1 |
jlec 10/02/02 20:38:17 |
2 |
|
3 |
Added: ccp4-libs-6.1.3.ebuild ChangeLog metadata.xml |
4 |
Log: |
5 |
Splitt out ccp4 libraries -- big thanks to dberkholz starting this project |
6 |
(Portage version: 2.2_rc62/cvs/Linux x86_64) |
7 |
|
8 |
Revision Changes Path |
9 |
1.1 sci-libs/ccp4-libs/ccp4-libs-6.1.3.ebuild |
10 |
|
11 |
file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/ccp4-libs/ccp4-libs-6.1.3.ebuild?rev=1.1&view=markup |
12 |
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/ccp4-libs/ccp4-libs-6.1.3.ebuild?rev=1.1&content-type=text/plain |
13 |
|
14 |
Index: ccp4-libs-6.1.3.ebuild |
15 |
=================================================================== |
16 |
# Copyright 1999-2010 Gentoo Foundation |
17 |
# Distributed under the terms of the GNU General Public License v2 |
18 |
# $Header: /var/cvsroot/gentoo-x86/sci-libs/ccp4-libs/ccp4-libs-6.1.3.ebuild,v 1.1 2010/02/02 20:38:16 jlec Exp $ |
19 |
|
20 |
EAPI="3" |
21 |
|
22 |
inherit fortran eutils gnuconfig toolchain-funcs |
23 |
|
24 |
FORTRAN="g77 gfortran ifc" |
25 |
|
26 |
SRC="ftp://ftp.ccp4.ac.uk/ccp4" |
27 |
|
28 |
#UPDATE="04_03_09" |
29 |
#PATCHDATE="090511" |
30 |
|
31 |
MY_P="${P/-libs}" |
32 |
|
33 |
PATCH_TOT="0" |
34 |
# Here's a little scriptlet to generate this list from the provided |
35 |
# index.patches file |
36 |
# |
37 |
# i=1; while read -a line; do [[ ${line//#} != ${line} ]] && continue; |
38 |
# echo "PATCH${i}=( ${line[1]}"; echo "${line[0]} )"; (( i++ )); done < |
39 |
# index.patches |
40 |
#PATCH1=( src/topp_ |
41 |
#topp.f-r1.16.2.5-r1.16.2.6.diff ) |
42 |
#PATCH2=( . |
43 |
#configure-r1.372.2.18-r1.372.2.19.diff ) |
44 |
|
45 |
DESCRIPTION="Protein X-ray crystallography toolkit" |
46 |
HOMEPAGE="http://www.ccp4.ac.uk/" |
47 |
SRC_URI="${SRC}/${PV}/${MY_P}-core-src.tar.gz" |
48 |
# patch tarball from upstream |
49 |
[[ -n ${UPDATE} ]] && SRC_URI="${SRC_URI} ${SRC}/${PV}/updates/${P}-src-patch-${UPDATE}.tar.gz" |
50 |
# patches created by us |
51 |
[[ -n ${PATCHDATE} ]] && SRC_URI="${SRC_URI} http://dev.gentooexperimental.org/~jlec/science-dist/${PV}-${PATCHDATE}-updates.patch.bz2" |
52 |
|
53 |
for i in $(seq $PATCH_TOT); do |
54 |
NAME="PATCH${i}[1]" |
55 |
SRC_URI="${SRC_URI} |
56 |
${SRC}/${PV}/patches/${!NAME}" |
57 |
done |
58 |
|
59 |
LICENSE="ccp4" |
60 |
SLOT="0" |
61 |
KEYWORDS="~amd64 ~x86" |
62 |
IUSE="" |
63 |
|
64 |
RDEPEND=" |
65 |
app-shells/tcsh |
66 |
!<sci-chemistry/ccp4-6.1.3 |
67 |
=sci-libs/fftw-2* |
68 |
sci-libs/mmdb |
69 |
sci-libs/monomer-db |
70 |
virtual/lapack |
71 |
virtual/blas" |
72 |
DEPEND="${RDEPEND}" |
73 |
|
74 |
RESTRICT="mirror" |
75 |
|
76 |
S="${WORKDIR}/${MY_P}" |
77 |
|
78 |
src_prepare() { |
79 |
einfo "Applying upstream patches ..." |
80 |
for patch in $(seq $PATCH_TOT); do |
81 |
base="PATCH${patch}" |
82 |
dir=$(eval echo \${${base}[0]}) |
83 |
p=$(eval echo \${${base}[1]}) |
84 |
pushd "${dir}" >& /dev/null |
85 |
ccp_patch "${DISTDIR}/${p}" |
86 |
popd >& /dev/null |
87 |
done |
88 |
einfo "Done." |
89 |
echo |
90 |
|
91 |
[[ -n ${PATCHDATE} ]] && epatch "${WORKDIR}"/${PV}-${PATCHDATE}-updates.patch |
92 |
|
93 |
einfo "Applying Gentoo patches ..." |
94 |
# it tries to create libdir, bindir etc on live system in configure |
95 |
ccp_patch "${FILESDIR}"/${PV}-dont-make-dirs-in-configure.patch |
