Gentoo Archives: gentoo-commits

From: Guillaume Horel <guillaume.horel@×××××.com>
To: gentoo-commits@l.g.o
Subject: [gentoo-commits] proj/sci:master commit in: /
Date: Thu, 30 Jun 2011 13:44:50
Message-Id: adf984e1511df9c07f22c0117b8d8da3e945595e.guillaume_horel@gentoo
1 commit: adf984e1511df9c07f22c0117b8d8da3e945595e
2 Author: Guillaume Horel <guillaume.horel <AT> gmail <DOT> com>
3 AuthorDate: Thu Jun 30 13:28:19 2011 +0000
4 Commit: Guillaume Horel <guillaume.horel <AT> gmail <DOT> com>
5 CommitDate: Thu Jun 30 13:28:19 2011 +0000
6 URL: http://git.overlays.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=adf984e1
7
8 Merge branch 'master' of git+ssh://git.overlays.gentoo.org/proj/sci into guillaume
9
10 Conflicts:
11 sci-mathematics/scilab/Manifest
12
13
14 app-doc/gromacs-manual/ChangeLog | 12 +-
15 app-doc/gromacs-manual/Manifest | 18 +-
16 app-doc/gromacs-manual/gromacs-manual-9999.ebuild | 11 +-
17 app-doc/gromacs-manual/metadata.xml | 2 +-
18 app-portage/g-cran/ChangeLog | 6 +-
19 app-portage/g-cran/Manifest | 16 +-
20 app-portage/g-cran/g-cran-9999.ebuild | 4 +-
21 app-portage/g-cran/metadata.xml | 4 +-
22 app-text/dgs/ChangeLog | 5 +-
23 app-text/dgs/Manifest | 22 +-
24 app-text/dgs/dgs-0.5.10-r2.ebuild | 4 +-
25 app-vim/freefem++-syntax/ChangeLog | 5 +-
26 app-vim/freefem++-syntax/Manifest | 22 +-
27 app-vim/freefem++-syntax/metadata.xml | 4 +-
28 dev-cpp/growler-link/ChangeLog | 11 +-
29 dev-cpp/growler-link/Manifest | 22 +-
30 dev-cpp/growler-link/growler-link-0.3.7.ebuild | 25 +-
31 dev-java/jgraphx/ChangeLog | 8 +-
32 dev-java/jgraphx/jgraphx-1.4.1.0.ebuild | 42 +
33 dev-lang/aldor/ChangeLog | 22 -
34 dev-lang/aldor/Manifest | 9 -
35 dev-lang/aldor/aldor-1.1.0.ebuild | 79 -
36 dev-lang/aldor/files/aldor-1.1.0.patch | 23 -
37 dev-lang/aldor/metadata.xml | 19 -
38 dev-libs/libunzip/ChangeLog | 5 +-
39 dev-libs/libunzip/Manifest | 22 +-
40 dev-libs/libunzip/libunzip-5.52.ebuild | 4 +-
41 dev-ml/ocamlgraph/ChangeLog | 3 +
42 dev-ml/ocamlgraph/Manifest | 14 +-
43 dev-ml/ocamlgraph/ocamlgraph-1.7.ebuild | 4 +-
44 dev-perl/Lab-Tools/ChangeLog | 5 +-
45 dev-perl/Lab-Tools/Manifest | 14 +-
46 dev-perl/Lab-Tools/metadata.xml | 2 +-
47 dev-python/coords/ChangeLog | 6 +-
48 dev-python/coords/Manifest | 16 +-
49 dev-python/coords/coords-0.37.ebuild | 10 +-
50 dev-python/coords/metadata.xml | 4 +-
51 dev-python/cvxopt/ChangeLog | 11 +
52 dev-python/cvxopt/Manifest | 13 +-
53 dev-python/cvxopt/cvxopt-1.1.3.ebuild | 28 +-
54 dev-python/cvxopt/files/cvxopt-1.1.3-blas.patch | 76 +
55 dev-python/cvxopt/metadata.xml | 3 +
56 dev-python/ffc/Manifest | 11 +
57 dev-python/ffnet/ChangeLog | 8 +-
58 dev-python/ffnet/Manifest | 12 +-
59 dev-python/ffnet/ffnet-0.6.2.ebuild | 20 +-
60 dev-python/fiat/Manifest | 11 +
61 dev-python/inference/ChangeLog | 11 +-
62 dev-python/inference/Manifest | 14 +-
63 dev-python/inference/inference-0.4.ebuild | 20 +-
64 dev-python/instant/Manifest | 11 +
65 dev-python/numpydoc/ChangeLog | 6 +-
66 dev-python/numpydoc/Manifest | 16 +-
67 dev-python/numpydoc/metadata.xml | 6 +-
