/[gentoo-x86]/sci-libs/ccp4-libs/ccp4-libs-6.1.3-r11.ebuild
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Contents of /sci-libs/ccp4-libs/ccp4-libs-6.1.3-r11.ebuild

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Revision 1.5 - (show annotations) (download)
Tue May 29 17:43:13 2012 UTC (6 years, 3 months ago) by jlec
Branch: MAIN
Changes since 1.4: +3 -6 lines
sci-libs/ccp4-libs: Drop la files

(Portage version: 2.2.0_alpha108/cvs/Linux x86_64)

1 # Copyright 1999-2012 Gentoo Foundation
2 # Distributed under the terms of the GNU General Public License v2
3 # $Header: /var/cvsroot/gentoo-x86/sci-libs/ccp4-libs/ccp4-libs-6.1.3-r11.ebuild,v 1.4 2012/05/21 19:26:43 ranger Exp $
4
5 EAPI=3
6
7 PYTHON_DEPEND="2"
8
9 inherit autotools eutils fortran-2 gnuconfig multilib python toolchain-funcs
10
11 SRC="ftp://ftp.ccp4.ac.uk/ccp4"
12
13 #UPDATE="04_03_09"
14 #PATCHDATE="090511"
15
16 MY_P="${P/-libs}"
17
18 PATCH_TOT="0"
19
20 DESCRIPTION="Protein X-ray crystallography toolkit - Libraries"
21 HOMEPAGE="http://www.ccp4.ac.uk/"
22 SRC_URI="${SRC}/${PV}/${MY_P}-core-src.tar.gz"
23 # patch tarball from upstream
24 [[ -n ${UPDATE} ]] && SRC_URI="${SRC_URI} ${SRC}/${PV}/updates/${P}-src-patch-${UPDATE}.tar.gz"
25 # patches created by us
26 [[ -n ${PATCHDATE} ]] && SRC_URI="${SRC_URI} http://dev.gentooexperimental.org/~jlec/science-dist/${PV}-${PATCHDATE}-updates.patch.bz2"
27
28 for i in $(seq $PATCH_TOT); do
29 NAME="PATCH${i}[1]"
30 SRC_URI="${SRC_URI}
31 ${SRC}/${PV}/patches/${!NAME}"
32 done
33
34 LICENSE="ccp4"
35 SLOT="0"
36 KEYWORDS="~amd64 ppc ~x86 ~amd64-linux ~x86-linux"
37 IUSE=""
38
39 RDEPEND="
40 !<sci-chemistry/ccp4-6.1.3
41 !<sci-chemistry/ccp4-apps-${PV}-r10
42 app-shells/tcsh
43 dev-lang/tcl
44 >=sci-libs/cbflib-0.9.2.2
45 sci-libs/fftw:2.1
46 sci-libs/mmdb
47 sci-libs/monomer-db
48 sci-libs/ssm
49 virtual/fortran
50 virtual/jpeg
51 virtual/lapack
52 virtual/blas"
53 DEPEND="${RDEPEND}"
54
55 S="${WORKDIR}/${MY_P}"
56
57 pkg_setup() {
58 fortran-2_pkg_setup
59 python_set_active_version 2
60 }
61
62 src_prepare() {
63 einfo "Applying upstream patches ..."
64 for patch in $(seq $PATCH_TOT); do
65 base="PATCH${patch}"
66 dir=$(eval echo \${${base}[0]})
67 p=$(eval echo \${${base}[1]})
68 pushd "${dir}" >& /dev/null
69 ccp_patch "${DISTDIR}/${p}"
70 popd >& /dev/null
71 done
72 einfo "Done."
73 echo
74
75 [[ -n ${PATCHDATE} ]] && epatch "${WORKDIR}"/${PV}-${PATCHDATE}-updates.patch
76
77 einfo "Applying Gentoo patches ..."
