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(Postfix) with ESMTP id CB8261107B for ; Wed, 4 Feb 2015 08:37:07 +0000 (UTC) From: "Justin Lecher" To: gentoo-commits@lists.gentoo.org Content-Transfer-Encoding: 8bit Content-type: text/plain; charset=UTF-8 Reply-To: gentoo-dev@lists.gentoo.org, "Justin Lecher" Message-ID: <1423039010.7a4cef5af00c759a893ac46a71e11142e88515b1.jlec@gentoo> Subject: [gentoo-commits] proj/sci:master commit in: / X-VCS-Repository: proj/sci X-VCS-Committer: jlec X-VCS-Committer-Name: Justin Lecher X-VCS-Revision: 7a4cef5af00c759a893ac46a71e11142e88515b1 X-VCS-Branch: master Date: Wed, 4 Feb 2015 08:37:07 +0000 (UTC) Precedence: bulk List-Post: List-Help: List-Unsubscribe: List-Subscribe: List-Id: Gentoo Linux mail X-BeenThere: gentoo-commits@lists.gentoo.org X-Archives-Salt: 94386c69-65c1-401d-a8e2-cb72b8676477 X-Archives-Hash: 9e4acf337d827e70cd3e27d6b0be29ff commit: 7a4cef5af00c759a893ac46a71e11142e88515b1 Author: Justin Lecher gentoo org> AuthorDate: Wed Feb 4 08:36:50 2015 +0000 Commit: Justin Lecher gentoo org> CommitDate: Wed Feb 4 08:36:50 2015 +0000 URL: http://sources.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=7a4cef5a Merge branch 'SoapZaNet-master' * SoapZaNet-master: (34 commits) sci-biology/embassy-meme: Bump eclass, Drop old empty package empty package sci-biology/embassy-mse: Bump eclass, drop old sci-biology/embassy-iprscan: Bump eclass, Drop old sci-biology/embassy-phylipnew: Bump eclass, drop old sci-biology/embassy-hmmer: Bump eclass, Drop old sci-biology/embassy-signature: Bump eclass, drop old sci-biology/embassy-esim4: Bump eclass, Drop old sci-biology/embassy-structure: Bump eclass, drop old sci-biology/embassy-emnu: Bump eclass, Drop old sci-biology/embassy-topo: Bump eclass, drop old sci-biology/embassy-domsearch: Bump eclass, Drop old sci-biology/embassy-vienna: Bump eclass, drop old sci-biology/embassy-domalign: Bump eclass, Drop old sci-biology/embassy-domainatrix: Bump eclass, Drop old sci-biology/embassy-clustalomega: Bump eclass sci-biology/embassy-cbstools: Bump eclass, Drop old sci-biology/embassy: Drop old sci-biology/emboss: Drop old ... eclass/{emboss.eclass => emboss-r1.eclass} | 89 ++--- profiles/package.mask | 35 +- sci-biology/embassy-cbstools/ChangeLog | 7 +- sci-biology/embassy-cbstools/Manifest | 2 +- ...r3.ebuild => embassy-cbstools-1.0.0.650.ebuild} | 6 +- .../files/embassy-cbstools-1.0.0-r2.patch | 347 ------------------ ...bassy-cbstools-1.0.0.650_fix-build-system.patch | 97 +++++ sci-biology/embassy-cbstools/metadata.xml | 2 +- .../ChangeLog | 8 +- sci-biology/embassy-clustalomega/Manifest | 1 + .../embassy-clustalomega-1.1.0.ebuild | 13 + ...bassy-clustalomega-1.1.0_fix-build-system.patch | 90 +++++ .../{trf => embassy-clustalomega}/metadata.xml | 0 sci-biology/embassy-domainatrix/ChangeLog | 7 +- sci-biology/embassy-domainatrix/Manifest | 2 +- ...6.ebuild => embassy-domainatrix-0.1.650.ebuild} | 6 +- .../files/embassy-domainatrix-0.1.0-r5.patch | 346 ------------------ ...assy-domainatrix-0.1.650_fix-build-system.patch | 91 +++++ sci-biology/embassy-domainatrix/metadata.xml | 2 +- sci-biology/embassy-domalign/ChangeLog | 7 +- sci-biology/embassy-domalign/Manifest | 2 +- ...0-r5.ebuild => embassy-domalign-0.1.650.ebuild} | 6 +- .../files/embassy-domalign-0.1.0-r5.patch | 346 ------------------ ...embassy-domalign-0.1.650_fix-build-system.patch | 92 +++++ sci-biology/embassy-domalign/metadata.xml | 2 +- sci-biology/embassy-domsearch/ChangeLog | 7 +- sci-biology/embassy-domsearch/Manifest | 2 +- ...-r5.ebuild => embassy-domsearch-0.1.650.ebuild} | 6 +- .../files/embassy-domsearch-0.1.0-r5.patch | 346 ------------------ ...mbassy-domsearch-0.1.650_fix-build-system.patch | 91 +++++ sci-biology/embassy-domsearch/metadata.xml | 2 +- sci-biology/embassy-emnu/ChangeLog | 7 +- sci-biology/embassy-emnu/Manifest | 2 +- ...1.05-r7.ebuild => embassy-emnu-1.05.650.ebuild} | 8 +- .../embassy-emnu/files/embassy-emnu-1.05-r7.patch | 359 ------------------- .../embassy-emnu-1.05.650_fix-build-system.patch | 127 +++++++ sci-biology/embassy-emnu/metadata.xml | 2 +- sci-biology/embassy-esim4/ChangeLog | 7 +- sci-biology/embassy-esim4/Manifest | 2 +- ....0-r7.ebuild => embassy-esim4-1.0.0.650.ebuild} | 6 +- .../files/embassy-esim4-1.0.0-r7.patch | 345 ------------------ .../embassy-esim4-1.0.0.650_fix-build-system.patch | 97 +++++ sci-biology/embassy-esim4/metadata.xml | 2 +- sci-biology/embassy-hmmer/ChangeLog | 7 +- sci-biology/embassy-hmmer/Manifest | 2 +- ....2-r4.ebuild => embassy-hmmer-2.3.2.650.ebuild} | 8 +- .../files/embassy-hmmer-2.3.2-r4.patch | 346 ------------------ .../embassy-hmmer-2.3.2.650_fix-build-system.patch | 90 +++++ sci-biology/embassy-hmmer/metadata.xml | 2 +- sci-biology/embassy-iprscan/ChangeLog | 7 +- sci-biology/embassy-iprscan/Manifest | 2 +- ...-r2.ebuild => embassy-iprscan-4.3.1.650.ebuild} | 6 +- .../files/embassy-iprscan-4.3.1-r2.patch | 349 ------------------ ...mbassy-iprscan-4.3.1.650_fix-build-system.patch | 97 +++++ sci-biology/embassy-iprscan/metadata.xml | 2 +- .../{embassy-memenew => embassy-meme}/ChangeLog | 8 +- sci-biology/embassy-meme/Manifest | 1 + .../embassy-meme/embassy-meme-4.7.650.ebuild | 13 + .../embassy-meme-4.7.650_fix-build-system.patch | 90 +++++ sci-biology/{trf => embassy-meme}/metadata.xml | 0 .../files/embassy-memenew-4.0.0-r1.patch | 346 ------------------ sci-biology/embassy-memenew/metadata.xml | 5 - sci-biology/embassy-mira/ChangeLog | 50 --- .../embassy-mira/files/embassy-mira-2.8.2-r2.patch | 345 ------------------ sci-biology/embassy-mira/metadata.xml | 5 - sci-biology/embassy-mse/ChangeLog | 6 +- sci-biology/embassy-mse/Manifest | 2 +- ...e-3.0.0.ebuild => embassy-mse-3.0.0.650.ebuild} | 12 +- .../embassy-mse-3.0.0.650_fix-build-system.patch | 133 +++++++ .../embassy-mse/files/embassy-mse-3.0.0.patch | 398 --------------------- sci-biology/embassy-mse/metadata.xml | 2 +- sci-biology/embassy-phylipnew/ChangeLog | 7 +- sci-biology/embassy-phylipnew/Manifest | 2 +- ...69.ebuild => embassy-phylipnew-3.69.650.ebuild} | 6 +- ...bassy-phylipnew-3.69.650_fix-build-system.patch | 98 +++++ .../files/embassy-phylipnew-3.69.patch | 346 ------------------ sci-biology/embassy-phylipnew/metadata.xml | 2 +- sci-biology/embassy-signature/ChangeLog | 7 +- sci-biology/embassy-signature/Manifest | 2 +- ...