68 dev-python/numpydoc/numpydoc-0.4.ebuild | 9 +-
69 dev-python/numscons/ChangeLog | 6 +-
70 dev-python/numscons/Manifest | 16 +-
71 dev-python/numscons/metadata.xml | 4 +-
72 dev-python/numscons/numscons-0.10.1.ebuild | 10 +-
73 dev-python/omniorbpy/ChangeLog | 5 +-
74 dev-python/omniorbpy/Manifest | 12 +-
75 dev-python/omniorbpy/omniorbpy-3.4.ebuild | 4 +-
76 dev-python/pymvpa/ChangeLog | 8 +
77 dev-python/pymvpa/Manifest | 15 +-
78 dev-python/pymvpa/metadata.xml | 6 +-
79 dev-python/pymvpa/pymvpa-0.4.4.ebuild | 16 +-
80 dev-python/pythoncgns/ChangeLog | 5 +-
81 dev-python/pythoncgns/Manifest | 14 +-
82 dev-python/pythoncgns/pythoncgns-2009.10.30.ebuild | 11 +-
83 dev-python/ufl/Manifest | 11 +
84 dev-python/viper/Manifest | 11 +
85 dev-util/smartgit/ChangeLog | 5 +-
86 dev-util/smartgit/Manifest | 12 +-
87 dev-util/smartgit/metadata.xml | 2 +-
88 eclass/fortran-2.eclass | 172 -
89 media-gfx/brlcad/ChangeLog | 89 -
90 media-gfx/brlcad/Manifest | 22 -
91 media-gfx/brlcad/metadata.xml | 34 -
92 media-gfx/librecad/ChangeLog | 7 +
93 media-gfx/librecad/Manifest | 17 +-
94 media-gfx/librecad/librecad-1.0.0_beta5.ebuild | 2 +-
95 media-gfx/librecad/librecad-1.0.0_rc1.ebuild | 42 +
96 media-gfx/librecad/librecad-9999.ebuild | 2 +-
97 net-firewall/gcb/ChangeLog | 5 +-
98 net-firewall/gcb/Manifest | 26 +-
99 net-firewall/gcb/gcb-1.5.6.ebuild | 13 +-
100 net-firewall/gcb/metadata.xml | 10 +-
101 net-ftp/bbftp-server/ChangeLog | 5 +-
102 net-ftp/bbftp-server/Manifest | 22 +-
103 net-ftp/bbftp-server/bbftp-server-3.2.0.ebuild | 4 +-
104 net-misc/dhcp/ChangeLog | 11 +
105 net-misc/dhcp/Manifest | 45 +
106 net-misc/dhcp/dhcp-4.2.1_p1-r1.ebuild | 231 +
107 net-misc/dhcp/files/dhcp-3.0-fix-perms.patch | 15 +
108 net-misc/dhcp/files/dhcp-3.0-paranoia.patch | 207 +
109 net-misc/dhcp/files/dhcp-3.0.2-gmake.patch | 66 +
110 net-misc/dhcp/files/dhcp-3.0.3-dhclient-dbus.patch | 84 +
111 .../dhcp/files/dhcp-3.0.3-dhclient-hostname.patch | 16 +
112 .../dhcp/files/dhcp-3.0.3-dhclient-metric.patch | 200 +
113 net-misc/dhcp/files/dhcp-3.0.3-dhclient-mtu.patch | 180 +
114 .../dhcp/files/dhcp-3.0.3-dhclient-no-down.patch | 70 +
115 net-misc/dhcp/files/dhcp-3.0.3-dhclient-ntp.patch | 186 +
116 net-misc/dhcp/files/dhcp-3.0.3-libdst.patch | 14 +
117 net-misc/dhcp/files/dhcp-3.0.3-no_isc_blurb.patch | 105 +
118 .../files/dhcp-3.0.4-dhclient-stdin-conf.patch | 83 +
119 .../dhcp/files/dhcp-3.0.5-bpf-nofallback.patch | 44 +
120 .../files/dhcp-3.1.0a1-dhclient-resolvconf.patch | 254 +
121 .../dhcp/files/dhcp-3.1.2_p1-CVE-2009-1892.patch | 12 +
122 .../dhcp/files/dhcp-3.1.3-dhclient-no-down.patch | 77 +
123 net-misc/dhcp/files/dhcp-4.0-dhclient-ntp.patch | 216 +
124 .../files/dhcp-4.0.1-dhclient-stdin-conf.patch | 114 +
125 .../dhcp/files/dhcp-4.2.0-errwarn-message.patch | 31 +
126 net-misc/dhcp/files/dhcp-4.2.0-improved-xid.patch | 138 +
127 net-misc/dhcp/files/dhcp-4.2.0-lpf-ib.patch | 538 ++
128 net-misc/dhcp/files/dhcp-4.2.0-options.patch | 401 +
129 net-misc/dhcp/files/dhcp-4.2.0-xen-checksum.patch | 245 +
130 .../files/dhcp-4.2.1-dhclient-resolvconf.patch | 384 +