78 # fix buffer overflows wrt bug 339706
79 ccp_patch "${FILESDIR}"/${PV}-overflows.patch
80
81 # it tries to create libdir, bindir etc on live system in configure
82 ccp_patch "${FILESDIR}"/${PV}-dont-make-dirs-in-configure.patch
83
84 # gerror_ gets defined twice on ppc if you're using gfortran/g95
85 ccp_patch "${FILESDIR}"/6.0.2-ppc-double-define-gerror.patch
86
87 # make creation of libccif.so smooth
88 ccp_patch "${FILESDIR}"/${PV}-ccif-shared.patch
89
90 # lets try to build libmmdb seperatly
91 ccp_patch "${FILESDIR}"/${PV}-dont-build-mmdb.patch
92
93 # unbundle libjpeg and cbflib
94 ccp_patch "${FILESDIR}"/${PV}-unbundle-libs-ng2.patch
95
96 # Fix missing DESTIDR
97 # not installing during build
98 ccp_patch "${FILESDIR}"/${PV}-noinstall.patch
99 sed \
100 -e '/SHARE_INST/s:$(libdir):$(DESTDIR)/$(libdir):g' \
101 -i configure || die
102
103 # Fix upstreams code
104 ccp_patch "${FILESDIR}"/${PV}-impl-dec.patch
105
106 # use pkg-config to detect BLAS/LAPACK
107 ccp_patch "${FILESDIR}"/${PV}-lapack.patch
108
109 # proto type changing in version 0.9.2.2
110 ccp_patch "${FILESDIR}"/${PV}-cbf.patch
111
112 einfo "Done." # done applying Gentoo patches
113 echo
114
115 # not needed, we have it extra
116 rm -rf src/rapper/{libxml2,gc7.0} || die
117
118 sed \
119 -e "s:/usr:${EPREFIX}/usr:g" \
120 -e 's:-Wl,-rpath,$CLIB::g' \
121 -e 's: -rpath $CLIB::g' \
122 -e 's: -I${srcdir}/include/cpp_c_headers::g' \
123 -e 's:sleep 1:sleep .2:g' \
124 -i configure || die
125
126 gnuconfig_update
127
128 for i in lib/DiffractionImage src/rapper src/pisa; do
129 pushd ${i} > /dev/null
130 sed 's:-g::g' -i configure* || die
131 eautoreconf
132 popd > /dev/null
133 done
134
135 ## unbundle libssm
136 sed '/libdir/s:ssm::g' -i Makefile.in
137 find ./lib/src/mmdb ./lib/ssm ./lib/clipper ./lib/fftw lib/lapack -delete
138 }
139
140 src_configure() {
141 rm -rf lib/DiffractionImage/{jpg,CBFlib} || die
142
143 # Build system is broken if we set LDFLAGS
144 userldflags="${LDFLAGS}"
145 export SHARED_LIB_FLAGS="${LDFLAGS}"
146 unset LDFLAGS
147
148 # GENTOO_OSNAME can be one of:
149 # irix irix64 sunos sunos64 aix hpux osf1 linux freebsd
150 # linux_compaq_compilers linux_intel_compilers generic Darwin
151 # ia64_linux_intel Darwin_ibm_compilers linux_ibm_compilers
152 if [[ "$(tc-getFC)" = "ifort" ]]; then
153 if use ia64; then
154 GENTOO_OSNAME="ia64_linux_intel"
155 else
156 # Should be valid for x86, maybe amd64
157 GENTOO_OSNAME="linux_intel_compilers"
158 fi
159 else
160 # Should be valid for x86 and amd64, at least
161 GENTOO_OSNAME="linux"
162 fi
163
164 # Sets up env
165 ln -s \
166 ccp4.setup-bash \
167 "${S}"/include/ccp4.setup
168
169 # We agree to the license by emerging this, set in LICENSE
170 sed -i \
171 -e "s~^\(^agreed=\).*~\1yes~g" \
172 "${S}"/configure
173
174 # Fix up variables -- need to reset CCP4_MASTER at install-time
175 sed -i \
176 -e "s~^\(setenv CCP4_MASTER.*\)/.*~\1${WORKDIR}~g" \
177 -e "s~^\(export CCP4_MASTER.*\)/.*~\1${WORKDIR}~g" \
178 -e "s~^\(.*export CBIN=.*\)\$CCP4.*~\1\$CCP4/libexec/ccp4/bin/~g" \
179 -e "s~^\(.*setenv CBIN .*\)\$CCP4.*~\1\$CCP4/libexec/ccp4/bin/~g" \
180 -e "s~^\(setenv CCP4I_TCLTK.*\)/usr/local/bin~\1${EPREFIX}/usr/bin~g" \
181 "${S}"/include/ccp4.setup*
182