96 |
|
97 |
# gerror_ gets defined twice on ppc if you're using gfortran/g95 |
98 |
ccp_patch "${FILESDIR}"/6.0.2-ppc-double-define-gerror.patch |
99 |
|
100 |
# make creation of libccif.so smooth |
101 |
ccp_patch "${FILESDIR}"/${PV}-ccif-shared.patch |
102 |
|
103 |
# lets try to build libmmdb seperatly |
104 |
ccp_patch "${FILESDIR}"/${PV}-dont-build-mmdb.patch |
105 |
|
106 |
einfo "Done." # done applying Gentoo patches |
107 |
echo |
108 |
|
109 |
gnuconfig_update |
110 |
} |
111 |
|
112 |
src_configure() { |
113 |
# Build system is broken if we set LDFLAGS |
114 |
userldflags="${LDFLAGS}" |
115 |
export SHARED_LIB_FLAGS="${LDFLAGS}" |
116 |
unset LDFLAGS |
117 |
|
118 |
# GENTOO_OSNAME can be one of: |
119 |
# irix irix64 sunos sunos64 aix hpux osf1 linux freebsd |
120 |
# linux_compaq_compilers linux_intel_compilers generic Darwin |
121 |
# ia64_linux_intel Darwin_ibm_compilers linux_ibm_compilers |
122 |
if [[ "${FORTRANC}" = "ifc" ]]; then |
123 |
if use ia64; then |
124 |
GENTOO_OSNAME="ia64_linux_intel" |
125 |
else |
126 |
# Should be valid for x86, maybe amd64 |
127 |
GENTOO_OSNAME="linux_intel_compilers" |
128 |
fi |
129 |
else |
130 |
# Should be valid for x86 and amd64, at least |
131 |
GENTOO_OSNAME="linux" |
132 |
fi |
133 |
|
134 |
# Sets up env |
135 |
ln -s \ |
136 |
ccp4.setup-bash \ |
137 |
"${S}"/include/ccp4.setup |
138 |
|
139 |
# We agree to the license by emerging this, set in LICENSE |
140 |
sed -i \ |
141 |
-e "s~^\(^agreed=\).*~\1yes~g" \ |
142 |
"${S}"/configure |
143 |
|
144 |
# Fix up variables -- need to reset CCP4_MASTER at install-time |
145 |
sed -i \ |
146 |
-e "s~^\(setenv CCP4_MASTER.*\)/.*~\1"${WORKDIR}"~g" \ |
147 |
-e "s~^\(setenv CCP4I_TCLTK.*\)/usr/local/bin~\1${EPREFIX}/usr/bin~g" \ |
148 |
"${S}"/include/ccp4.setup* |
149 |
|
150 |
# Set up variables for build |
151 |
source "${S}"/include/ccp4.setup |
152 |
|
153 |
export CC=$(tc-getCC) |
154 |
export CXX=$(tc-getCXX) |
155 |
export COPTIM=${CFLAGS} |
156 |
export CXXOPTIM=${CXXFLAGS} |
157 |
# Default to -O2 if FFLAGS is unset |
158 |
export FC=${FORTRANC} |
159 |
export FOPTIM=${FFLAGS:- -O2} |
160 |
# export CCP4_SCR="${T}" |
161 |
|
162 |
# Fix linking |
163 |
# $(tc-getCC) ${userldflags} -shared -Wl,-soname,libmmdb.so -o libmmdb.so \${MMDBOBJS} $(gcc-config -L | awk -F: '{for(i=1; i<=NF; i++) printf " -L%s", $i}') -lm -lstdc++ && \ |
164 |
export SHARE_LIB="\ |
165 |
$(tc-getCC) ${userldflags} -shared -Wl,-soname,libccp4c.so -o libccp4c.so \${CORELIBOBJS} \${CGENERALOBJS} \${CUCOBJS} \${CMTZOBJS} \${CMAPOBJS} \${CSYMOBJS} -L.. -lccif $(gcc-config -L | awk -F: '{for(i=1; i<=NF; i++) printf " -L%s", $i}') -lm && \ |
166 |
${FORTRANC} ${userldflags} -shared -Wl,-soname,libccp4f.so -o libccp4f.so \${FORTRANLOBJS} \${FINTERFACEOBJS} -L.. -lccif -L. -lccp4c -lmmdb $(gcc-config -L | awk -F: '{for(i=1; i<=NF; i++) printf " -L%s", $i}') -lstdc++ -lgfortran -lm" |
167 |
|
168 |
# Can't use econf, configure rejects unknown options like --prefix |
169 |
./configure \ |
170 |
--onlylibs \ |
171 |
--with-shared-libs \ |
172 |
--with-fftw=${EPREFIX}/usr \ |
173 |
--with-warnings \ |
174 |
--disable-cctbx \ |
175 |
--disable-clipper \ |
176 |
--tmpdir="${TMPDIR}" \ |
177 |
${GENTOO_OSNAME} || die "econf failed" |