131 net-misc/dhcp/files/dhcp-4.2.1-nogateway.patch | 46 +
132 net-misc/dhcp/files/dhcpd.conf | 29 +
133 net-misc/dhcp/files/dhcpd.init2 | 94 +
134 net-misc/dhcp/files/dhcpd.init3 | 94 +
135 net-misc/dhcp/files/dhcrelay.conf | 13 +
136 net-misc/dhcp/files/dhcrelay.init | 32 +
137 net-misc/dhcp/files/dhcrelay.init2 | 29 +
138 net-misc/dhcp/metadata.xml | 12 +
139 perl-core/encoding-warnings/ChangeLog | 5 +-
140 perl-core/encoding-warnings/Manifest | 14 +-
141 .../encoding-warnings-0.11.ebuild | 3 +-
142 profiles/package.mask | 85 +-
143 sci-astronomy/casacore/ChangeLog | 7 +
144 sci-astronomy/casacore/Manifest | 13 +-
145 .../casacore/casacore-1.2.20110516.ebuild | 2 +-
146 sci-astronomy/eye/ChangeLog | 5 +-
147 sci-astronomy/eye/Manifest | 14 +-
148 sci-astronomy/eye/eye-1.4.1.ebuild | 4 +-
149 sci-astronomy/missfits/ChangeLog | 6 +-
150 sci-astronomy/missfits/Manifest | 16 +-
151 sci-astronomy/missfits/metadata.xml | 7 +-
152 sci-astronomy/missfits/missfits-2.4.0.ebuild | 17 +-
153 sci-astronomy/psfex/Manifest | 10 +-
154 sci-astronomy/psfex/psfex-3.9.1.ebuild | 2 +-
155 sci-astronomy/skymaker/Manifest | 12 +-
156 sci-astronomy/skymaker/skymaker-3.3.3.ebuild | 2 +-
157 sci-astronomy/stuff/Manifest | 12 +-
158 sci-astronomy/stuff/stuff-1.19.ebuild | 2 +-
159 sci-astronomy/weightwatcher/ChangeLog | 6 +-
160 sci-astronomy/weightwatcher/Manifest | 15 +-
161 sci-astronomy/weightwatcher/metadata.xml | 4 +-
162 .../weightwatcher/weightwatcher-1.8.10.ebuild | 17 +-
163 sci-biology/OBO-Edit/ChangeLog | 7 +
164 sci-biology/OBO-Edit/Manifest | 13 +-
165 sci-biology/OBO-Edit/OBO-Edit-2.1_beta8.ebuild | 23 +-
166 sci-biology/ONTO-PERL/ChangeLog | 7 +
167 sci-biology/ONTO-PERL/Manifest | 13 +-
168 sci-biology/ONTO-PERL/ONTO-PERL-1.31.ebuild | 9 +-
169 sci-biology/amos/Manifest | 13 +-
170 sci-biology/apollo/Manifest | 12 +-
171 sci-biology/argo-bin/ChangeLog | 7 +
172 sci-biology/argo-bin/Manifest | 15 +-
173 sci-biology/argo-bin/argo-bin-1.0.31.ebuild | 11 +-
174 sci-biology/argo/Manifest | 14 +-
175 sci-biology/argo/argo-1.0.24.ebuild | 11 +-
176 sci-biology/autoeditor/ChangeLog | 7 +
177 sci-biology/autoeditor/Manifest | 15 +-
178 sci-biology/autoeditor/autoeditor-1.20.ebuild | 25 +-
179 sci-biology/bamtools/ChangeLog | 7 +
180 sci-biology/bamtools/Manifest | 15 +-
181 sci-biology/bamtools/bamtools-9999.ebuild | 4 +-
182 sci-biology/bedtools/ChangeLog | 7 +
183 sci-biology/bedtools/Manifest | 15 +-
184 sci-biology/bedtools/bedtools-2.10.1.ebuild | 18 +-
185 sci-biology/caftools/Manifest | 12 +-
186 sci-biology/cap3-bin/Manifest | 14 +-
187 sci-biology/cap3-bin/cap3-bin-20071221.ebuild | 26 +-
188 sci-biology/clover/Manifest | 42 +-
189 sci-biology/clover/clover-2010.02.19.ebuild | 2 +-
190 sci-biology/clover/metadata.xml | 3 +-
191 sci-biology/codonw/Manifest | 12 +-
192 sci-biology/codonw/codonw-1.4.4-r1.ebuild | 2 +-
193 sci-biology/consed/Manifest | 12 +-
194 sci-biology/consed/consed-20-r1.ebuild | 2 +-
195 sci-biology/dawg/ChangeLog | 5 +-
196 sci-biology/dawg/Manifest | 14 +-
197 sci-biology/dawg/metadata.xml | 2 +-
