blob: 420edbbf65cda4714fd2338df6f339d1012f096c (
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
181
|
# Copyright 1999-2016 Gentoo Foundation
# Distributed under the terms of the GNU General Public License v2
# $Id$
EAPI=5
PYTHON_COMPAT=( python2_7 )
AUTOTOOLS_AUTORECONF="true"
inherit autotools-utils python-single-r1 toolchain-funcs versionator
MY_S2_PV=$(replace_version_separator 2 - ${PV})
MY_S2_P=${PN}-${MY_S2_PV/pre1/pre-1}
MY_S_P=${MY_S2_P}-${PR/r/revision-}
MY_PV=${PV}
MY_P=${PN}-${MY_PV}
DESCRIPTION="Crystallographic Object-Oriented Toolkit"
HOMEPAGE="https://www2.mrc-lmb.cam.ac.uk/Personal/pemsley/coot/"
SRC_URI="
http://www2.mrc-lmb.cam.ac.uk/Personal/pemsley/coot/source/releases/${MY_P}.tar.gz
test? ( https://www2.mrc-lmb.cam.ac.uk/Personal/pemsley/coot/data/greg-data.tar.gz -> ${P}-greg-data.tar.gz )"
SLOT="0"
LICENSE="GPL-3"
KEYWORDS="~amd64 ~x86 ~amd64-linux ~x86-linux"
IUSE="+openmp static-libs test"
REQUIRED_USE="${PYTHON_REQUIRED_USE}"
AUTOTOOLS_IN_SOURCE_BUILD=1
SCIDEPS="
sci-libs/libccp4
sci-libs/clipper
>=sci-libs/coot-data-2
>=sci-libs/gsl-1.3
sci-libs/fftw:2.1=
sci-libs/mmdb:2
sci-libs/monomer-db
sci-libs/ssm
sci-chemistry/reduce
sci-chemistry/probe"
XDEPS="
gnome-base/libgnomecanvas
gnome-base/librsvg:2
media-libs/libpng:0=
media-libs/freeglut
x11-libs/gtk+:2
x11-libs/goocanvas:0
x11-libs/gtkglext
virtual/opengl"
SCHEMEDEPS="
dev-scheme/net-http
dev-scheme/guile-gui
>=dev-scheme/guile-lib-0.1.6
dev-scheme/guile-www
>=x11-libs/guile-gtk-2.1"
RDEPEND="
${SCIDEPS}
${XDEPS}
${SCHEMEDEPS}
${PYTHON_DEPS}
dev-db/sqlite:3
dev-libs/boost:0=[python,${PYTHON_USEDEP}]
dev-libs/glib:2
>=dev-libs/gmp-4.2.2-r2:0=
dev-python/pygobject:2[${PYTHON_USEDEP}]
dev-python/pygtk:2[${PYTHON_USEDEP}]
>=net-misc/curl-7.19.6
net-dns/libidn
sys-libs/readline:0=
"
DEPEND="${RDEPEND}
virtual/pkgconfig
>=sys-devel/libtool-2.4-r2
dev-lang/swig
sys-devel/bc
test? ( dev-scheme/greg )"
S="${WORKDIR}/${MY_P}"
pkg_setup() {
if use openmp; then
tc-has-openmp || die "Please use an OPENMP capable compiler"
fi
python-single-r1_pkg_setup
}
PATCHES=(
"${FILESDIR}"/${P}-desktop.patch
"${FILESDIR}"/${P}-sandbox-icons.patch
"${FILESDIR}"/${P}-libtool.patch
"${FILESDIR}"/${P}-libguile.patch
)
src_unpack() {
default
if use test; then
cd "${S}" || die
ln -sf ../greg-data || die
fi
}
src_prepare() {
sed \
-e '/export LD_LIBRARY/s:^:#:g' \
-i src/coot.in || die
sed \
-e "s:AM_COOT_SYS_BUILD_TYPE:COOT_SYS_BUILD_TYPE=Gentoo-Linux-${EPYTHON}-gtk2 ; AC_MSG_RESULT([\$COOT_SYS_BUILD_TYPE]); AC_SUBST(COOT_SYS_BUILD_TYPE):g" \
-i configure.ac || die
autotools-utils_src_prepare
}
src_configure() {
# All the --with's are used to activate various parts.
# Yes, this is broken behavior.
local myeconfargs=(
--with-goocanvas-prefix="${EPREFIX}/usr"
--with-guile="${EPREFIX}/usr"
--with-python="${EPREFIX}/usr"
--with-guile-gtk
--with-pygtk="${EPREFIX}/usr"
--with-sqlite3
--with-boost="${EPREFIX}/usr"
)
autotools-utils_src_configure
}
src_test() {
source "${EPREFIX}/etc/profile.d/40ccp4.setup.sh"
mkdir "${T}"/coot_test || die
export COOT_STANDARD_RESIDUES="${S}/standard-residues.pdb"
export COOT_SCHEME_DIR="${S}/scheme/"
export COOT_RESOURCES_FILE="${S}/cootrc"
export COOT_PIXMAPS_DIR="${S}/pixmaps/"
export COOT_DATA_DIR="${S}/"
export COOT_PYTHON_DIR="${S}/python/"
export PYTHONPATH="${COOT_PYTHON_DIR}:${S}/src:${PYTHONPATH}"
export PYTHONHOME="${EPREFIX}"/usr/
export CCP4_SCR="${T}"/coot_test/
export CLIBD_MON="${EPREFIX}/usr/share/data/monomers/"
export COOT_REF_STRUCTS="${EPREFIX}/usr/share/data/monomers/"
export SYMINFO="${S}/syminfo.lib"
export COOT_TEST_DATA_DIR="${S}"/greg-data/
cat > command-line-greg.scm <<- EOF
(use-modules (ice-9 greg))
(set! greg-tools (list "greg-tests"))
(set! greg-debug #t)
(set! greg-verbose 5)
(let ((r (greg-test-run)))
(if r
(coot-real-exit 0)
(coot-real-exit 1)))
EOF
einfo "Running test with following paths ..."
einfo "COOT_STANDARD_RESIDUES $COOT_STANDARD_RESIDUES"
einfo "COOT_SCHEME_DIR $COOT_SCHEME_DIR"
einfo "COOT_RESOURCES_FILE $COOT_RESOURCES_FILE"
einfo "COOT_PIXMAPS_DIR $COOT_PIXMAPS_DIR"
einfo "COOT_DATA_DIR $COOT_DATA_DIR"
einfo "COOT_PYTHON_DIR $COOT_PYTHON_DIR"
einfo "PYTHONPATH $PYTHONPATH"
einfo "PYTHONHOME $PYTHONHOME"
einfo "CCP4_SCR ${CCP4_SCR}"
einfo "CLIBD_MON ${CLIBD_MON}"
einfo "SYMINFO ${SYMINFO}"
"${S}"/src/coot-bin --no-graphics --script command-line-greg.scm || die
"${S}"/src/coot-bin --no-graphics --script python-tests/coot_unittest.py || die
}
|