178 |
} |
179 |
|
180 |
src_compile() { |
181 |
emake -j1 onlylib || die "emake failed" |
182 |
} |
183 |
|
184 |
src_install() { |
185 |
# Set up variables for build |
186 |
source "${S}"/include/ccp4.setup |
187 |
|
188 |
einstall || die "install failed" |
189 |
|
190 |
# Libs |
191 |
for file in "${S}"/lib/*; do |
192 |
if [[ -d ${file} ]]; then |
193 |
continue |
194 |
elif [[ -x ${file} ]]; then |
195 |
dolib.so ${file} || die |
196 |
else |
197 |
insinto /usr/$(get_libdir) |
198 |
doins ${file} || die |
199 |
fi |
200 |
done |
201 |
|
202 |
# Bins |
203 |
dobin bin/{automask,diff2jpeg,diffdump,printpeaks} || die |
204 |
newbin bin/superpose superpose-ccp4 || die |
205 |
|
206 |
# Fix libdir in all *.la files |
207 |
sed -i \ |
208 |
-e "s:^\(libdir=\).*:\1\'${EPREFIX}/usr/$(get_libdir)\':g" \ |
209 |
"${ED}"/usr/$(get_libdir)/*.la || die |
210 |
|
211 |
# Data |
212 |
insinto /usr/share/ccp4/data/ |
213 |
doins -r "${S}"/lib/data/{*.PARM,*.prt,*.lib,*.dic,*.idl,*.cif,*.resource,*.york,*.hist,fraglib,reference_structures} || die |
214 |
dodoc "${S}"/lib/data/*.doc |
215 |
newdoc "${S}"/lib/data/README DATA-README |
216 |
|
217 |
# Include files |
218 |
insinto /usr/include |
219 |
for i in ccp4; do |
220 |
doins -r "${S}"/include/${i} || die |
221 |
done |
222 |
} |
223 |
|
224 |
# Epatch wrapper for bulk patching |
225 |
ccp_patch() { |
226 |
EPATCH_SINGLE_MSG=" ${1##*/} ..." epatch ${1} |
227 |
} |
228 |
|
229 |
|
230 |
|
231 |
1.1 sci-libs/ccp4-libs/ChangeLog |
232 |
|
233 |
file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/ccp4-libs/ChangeLog?rev=1.1&view=markup |
234 |
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/ccp4-libs/ChangeLog?rev=1.1&content-type=text/plain |
235 |
|
236 |
Index: ChangeLog |
237 |
=================================================================== |
238 |
# ChangeLog for sci-libs/ccp4-libs |
239 |
# Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2 |
240 |
# $Header: /var/cvsroot/gentoo-x86/sci-libs/ccp4-libs/ChangeLog,v 1.1 2010/02/02 20:38:16 jlec Exp $ |
241 |
|
242 |
*ccp4-libs-6.1.3 (02 Feb 2010) |
243 |
|
244 |
02 Feb 2010; Justin Lecher (jlec) <jlec@g.o> |
245 |
+files/6.0.2-ppc-double-define-gerror.patch, |
246 |
+files/6.1.3-ccif-shared.patch, +files/6.1.3-dont-build-mmdb.patch, |
247 |
+files/6.1.3-dont-make-dirs-in-configure.patch, |
248 |
+files/6.1.3-glibc2.10.patch, +files/6.1.3-link-proberly.patch, |
249 |
+ccp4-libs-6.1.3.ebuild, +metadata.xml: |
250 |
Splitted libraries from sci-chemistry/ccp4 |
251 |
|
252 |
|
253 |
|
254 |
|
255 |
1.1 sci-libs/ccp4-libs/metadata.xml |
256 |
|
257 |
file : http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/ccp4-libs/metadata.xml?rev=1.1&view=markup |
258 |
plain: http://sources.gentoo.org/viewcvs.py/gentoo-x86/sci-libs/ccp4-libs/metadata.xml?rev=1.1&content-type=text/plain |
259 |
|
260 |
Index: metadata.xml |
261 |
=================================================================== |
262 |
<?xml version="1.0" encoding="UTF-8"?> |
263 |
<!DOCTYPE pkgmetadata SYSTEM "http://www.gentoo.org/dtd/metadata.dtd"> |
264 |
<pkgmetadata> |
265 |
<herd>sci-chemistry</herd> |
266 |
<maintainer> |
267 |
<email>jlec@g.o</email> |
268 |
<name>Justin Lecher (jlec)</name> |
269 |
</maintainer> |
270 |
</pkgmetadata> |