183 # Set up variables for build
184 source "${S}"/include/ccp4.setup-sh
185
186 export CC=$(tc-getCC)
187 export CXX=$(tc-getCXX)
188 export COPTIM=${CFLAGS}
189 export CXXOPTIM=${CXXFLAGS}
190 # Default to -O2 if FFLAGS is unset
191 export FC=$(tc-getFC)
192 export FOPTIM=${FFLAGS:- -O2}
193
194 export SHARE_LIB="\
195 $(tc-getCC) ${userldflags} -shared -Wl,-soname,libccp4c.so -o libccp4c.so \${CORELIBOBJS} \${CGENERALOBJS} \${CUCOBJS} \${CMTZOBJS} \${CMAPOBJS} \${CSYMOBJS} -L../ccif/ -lccif $(gcc-config -L | awk -F: '{for(i=1; i<=NF; i++) printf " -L%s", $i}') -lm && \
196 $(tc-getFC) ${userldflags} -shared -Wl,-soname,libccp4f.so -o libccp4f.so \${FORTRANLOBJS} \${FINTERFACEOBJS} -L../ccif/ -lccif -L. -lccp4c $(pkg-config --libs mmdb) $(gcc-config -L | awk -F: '{for(i=1; i<=NF; i++) printf " -L%s", $i}') -lstdc++ -lgfortran -lm"
197
198 # Can't use econf, configure rejects unknown options like --prefix
199 ./configure \
200 --onlylibs \
201 --with-shared-libs \
202 --with-fftw="${EPREFIX}/usr" \
203 --with-warnings \
204 --disable-cctbx \
205 --disable-clipper \
206 --disable-ssm \
207 --tmpdir="${TMPDIR}" \
208 --bindir="${EPREFIX}/usr/libexec/ccp4/bin/" \
209 --libdir="${EPREFIX}/usr/$(get_libdir)" \
210 ${GENTOO_OSNAME} || die "configure failed"
211 }
212
213 src_compile() {
214 emake -j1 \
215 DESTDIR="${D}" onlylib || die "emake failed"
216 }
217
218 src_install() {
219 # Set up variables for build
220 source "${S}"/include/ccp4.setup-sh
221
222 emake -j1 \
223 DESTDIR="${D}" \
224 includedir="${EPREFIX}/usr/include" \
225 library_includedir="${EPREFIX}/usr/include" \
226 install || die
227
228 sed \
229 -e "330,1000d" \
230 -i "${S}"/include/ccp4.setup-sh || die
231
232 sed \
233 -e "378,1000d" \
234 -i "${S}"/include/ccp4.setup-csh || die
235
236 sed \
237 -e "s:-${PV/-r*/}::g" \
238 -e "s:^\(.*export CCP4_MASTER=\).*:\1${EPREFIX}/usr:g" \
239 -e "s:^\(.*setenv CCP4_MASTER\).*:\1 ${EPREFIX}/usr:g" \
240 -e "s:^\(.*export CCP4=\).*CCP4_MASTER.*:\1${EPREFIX}/usr:g" \
241 -e "s:^\(.*setenv CCP4\).*CCP4_MASTER.*:\1 ${EPREFIX}/usr:g" \
242 -e "s:^\(.*export CCP4_SCR=\).*:\1${EPREFIX}/tmp:g" \
243 -e "s:^\(.*setenv CCP4_SCR \).*:\1${EPREFIX}/tmp:g" \
244 -e "s:^\(.*export BINSORT_SCR=\).*:\1${EPREFIX}/tmp:g" \
245 -e "s:^\(.*setenv BINSORT_SCR \).*:\1${EPREFIX}/tmp:g" \
246 -e "s:^\(.*export CCP4I_TOP=\).*:\1${EPREFIX}/usr/$(get_libdir)/ccp4/ccp4i:g" \
247 -e "s:^\(.*setenv CCP4I_TOP \).*:\1${EPREFIX}/usr/$(get_libdir)/ccp4/ccp4i:g" \
248 -e "s:^\(.*export CCP4I_TCLTK=\).*:\1${EPREFIX}/usr/bin:g" \
249 -e "s:^\(.*setenv CCP4I_TCLTK \).*:\1${EPREFIX}/usr/bin:g" \
250 -e "s:^\(.*export CCP4I_HELP=\).*:\1${EPREFIX}/usr/$(get_libdir)/ccp4/ccp4i/help:g" \
251 -e "s:^\(.*setenv CCP4I_HELP \).*:\1${EPREFIX}/usr/$(get_libdir)/ccp4/ccp4i/help:g" \
252 -e "s:^\(.*export CBIN=\).*:\1${EPREFIX}/usr/libexec/ccp4/bin:g" \
253 -e "s:^\(.*setenv CBIN \).*:\1${EPREFIX}/usr/libexec/ccp4/bin:g" \
254 -e "s:^\(.*export CCP4_BIN=\).*:\1${EPREFIX}/usr/libexec/ccp4/bin:g" \
255 -e "s:^\(.*setenv CCP4_BIN \).*:\1${EPREFIX}/usr/libexec/ccp4/bin:g" \
256 -e "s:^\(.*export CLIBD_MON=\).*:\1${EPREFIX}/usr/share/ccp4/data/monomers/:g" \
257 -e "s:^\(.*setenv CLIBD_MON \).*:\1${EPREFIX}/usr/share/ccp4/data/monomers/:g" \