198 sci-biology/embassy-cbstools/ChangeLog | 4 +
199 sci-biology/embassy-cbstools/Manifest | 12 +-
200 .../embassy-cbstools-1.0.0-r2.ebuild | 2 +-
201 sci-biology/embassy-domainatrix/ChangeLog | 4 +
202 sci-biology/embassy-domainatrix/Manifest | 12 +-
203 .../embassy-domainatrix-0.1.0-r5.ebuild | 2 +-
204 sci-biology/embassy-domalign/ChangeLog | 4 +
205 sci-biology/embassy-domalign/Manifest | 12 +-
206 .../embassy-domalign-0.1.0-r5.ebuild | 2 +-
207 sci-biology/embassy-domsearch/ChangeLog | 4 +
208 sci-biology/embassy-domsearch/Manifest | 12 +-
209 .../embassy-domsearch-0.1.0-r5.ebuild | 2 +-
210 sci-biology/embassy-emnu/ChangeLog | 3 +
211 sci-biology/embassy-emnu/Manifest | 12 +-
212 .../embassy-emnu/embassy-emnu-1.05-r7.ebuild | 2 +-
213 sci-biology/embassy-esim4/ChangeLog | 3 +
214 sci-biology/embassy-esim4/Manifest | 12 +-
215 .../embassy-esim4/embassy-esim4-1.0.0-r7.ebuild | 2 +-
216 sci-biology/embassy-hmmer/ChangeLog | 3 +
217 sci-biology/embassy-hmmer/Manifest | 12 +-
218 .../embassy-hmmer/embassy-hmmer-2.3.2-r4.ebuild | 2 +-
219 sci-biology/embassy-iprscan/ChangeLog | 3 +
220 sci-biology/embassy-iprscan/Manifest | 12 +-
221 .../embassy-iprscan-4.3.1-r2.ebuild | 2 +-
222 sci-biology/embassy-memenew/ChangeLog | 3 +
223 sci-biology/embassy-memenew/Manifest | 12 +-
224 .../embassy-memenew-4.0.0-r1.ebuild | 2 +-
225 sci-biology/embassy-mira/ChangeLog | 3 +
226 sci-biology/embassy-mira/Manifest | 12 +-
227 .../embassy-mira/embassy-mira-2.8.2-r2.ebuild | 2 +-
228 sci-biology/embassy-mse/ChangeLog | 3 +
229 sci-biology/embassy-mse/Manifest | 12 +-
230 sci-biology/embassy-mse/embassy-mse-3.0.0.ebuild | 2 +-
231 sci-biology/embassy-phylipnew/ChangeLog | 3 +
232 sci-biology/embassy-phylipnew/Manifest | 12 +-
233 .../embassy-phylipnew-3.69.ebuild | 2 +-
234 sci-biology/embassy-signature/ChangeLog | 4 +
235 sci-biology/embassy-signature/Manifest | 12 +-
236 .../embassy-signature-0.1.0-r5.ebuild | 2 +-
237 sci-biology/embassy-structure/ChangeLog | 4 +
238 sci-biology/embassy-structure/Manifest | 12 +-
239 .../embassy-structure-0.1.0-r5.ebuild | 2 +-
240 sci-biology/embassy-topo/ChangeLog | 3 +
241 sci-biology/embassy-topo/Manifest | 12 +-
242 sci-biology/embassy-topo/embassy-topo-2.0.0.ebuild | 2 +-
243 sci-biology/embassy-vienna/ChangeLog | 3 +
244 sci-biology/embassy-vienna/Manifest | 12 +-
245 .../embassy-vienna/embassy-vienna-1.7.2-r2.ebuild | 2 +-
246 sci-biology/embassy/ChangeLog | 3 +
247 sci-biology/embassy/Manifest | 12 +-
248 sci-biology/embassy/embassy-6.3.1.ebuild | 2 +-
249 sci-biology/est2uni/Manifest | 16 +-
250 sci-biology/est2uni/est2uni-0.27.ebuild | 20 +-
251 sci-biology/estscan/ChangeLog | 12 +
252 sci-biology/estscan/Manifest | 15 +-
253 sci-biology/estscan/estscan-3.0.3.ebuild | 91 +-
254 sci-biology/estscan/metadata.xml | 1 +
255 sci-biology/gap2caf/Manifest | 12 +-
256 sci-biology/gap2caf/gap2caf-2.1.0.ebuild | 2 +-
257 sci-biology/gbrowse/ChangeLog | 17 +-
258 sci-biology/gbrowse/Manifest | 26 +-
259 .../gbrowse/files/GBrowseInstall.pm-2.26.patch | 72 -
260 ....pm-2.33.patch => GBrowseInstall.pm-2.38.patch} | 0