-r5.ebuild => embassy-signature-0.1.650.ebuild} | 6 +- .../files/embassy-signature-0.1.0-r5.patch | 346 ------------------ ...mbassy-signature-0.1.650_fix-build-system.patch | 90 +++++ sci-biology/embassy-signature/metadata.xml | 2 +- sci-biology/embassy-structure/ChangeLog | 7 +- sci-biology/embassy-structure/Manifest | 2 +- ...-r5.ebuild => embassy-structure-0.1.650.ebuild} | 6 +- .../files/embassy-structure-0.1.0-r5.patch | 347 ------------------ ...mbassy-structure-0.1.650_fix-build-system.patch | 90 +++++ sci-biology/embassy-structure/metadata.xml | 2 +- sci-biology/embassy-topo/ChangeLog | 6 +- sci-biology/embassy-topo/Manifest | 2 +- ...po-2.0.0.ebuild => embassy-topo-2.0.650.ebuild} | 6 +- .../embassy-topo/files/embassy-topo-2.0.0.patch | 346 ------------------ .../embassy-topo-2.0.650_fix-build-system.patch | 97 +++++ sci-biology/embassy-topo/metadata.xml | 2 +- sci-biology/embassy-vienna/ChangeLog | 7 +- sci-biology/embassy-vienna/Manifest | 2 +- ...2-r2.ebuild => embassy-vienna-1.7.2.650.ebuild} | 6 +- .../files/embassy-vienna-1.7.2-r2.patch | 355 ------------------ ...embassy-vienna-1.7.2.650_fix-build-system.patch | 98 +++++ sci-biology/embassy-vienna/metadata.xml | 2 +- sci-biology/embassy/ChangeLog | 6 +- sci-biology/embassy/embassy-6.3.1.ebuild | 43 --- sci-biology/embassy/embassy-6.6.0.ebuild | 30 ++ sci-biology/embassy/metadata.xml | 2 +- sci-biology/emboss/ChangeLog | 8 +- sci-biology/emboss/Manifest | 4 - sci-biology/emboss/emboss-6.3.1_p4-r2.ebuild | 94 ----- sci-biology/emboss/emboss-6.5.7.ebuild | 79 ---- sci-biology/emboss/emboss-6.6.0.ebuild | 62 +--- .../{emboss-README.Gentoo-2 => README.gentoo} | 4 +- sci-biology/emboss/files/ax_lib_mysql.m4 | 147 -------- .../emboss/files/emboss-6.3.1_p4-r2_Makefile.patch | 47 --- .../emboss-6.3.1_p4-r2_compilations-paths.patch | 315 ---------------- .../emboss/files/emboss-6.3.1_p4-r2_libtool.patch | 18 - .../emboss/files/emboss-6.3.1_p4-r2_plcol.patch | 112 ------ ...mboss-6.3.1_p4-r2_rename_plwid_to_plwidth.patch | 13 - .../files/emboss-6.6.0_FORTIFY_SOURCE-fix.patch | 11 + .../files/emboss-6.6.0_fix-build-system.patch | 368 +++++++++++++++++++ sci-biology/emboss/files/emboss-6.6.0_plcol.patch | 112 ------ .../files/emboss-6.6.0_plplot-declarations.patch | 61 ++++ .../emboss-6.6.0_qa-implicit-declarations.patch | 74 ++++ sci-biology/emboss/metadata.xml | 4 +- sci-biology/fastdnaml/fastdnaml-1.2.2_p10.ebuild | 2 +- .../fastx_toolkit/fastx_toolkit-0.0.14.ebuild | 11 + 125 files changed, 2422 insertions(+), 6860 deletions(-)