blob: bf7f0e57897bb400ada5c063934660a716ef37d0 (
plain)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
|
# Copyright 1999-2012 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Header: /var/cvsroot/gentoo-x86/sci-chemistry/ccpn/ccpn-2.2.2_p120511.ebuild,v 1.1 2012/05/11 09:42:07 jlec Exp $
EAPI=4
PYTHON_DEPEND="2:2.5"
PYTHON_USE_WITH="ssl tk"
inherit eutils portability python toolchain-funcs versionator
PATCHSET="${PV##*_p}"
MY_PN="${PN}mr"
MY_PV="$(replace_version_separator 3 _ ${PV%%_p*})"
MY_MAJOR="$(get_version_component_range 1-3)"
DESCRIPTION="The Collaborative Computing Project for NMR"
SRC_URI="http://www-old.ccpn.ac.uk/download/${MY_PN}/analysis${MY_PV}.tar.gz"
[[ -n ${PATCHSET} ]] && SRC_URI="${SRC_URI} http://dev.gentoo.org/~jlec/distfiles/ccpn-update-${MY_MAJOR}-${PATCHSET}.patch.xz"
HOMEPAGE="http://www.ccpn.ac.uk/ccpn"
SLOT="0"
LICENSE="|| ( CCPN LGPL-2.1 )"
KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
IUSE="extendnmr +opengl"
RDEPEND="
dev-lang/tk[threads]
dev-python/numpy
dev-tcltk/tix
=sci-libs/ccpn-data-"${MY_MAJOR}"*
sci-biology/psipred
x11-libs/libXext
x11-libs/libX11
opengl? (
media-libs/freeglut
dev-python/pyglet )"
# We need to fix this
# sci-chemistry/mdd
DEPEND="${RDEPEND}"
PDEPEND="
extendnmr? (
>=sci-chemistry/aria-2.3.2-r1
sci-chemistry/prodecomp )"
RESTRICT="mirror"
S="${WORKDIR}"/${MY_PN}/${MY_PN}$(get_version_component_range 1-2 ${PV})
pkg_setup() {
python_set_active_version 2
python_pkg_setup
}
src_prepare() {
[[ -n ${PATCHSET} ]] && \
epatch "${WORKDIR}"/ccpn-update-${MY_MAJOR}-${PATCHSET}.patch
epatch "${FILESDIR}"/${MY_PV}-parallel.patch
sed \
-e "/PSIPRED_DIR/s:'data':'share/psipred/data':g" \
-e "s:weights_s:weights:g" \
-i python/ccpnmr/analysis/wrappers/Psipred.py || die
local tk_ver
local myconf
tk_ver="$(best_version dev-lang/tk | cut -d- -f3 | cut -d. -f1,2)"
if use opengl; then
GLUT_NEED_INIT="-DNEED_GLUT_INIT"
IGNORE_GL_FLAG=""
GL_FLAG="-DUSE_GL_TRUE"
GL_DIR="${EPREFIX}/usr"
GL_LIB="-lglut -lGLU -lGL"
GL_INCLUDE_FLAGS="-I\$(GL_DIR)/include"
GL_LIB_FLAGS="-L\$(GL_DIR)/$(get_libdir)"
else
IGNORE_GL_FLAG="-DIGNORE_GL"
GL_FLAG="-DUSE_GL_FALSE"
fi
GLUT_NOT_IN_GL=""
GLUT_FLAG="\$(GLUT_NEED_INIT) \$(GLUT_NOT_IN_GL)"
rm -rf data model doc license || die
sed \
-e "s|/usr|${EPREFIX}/usr|g" \
-e "s|^\(CC =\).*|\1 $(tc-getCC)|g" \
-e "s|^\(OPT_FLAG =\).*|\1 ${CFLAGS}|g" \
-e "s|^\(LINK_FLAGS =.*\)|\1 ${LDFLAGS}|g" \
-e "s|^\(IGNORE_GL_FLAG =\).*|\1 ${IGNORE_GL_FLAG}|g" \
-e "s|^\(GL_FLAG =\).*|\1 ${GL_FLAG}|g" \
-e "s|^\(GL_DIR =\).*|\1 ${GL_DIR}|g" \
-e "s|^\(GL_LIB =\).*|\1 ${GL_LIB}|g" \
-e "s|^\(GL_LIB_FLAGS =\).*|\1 ${GL_LIB_FLAGS}|g" \
-e "s|^\(GL_INCLUDE_FLAGS =\).*|\1 ${GL_INCLUDE_FLAGS}|g" \
-e "s|^\(GLUT_NEED_INIT =\).*|\1 ${GLUT_NEED_INIT}|g" \
-e "s|^\(GLUT_NOT_IN_GL =\).*|\1|g" \
-e "s|^\(X11_LIB_FLAGS =\).*|\1 -L${EPREFIX}/usr/$(get_libdir)|g" \
-e "s|^\(TCL_LIB_FLAGS =\).*|\1 -L${EPREFIX}/usr/$(get_libdir)|g" \
-e "s|^\(TK_LIB_FLAGS =\).*|\1 -L${EPREFIX}/usr/$(get_libdir)|g" \
-e "s|^\(PYTHON_INCLUDE_FLAGS =\).*|\1 -I${EPREFIX}/$(python_get_includedir)|g" \
-e "s|^\(PYTHON_LIB =\).*|\1 $(python_get_library -l)|g" \
c/environment_default.txt > c/environment.txt || die
sed \
-e 's:ln -s:cp -f:g' \
-i $(find python -name linkSharedObjs) || die
}
src_compile() {
emake -C c all
emake -C c links
}
src_install() {
local libdir
local tkver
local _wrapper
find . -name "*.pyc" -type f -delete
libdir=$(get_libdir)
tkver=$(best_version dev-lang/tk | cut -d- -f3 | cut -d. -f1,2)
_wrapper="analysis dangle dataShifter depositionFileImporter eci formatConverter pipe2azara xeasy2azara"
use extendnmr && _wrapper="${_wrapper} extendNmr"
for wrapper in ${_wrapper}; do
sed \
-e "s|gentoo_sitedir|${EPREFIX}$(python_get_sitedir)|g" \
-e "s|gentoolibdir|${EPREFIX}/usr/${libdir}|g" \
-e "s|gentootk|${EPREFIX}/usr/${libdir}/tk${tkver}|g" \
-e "s|gentootcl|${EPREFIX}/usr/${libdir}/tclk${tkver}|g" \
-e "s|gentoopython|$(PYTHON -a)|g" \
-e "s|gentoousr|${EPREFIX}/usr|g" \
-e "s|//|/|g" \
"${FILESDIR}"/${wrapper} > "${T}"/${wrapper} || die "Fail fix ${wrapper}"
dobin "${T}"/${wrapper}
done
local in_path=$(python_get_sitedir)/${PN}
local files
local pydocs
pydocs="$(find python -name doc -type d)"
rm -rf ${pydocs} || die
for i in python/memops/format/compatibility/{Converters,part2/Converters2}.py; do
sed \
-e 's|#from __future__|from __future__|g' \
-i ${i} || die
done
insinto ${in_path}
dodir ${in_path}/c
ebegin "Installing main files"
doins -r python
eend
ebegin "Adjusting permissions"
for _file in $(find "${ED}" -type f -name "*so"); do
chmod 755 ${_file}
done
eend
}
pkg_postinst() {
python_mod_optimize ${PN}
}
pkg_postrm() {
python_mod_cleanup ${PN}
}
|
GitWeb