261 ...-disable-gbrowse_metadb_config.pl.pm-2.26.patch | 21 -
262 sci-biology/gbrowse/gbrowse-1.70.ebuild | 68 -
263 sci-biology/gbrowse/gbrowse-2.00.ebuild | 76 -
264 sci-biology/gbrowse/gbrowse-2.26.ebuild | 167 -
265 sci-biology/gbrowse/gbrowse-2.33.ebuild | 158 -
266 sci-biology/gbrowse/gbrowse-2.38.ebuild | 159 +
267 sci-biology/mira/Manifest | 7 +-
268 sci-biology/mira/files/libtool.m4.patch | 13 +
269 sci-biology/mira/mira-3.2.1-r2.ebuild | 1 +
270 sci-biology/mira/mira-3.2.1.17-r1.ebuild | 5 +-
271 sci-biology/mira/mira-3.2.1.18.ebuild | 58 +
272 sci-biology/mrbayes/ChangeLog | 6 +-
273 sci-biology/mrbayes/Manifest | 26 +-
274 sci-biology/mrbayes/metadata.xml | 4 +-
275 sci-biology/mrbayes/mrbayes-3.1.2-r1.ebuild | 15 +-
276 sci-biology/newbler/ChangeLog | 7 -
277 sci-biology/newbler/Manifest | 4 -
278 sci-biology/newbler/metadata.xml | 9 -
279 sci-biology/newbler/newbler-2.0.01.10.ebuild | 37 -
280 sci-biology/nrcl/ChangeLog | 14 +
281 sci-biology/nrcl/Manifest | 18 +-
282 sci-biology/nrcl/files/110625-build.patch | 48 +
283 sci-biology/nrcl/nrcl-0.1.ebuild | 39 -
284 sci-biology/nrcl/nrcl-110625.ebuild | 30 +
285 sci-biology/proda/ChangeLog | 5 +-
286 sci-biology/proda/Manifest | 14 +-
287 sci-biology/proda/metadata.xml | 2 +-
288 sci-biology/seqclean/ChangeLog | 10 +
289 sci-biology/seqclean/Manifest | 20 +-
290 .../seqclean/files/seqclean-110625-build.patch | 135 +
291 sci-biology/seqclean/seqclean-0.1.ebuild | 57 -
292 sci-biology/seqclean/seqclean-110625.ebuild | 54 +
293 sci-biology/sequin/ChangeLog | 5 +-
294 sci-biology/sequin/Manifest | 14 +-
295 sci-biology/sequin/metadata.xml | 2 +-
296 sci-biology/sff_dump/ChangeLog | 7 +
297 sci-biology/sff_dump/Manifest | 15 +-
298 sci-biology/sff_dump/sff_dump-1.04.ebuild | 26 +-
299 sci-biology/smalt-bin/ChangeLog | 7 +
300 sci-biology/smalt-bin/Manifest | 13 +-
301 sci-biology/smalt-bin/smalt-bin-0.5.1.ebuild | 26 +-
302 sci-biology/ssaha2-bin/ChangeLog | 7 +
303 sci-biology/ssaha2-bin/Manifest | 13 +-
304 sci-biology/ssaha2-bin/ssaha2-bin-2.5.3.ebuild | 41 +-
305 sci-biology/staden/ChangeLog | 16 +
306 sci-biology/staden/Manifest | 15 +-
307 sci-biology/staden/staden-2.0.0_beta8.ebuild | 53 +-
308 sci-biology/staden/staden-9999.ebuild | 54 +-
309 sci-biology/tablet-bin/Manifest | 12 +-
310 .../tablet-bin/tablet-bin-1.11.05.03.ebuild | 2 +-
311 sci-biology/tclust/ChangeLog | 10 +
312 sci-biology/tclust/Manifest | 18 +-
313 sci-biology/tclust/files/tclust-110625-build.patch | 43 +
314 sci-biology/tclust/tclust-0.1.ebuild | 39 -
315 sci-biology/tclust/tclust-110625.ebuild | 30 +
316 sci-biology/tigr-assembler/ChangeLog | 5 +-
317 sci-biology/tigr-assembler/Manifest | 16 +-
318 .../tigr-assembler/tigr-assembler-2.0.ebuild | 5 +-
319 sci-biology/tigr-foundation-libs/ChangeLog | 8 +
320 sci-biology/tigr-foundation-libs/Manifest | 15 +-
321 .../tigr-foundation-libs-2.0-r1.ebuild | 5 +-
322 sci-biology/wcd/ChangeLog | 10 +
323 sci-biology/wcd/Manifest | 17 +-
324 sci-biology/wcd/wcd-0.6.0.ebuild | 52 +
325 sci-biology/wcd/wcd-0.6.0_beta.ebuild | 47 -
326 sci-biology/zmsort/ChangeLog | 10 +