258 -e "s:^\(.*export CLIBD=\).*:\1${EPREFIX}/usr/share/ccp4/data:g" \
259 -e "s:^\(.*setenv CLIBD \).*:\1${EPREFIX}/usr/share/ccp4/data:g" \
260 -e "s:^\(.*export CLIBS=\).*:\1${EPREFIX}/usr/$(get_libdir):g" \
261 -e "s:^\(.*setenv CLIBS \).*:\1${EPREFIX}/usr/$(get_libdir):g" \
262 -e "s:^\(.*export CLIB=\).*:\1${EPREFIX}/usr/$(get_libdir):g" \
263 -e "s:^\(.*setenv CLIB \).*:\1${EPREFIX}/usr/$(get_libdir):g" \
264 -e "s:^\(.*export CCP4_LIB=\).*:\1${EPREFIX}/usr/$(get_libdir):g" \
265 -e "s:^\(.*setenv CCP4_LIB \).*:\1${EPREFIX}/usr/$(get_libdir):g" \
266 -e "s:^\(.*export CCP4_BROWSER=\).*:\1firefox:g" \
267 -e "s:^\(.*setenv CCP4_BROWSER \).*:\1firefox:g" \
268 -e "s:^\(.*export MANPATH=\).*:\1\${MANPATH}:g" \
269 -e "s:^\(.*setenv MANPATH \).*:\1\${MANPATH}:g" \
270 -e "s:^\(.*export DBCCP4I_TOP=\).*:\1${EPREFIX}/usr/share/ccp4/dbccp4i:g" \
271 -e "s:^\(.*setenv DBCCP4I_TOP \).*:\1${EPREFIX}/usr/share/ccp4/dbccp4i:g" \
272 -e "s:^\(.*export MOLREPLIB=\).*:\1${EPREFIX}/usr/share/ccp4/data/monomers/:g" \
273 -e "s:^\(.*setenv MOLREPLIB \).*:\1${EPREFIX}/usr/share/ccp4/data/monomers/:g" \
274 -e "s:^\(.*export CDOC=\).*:\1${EPREFIX}/usr/share/doc:g" \
275 -e "s:^\(.*setenv CDOC \).*:\1${EPREFIX}/usr/share/doc:g" \
276 -e "s:^\(.*export CEXAM=\).*:\1${EPREFIX}/usr/share/doc/examples:g" \
277 -e "s:^\(.*setenv CEXAM \).*:\1${EPREFIX}/usr/share/doc/examples:g" \
278 -e "s:^\(.*export CINCL=\).*:\1${EPREFIX}/usr/share/ccp4/include:g" \
279 -e "s:^\(.*setenv CINCL \).*:\1${EPREFIX}/usr/share/ccp4/include:g" \
280 -e '/# .*LD_LIBRARY_PATH specifies/,/^$/d' \
281 -e "/CCP4_HELPDIR/d" \
282 -e "/IMOSFLM_VERSION/d" \
283 -i "${S}"/include/ccp4.setup* || die
284
285 # Don't check for updates on every sourcing of /etc/profile
286 sed -i \
287 -e "s:\(eval python.*\):#\1:g" \
288 "${S}"/include/ccp4.setup* || die
289
290 # Libs
291 for file in "${S}"/lib/*; do
292 if [[ -d ${file} ]]; then
293 continue
294 elif [[ -x ${file} ]]; then
295 dolib.so ${file} || die
296 else
297 insinto /usr/$(get_libdir)
298 doins ${file} || die
299 fi
300 done
301
302 rm -f "${ED}"/usr/$(get_libdir)/*.la || die
303
304 sed \
305 -e 's:test "LD_LIBRARY_PATH":test "$LD_LIBRARY_PATH":g' \
306 -i "${S}"/include/ccp4.setup-sh || die
307
308 # Setup scripts
309 insinto /etc/profile.d
310 newins "${S}"/include/ccp4.setup-csh 40ccp4.setup.csh || die
311 newins "${S}"/include/ccp4.setup-sh 40ccp4.setup.sh || die
312 rm -f "${S}"/include/ccp4.setup*
313
314 # Data
315 insinto /usr/share/ccp4/data/
316 doins -r "${S}"/lib/data/{*.PARM,*.prt,*.lib,*.dic,*.idl,*.cif,*.resource,*.york,*.hist,fraglib,reference_structures} || die
317
318 # Environment files, setup scripts, etc.
319 rm -rf "${S}"/include/{ccp4.setup*,COPYING,cpp_c_headers} || die
320 insinto /usr/share/ccp4/
321 doins -r "${S}"/include || die
322
323 dodoc "${S}"/lib/data/*.doc || die
324 newdoc "${S}"/lib/data/README DATA-README || die
325 }
326
327 pkg_postinst() {
328 einfo "The Web browser defaults to firefox. Change CCP4_BROWSER"
329 einfo "in ${EPREFIX}/etc/profile.d/40ccp4.setup* to modify this."
330 }
331
332 # Epatch wrapper for bulk patching
333 ccp_patch() {
334 EPATCH_SINGLE_MSG=" ${1##*/} ..." epatch ${1}
335 }

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