1-r2.ebuild?rev=1.1&view=markup
plain: http://sources.gentoo.org/viewvc.cgi/gentoo-x86/sci-chemistry/pdb-tools/pdb-tools-0.2.1-r2.ebuild?rev=1.1&content-type=text/plain

Index: pdb-tools-0.2.1-r2.ebuild
===================================================================
# Copyright 1999-2013 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/pdb-tools/pdb-tools-0.2.1-r2.ebuild,v 1.1 2013/08/11 12:14:34 jlec Exp $

EAPI=5

PYTHON_COMPAT=( python{2_6,2_7} pypy{1_8,1_9} )

inherit fortran-2 python-single-r1 toolchain-funcs

MY_PN="pdbTools"

DESCRIPTION="Tools for manipulating and doing calculations on wwPDB macromolecule structure files"
HOMEPAGE="http://code.google.com/p/pdb-tools/"
SRC_URI="http://${PN}.googlecode.com/files/${MY_PN}_${PV}.tar.gz"

SLOT="0"
LICENSE="GPL-3"
KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
IUSE=""

REQUIRED_USE="${PYTHON_REQUIRED_USE}"

RDEPEND="${PYTHON_DEPS}"
DEPEND="${RDEPEND}"

S="${WORKDIR}"/${MY_PN}_${PV}

pkg_setup() {
	python-single-r1_pkg_setup
	fortran-2_pkg_setup
}

src_prepare() {
	sed \
		-e "s:script_dir,\"pdb_data\":\"${EPREFIX}/usr/share/${PN}\",\"pdb_data\":g" \
		-i pdb_sasa.py || die
	sed \
		-e "/satk_path =/s:^.*$:satk_path = \"${EPREFIX}/usr/bin\":g" \
		-i pdb_satk.py || die
	sed \
		-e 's:> %:>%:g' \
		-i pdb_seq.py || die

	sed \
		-e "/import/s:helper:${PN/-/_}.helper:g" \
		-i *.py || die
}

src_compile() {
	mkdir bin
	cd satk
	for i in *.f; do
		einfo "$(tc-getFC) ${FFLAGS} ${LDFLAGS} ${i} -o ${i/.f}"
		$(tc-getFC) ${FFLAGS} -c ${i} -o ${i/.f/.o} || die
		$(tc-getFC) ${LDFLAGS} -o ../bin/${i/.f} ${i/.f/.o} || die
		sed \
			-e "s:${i/.f}.out:${i/.f}:g" \
			-i ../pdb_satk.py || die
	done
}

src_install() {
	local script
	insinto /usr/share/${PN}
	doins -r pdb_data/peptides
	rm -rf pdb_data/peptides || die

	python_domodule pdb_data

	python_moduleinto ${PN/-/_}
	python_domodule helper *.py

	for i in pdb_*.py; do
		cat > ${i/.py} <<- EOF
		#!${EPREFIX}/bin/bash
		${PYTHON} -O "$(python_get_sitedir)/${PN/-/_}/${i}" \$@
		EOF
		dobin ${i/.py}
	done

	dobin bin/*
	dodoc README
}