327 sci-biology/zmsort/Manifest | 18 +-
328 sci-biology/zmsort/files/zmsort-110625-build.patch | 41 +
329 sci-biology/zmsort/zmsort-0.1.ebuild | 40 -
330 sci-biology/zmsort/zmsort-110625.ebuild | 30 +
331 sci-chemistry/almost/Manifest | 12 +-
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333 sci-chemistry/almost/metadata.xml | 11 +-
334 sci-chemistry/ambertools/ChangeLog | 13 +
335 sci-chemistry/ambertools/Manifest | 20 +-
336 sci-chemistry/ambertools/ambertools-1.4.ebuild | 31 +-
337 sci-chemistry/ambertools/ambertools-1.5.ebuild | 31 +-
338 .../files/ambertools-1.4-bugfix_1-18.patch | 9025 --------------------
339 .../files/ambertools-1.5-bugfix_1-3.patch | 3831 ---------
340 sci-chemistry/avogadro/ChangeLog | 8 +
341 sci-chemistry/avogadro/Manifest | 23 +-
342 sci-chemistry/avogadro/avogadro-9999.ebuild | 20 +-
343 sci-chemistry/avogadro/metadata.xml | 16 +-
344 sci-chemistry/bist/Manifest | 20 +-
345 sci-chemistry/bist/bist-0.5.1-r1.ebuild | 18 +-
346 sci-chemistry/camshift/Manifest | 10 +-
347 sci-chemistry/camshift/camshift-1.35.0.ebuild | 2 +-
348 sci-chemistry/chooch/Manifest | 22 +-
349 sci-chemistry/chooch/chooch-5.0.2-r1.ebuild | 2 +-
350 sci-chemistry/coot/ChangeLog | 5 +
351 sci-chemistry/coot/Manifest | 17 +-
352 sci-chemistry/coot/coot-9999.ebuild | 48 +-
353 sci-chemistry/coot/files/9999-clipper-config.patch | 17 +
354 sci-chemistry/coot/files/9999-mmdb-config.patch | 18 +
355 sci-chemistry/coot/files/9999-test.patch | 16 +
356 sci-chemistry/coot/metadata.xml | 8 +-
357 sci-chemistry/drawxtl/Manifest | 10 +-
358 sci-chemistry/drawxtl/drawxtl-44.ebuild | 2 +-
359 sci-chemistry/drawxtl/drawxtl-54.ebuild | 2 +-
360 sci-chemistry/gromacs/ChangeLog | 20 +
361 sci-chemistry/gromacs/Manifest | 22 +-
362 sci-chemistry/gromacs/gromacs-4.5.9999.ebuild | 118 +-
363 sci-chemistry/gromacs/gromacs-9999.ebuild | 7 +-
364 sci-chemistry/gromacs/metadata.xml | 7 +-
365 sci-chemistry/icm/ChangeLog | 3 +
366 sci-chemistry/icm/Manifest | 12 +-
367 sci-chemistry/icm/metadata.xml | 14 +-
368 sci-chemistry/jana2000/ChangeLog | 8 +-
369 sci-chemistry/jana2000/Manifest | 12 +-
370 sci-chemistry/jana2000/jana2000-20071218.ebuild | 27 +-
371 sci-chemistry/jligand/ChangeLog | 6 +
372 sci-chemistry/jligand/Manifest | 18 +-
373 sci-chemistry/jligand/jligand-0.1.ebuild | 40 -
374 sci-chemistry/jligand/jligand-1.0.19.ebuild | 37 +
375 sci-chemistry/jligand/jligand-1.0.7.ebuild | 37 -
376 sci-chemistry/jligand/metadata.xml | 8 +-
377 sci-chemistry/jmol/Manifest | 32 +-
378 .../files/{12.0.34 => 12.0.45}/jmol-manifest.patch | 0
379 .../files/{12.0.34 => 12.0.45}/jmol-nointl.patch | 0
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751 sys-infiniband/openib-perf/Manifest | 16 +-
752 sys-infiniband/openib-perf/metadata.xml | 4 +-
753 sys-infiniband/openib-perf/openib-perf-1.2.ebuild | 16 +-
754 sys-infiniband/openib-srptools/ChangeLog | 6 +-
755 sys-infiniband/openib-srptools/Manifest | 26 +-
756 sys-infiniband/openib-srptools/metadata.xml | 4 +-
757 .../openib-srptools/openib-srptools-1.1.ebuild | 26 +-
758 sys-infiniband/openib-userspace/Manifest | 18 +-
759 sys-infiniband/openib-userspace/metadata.xml | 15 +-
760 .../openib-userspace-1.2.5.1-r1.ebuild | 71 +-
761 .../openib-userspace-1.2.5.5.ebuild | 67 +-
762 .../openib-userspace/openib-userspace-1.2.ebuild | 69 +-
763 sys-infiniband/openib/Manifest | 16 +-
764 sys-infiniband/openib/metadata.xml | 14 +-
765 sys-infiniband/openib/openib-1.4.1.ebuild | 7 +-
766 sys-infiniband/openib/openib-1.4.ebuild | 7 +-
767 sys-kernel/cluster-sources/ChangeLog | 7 +
768 sys-kernel/cluster-sources/Manifest | 17 +
769 .../cluster-sources/cluster-sources-2.6.39.ebuild | 35 +
770 sys-kernel/cluster-sources/metadata.xml | 9 +
771 x11-libs/xview/ChangeLog | 5 +-
772 x11-libs/xview/Manifest | 12 +-
773 x11-libs/xview/metadata.xml | 11 +-
774 760 files changed, 10806 insertions(+), 19143 deletions(-)
775
776 diff --cc dev-java/jgraphx/ChangeLog
777 index db63fbc,db63fbc..6cc153d
778 --- a/dev-java/jgraphx/ChangeLog
779 +++ b/dev-java/jgraphx/ChangeLog
780 @@@ -1,7 -1,7 +1,13 @@@
781 # ChangeLog for dev-java/jgraphx
782 --# Copyright 1999-2010 Gentoo Foundation; Distributed under the GPL v2
783 ++# Copyright 1999-2011 Gentoo Foundation; Distributed under the GPL v2
784 # $Header: $
785
786 ++*jgraphx-1.4.1.0 (30 Jun 2011)
787 ++
788 ++ 30 Jun 2011; Guillaume Horel <guillaume.horel@×××××.com>
789 ++ +jgraphx-1.4.1.0.ebuild:
790 ++ Version 1.4.1.0 is specifically required by scilab
791 ++
792 *jgraphx-1.4.1.2 (06 Oct 2010)
793
794 06 Oct 2010; Thomas Kahle <tom111@×××.de> +jgraphx-1.4.1.2.ebuild:
795 diff --cc dev-java/jgraphx/jgraphx-1.4.1.0.ebuild
796 index 0000000,9fe1ad9..5813fb7
797 mode 000000,100644..100644
798 --- a/dev-java/jgraphx/jgraphx-1.4.1.0.ebuild
799 +++ b/dev-java/jgraphx/jgraphx-1.4.1.0.ebuild
800 @@@ -1,0 -1,42 +1,42 @@@
801 -# Copyright 1999-2010 Gentoo Foundation
802 ++# Copyright 1999-2011 Gentoo Foundation
803 + # Distributed under the terms of the GNU General Public License v2
804 + # $Header: $
805 +
806 + JAVA_PKG_IUSE="doc source"
807 + EAPI=2
808 + inherit java-pkg-2 java-ant-2 versionator
809 +
810 + MY_PV=$(replace_all_version_separators '_')
811 +
812 + DESCRIPTION="Open-source graph component for Java"
813 + SRC_URI="http://www.jgraph.com/downloads/jgraphx/archive/${PN}-${MY_PV}.zip\
814 + -> ${P}.zip"
815 + HOMEPAGE="http://www.jgraph.com"
816 + IUSE="doc examples source"
817 + DEPEND=">=virtual/jdk-1.5
818 + app-arch/unzip"
819 + RDEPEND=">=virtual/jre-1.5"
820 + LICENSE="as-is"
821 + SLOT="0"
822 + KEYWORDS="~amd64 ~x86"
823 +
824 + S="${WORKDIR}/${PN}"
825 +
826 + src_prepare() {
827 + # don't do javadoc always
828 + sed -i \
829 + -e 's/depends="doc"/depends="compile"/' \
830 + build.xml || die "sed failed"
831 + rm -rf doc/api lib/jgraphx.jar || die
832 + }
833 +
834 + EANT_BUILD_TARGET="build"
835 + EANT_DOC_TARGET="doc"
836 +
837 + src_install() {
838 + java-pkg_dojar lib/${PN}.jar
839 +
840 + use doc && java-pkg_dojavadoc docs/api
841 + use source && java-pkg_dosrc src/org
842 + use examples && java-pkg_doexamples examples
843 + }
844 diff --cc sci-mathematics/scilab/Manifest
845 index 2888885,bd21f5c..c20fba9
846 --- a/sci-mathematics/scilab/Manifest
847 +++ b/sci-mathematics/scilab/Manifest
848 @@@ -17,7 -17,7 +17,7 @@@ AUX scilab-5.3.2-scilib-fix.patch 368 R
849 AUX sparc64.diff 1011 RMD160 86849042292bcd7a195e6745bb06d84fbe4af3e5 SHA1 602a3e3a9c8551e043f66d1cf81dcdd3292b7f0e SHA256 1c309296a003edfbb917df3e2948df117bc02b79c421232e971d14a966a25af6
850 DIST scilab-5.2.1-src.tar.gz 54855137 RMD160 312ccc62f44bc3dbf8f25260a7090f62dc70818e SHA1 6fad986beb03a42cee6e8ef9bfa0b8976236b3f6 SHA256 f85aa3b7fde0e523f7f0159613da7cca7bd2d125860b50fa2ed00394c97075e0
851 DIST scilab-5.3.2-src.tar.gz 47356102 RMD160 18cff3bbf0dd7e901de8879355b243c4c16fe9fb SHA1 c0d7a7db6ea3a6a35722b451c6ef99b799079896 SHA256 6b33aace70b0889a71a417a28530ff58b96042ea35cb033c37bb1ac7c9a4ec15
852 - EBUILD scilab-5.2.1.ebuild 3626 RMD160 425cc158c8cce598e63b8fd3baeb3086e3672f96 SHA1 c9085fcd5f99fa7ea18483f4adcb8a60cb806863 SHA256 befb38c6998a6b44d2443d0dcbc6ab1d13da7d129f4676700bb789fe168ab896
853 - EBUILD scilab-5.3.2.ebuild 3437 RMD160 dbbe08c188945038c3f07cfff7e6533fe4547454 SHA1 cbaa22f8481955afb70bb89d4bf64029512490e6 SHA256 279d269f406cf73dc9ccd6456b36875ff929b12fcf16071659f929bfaab3a4b4
854 - MISC ChangeLog 2514 RMD160 045e14cc047c6e931fece9200e2bb9662e9a10a3 SHA1 636ed9672bc662ba7fa037b47c240dec4d67bfd9 SHA256 ecd7394bb0c46c79544ca6d8fe0d43c7b3e3e4e55045850a23f4b4710c639852
855 + EBUILD scilab-5.2.1.ebuild 3626 RMD160 e712ac5b2300982cc328523d7cbc5f10d8647c3b SHA1 315888f4e31bd868412a830da031117b65c6a542 SHA256 d9dc4d7085bff7953e854895ed24ce9573e1e744e6659284cad68f67d4c8025c
856 -EBUILD scilab-5.3.2.ebuild 3415 RMD160 6bc15d60faf34e6bc480267aaaa991995f24d0a6 SHA1 3a4df5ad24b3ada1fd37fd2a9f9f05b2601aa767 SHA256 fe35062efd4b020508c80f787622dda60def9f8183ae886020bfa7352629e57d
857 ++EBUILD scilab-5.3.2.ebuild 3431 RMD160 29eaca323817257ff15cfd1322502b31d4e95ea4 SHA1 2c98cda4bce89ab3e55fff02d24671f401f84c44 SHA256 76124c45f5b5e72c268acc42f65a55d2aef5fc537a25803368dcd491b885bf08
858 + MISC ChangeLog 2632 RMD160 1d85f0d807ba3405930c6d2ab47fc0d288d5ae8d SHA1 5b1261d3469dcc3eb817e920a16a3b8bfbb92b9e SHA256 01c833c3328e7b2376cef74575035f046582169b66eaed76caca9a126c7688b3
859 MISC metadata.xml 872 RMD160 aef8847644f734faba3b42b9028690664612c8e6 SHA1 4686ca608887e1d9fea6ee4e11f4aa54c8eff150 SHA256 43da74dcf0ae13eb0987c33f397a9b9d7abe187196107d50814a3104466b90ee
860 diff --cc sci-mathematics/scilab/scilab-5.3.2.ebuild
861 index 295c30f,1c3f40e..1a6db48
862 --- a/sci-mathematics/scilab/scilab-5.3.2.ebuild
863 +++ b/sci-mathematics/scilab/scilab-5.3.2.ebuild
864 @@@ -29,7 -28,7 +29,7 @@@ RDEPEND="virtual/lapac
865 >=dev-java/flexdock-0.5.2
866 >=dev-java/jeuclid-core-3.1
867 >=dev-java/jlatexmath-0.9.4
868 -- =dev-java/jgraphx-1.4.1*
869 ++ =dev-java/jgraphx-1.4.1.0
870 dev-java/jogl
871 dev-java/jgoodies-looks
872 dev-java/jrosetta
873 @@@ -101,7 -100,7 +101,7 @@@ src_configure()
874 $(use_with matio) \
875 $(use_with umfpack) \
876 $(use_with tk) \
877 -- $(use_with xcos scicos) \
878 ++ $(use_with xcos) \
879 ${myopts}
880 }