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* sci-biology/tree-puzzle: Mask stupid test, which fails due to precision ↵Justin Lecher2012-08-014-11/+39
| | | | | | reached depending on optimization used at compile time, #297646; fix move to EAPI=4, #429354 Package-Manager: portage-2.2.0_alpha120/cvs/Linux x86_64
* sci-biology/finchtv: Use QA_PREBUILT for binary packagesJustin Lecher2012-07-244-20/+26
| | | | Package-Manager: portage-2.2.0_alpha120/cvs/Linux x86_64
* Remove packagePacho Ramos2012-07-214-118/+0
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* sci-biology/primer3: Version BUmpJustin Lecher2012-07-194-19/+84
| | | | Package-Manager: portage-2.2.0_alpha120/cvs/Linux x86_64
* sci-biology/tophat: Version BUmp; do parallel builds; handle debug buildJustin Lecher2012-07-196-26/+190
| | | | Package-Manager: portage-2.2.0_alpha120/cvs/Linux x86_64
* sci-biology/vcftools: Version BUmp, fix build systemJustin Lecher2012-07-194-10/+117
| | | | Package-Manager: portage-2.2.0_alpha120/cvs/Linux x86_64
* sci-biology/goby-cpp: Version Bump, handle static-libsJustin Lecher2012-07-193-12/+52
| | | | Package-Manager: portage-2.2.0_alpha120/cvs/Linux x86_64
* Fix broken Manifest entry for infernal-1.0.2-perl-5.16.patch.Zac Medico2012-07-161-5/+4
| | | | | Package-Manager: portage-2.2.0_alpha118/cvs/Linux i686 Manifest-Sign-Key: 0xAE5719A3
* sci-biology/infernal: Cleaned oldJustin Lecher2012-07-153-36/+8
| | | | Package-Manager: portage-2.2.0_alpha118/cvs/Linux x86_64
* sci-biology/infernal: Fix cvs updates of commiter names in patches, #426588Justin Lecher2012-07-153-21/+29
| | | | Package-Manager: portage-2.2.0_alpha118/cvs/Linux x86_64
* sci-biology/psipred: Cleaned SRC_URIJustin Lecher2012-07-113-9/+22
| | | | Package-Manager: portage-2.2.0_alpha116/cvs/Linux x86_64
* add missing test to IUSEMichael Sterrett2012-07-114-19/+12
| | | | Package-Manager: portage-2.1.10.65/cvs/Linux x86_64
* sci-biology/psipred: Version BumpJustin Lecher2012-07-105-29/+96
| | | | Package-Manager: portage-2.2.0_alpha116/cvs/Linux x86_64
* sci-biology/vienna-rna: Cleaned oldJustin Lecher2012-07-105-167/+21
| | | | Package-Manager: portage-2.2.0_alpha116/cvs/Linux x86_64
* Marking vienna-rna-1.8.5 ppc for bug 393867Brent Baude2012-07-103-17/+20
| | | | Package-Manager: portage-2.1.10.65/cvs/Linux ppc64
* sci-biology/allpathslg: Version bump, fix compilation errors with gcc-4.7, ↵Justin Lecher2012-07-093-12/+54
| | | | | | #425472 Package-Manager: portage-2.2.0_alpha116/cvs/Linux x86_64
* sci-biology/mira: Drop oldJustin Lecher2012-07-084-113/+22
| | | | Package-Manager: portage-2.2.0_alpha116/cvs/Linux x86_64
* sci-biology/amos: Add fix for gcc-4.7, #425264; cleaned oldJustin Lecher2012-07-088-234/+43
| | | | Package-Manager: portage-2.2.0_alpha116/cvs/Linux x86_64
* sci-biology/seaview: Version Bump imported from sci overlay, prepared by ↵Justin Lecher2012-07-043-12/+92
| | | | | | Martin Mokrejs, #351005; fixes also compilation with gcc47, #424727 Package-Manager: portage-2.2.0_alpha115/cvs/Linux x86_64
* sci-biology/plink: Moved to EAPI=4, add fix for building with gcc-4.7, #424709Justin Lecher2012-07-044-16/+97
| | | | Package-Manager: portage-2.2.0_alpha115/cvs/Linux x86_64
* sci-biology/hmmer: Fix the patch, thanks xarthisius and bonsaikitten for helpJustin Lecher2012-06-283-136/+8
| | | | Package-Manager: portage-2.2.0_alpha114/cvs/Linux x86_64
* next patchJustin Lecher2012-06-281-0/+132
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* next tryJustin Lecher2012-06-282-11/+11
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* Plain patchJustin Lecher2012-06-281-5/+5
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* Fix patchJustin Lecher2012-06-283-15/+11
| | | | Package-Manager: portage-2.2.0_alpha114/cvs/Linux x86_64
* fix patch againJustin Lecher2012-06-283-11/+15
| | | | Package-Manager: portage-2.2.0_alpha114/cvs/Linux x86_64
* sci-biology/hmmer: Fix patch, screwed VCS tags, #423983Justin Lecher2012-06-283-13/+20
| | | | Package-Manager: portage-2.2.0_alpha114/cvs/Linux x86_64
* whitespaceMichael Sterrett2012-06-252-3/+3
| | | | Package-Manager: portage-2.1.10.49/cvs/Linux x86_64
* marked x86 per bug 418439Jeff Horelick2012-06-253-19/+8
| | | | Package-Manager: portage-2.2.0_alpha112/cvs/Linux i686
* sci-biology/vaal: Version BumpJustin Lecher2012-06-253-5/+54
| | | | Package-Manager: portage-2.2.0_alpha112/cvs/Linux x86_64
* sci-biology/vaal: Drop old, #309127; Handle openmp, don't install licenseJustin Lecher2012-06-255-73/+38
| | | | Package-Manager: portage-2.2.0_alpha112/cvs/Linux x86_64
* Fix building with gcc-4.7 wrt #423497 by Diego Elio Pettenò ↵Kacper Kowalik2012-06-255-24/+185
| | | | | | <flameeyes@gentoo.org>, drop -O3 -ggdb from CXXFLAGS Package-Manager: portage-2.2.0_alpha110/cvs/Linux x86_64
* sci-biology/infernal: Fix for perl-5.16, #422561; move to EAPI=4Justin Lecher2012-06-254-27/+167
| | | | Package-Manager: portage-2.2.0_alpha110/cvs/Linux x86_64
* sci-biology/hmmer: Fix for build with perl-5.16, #421799; handle static-libsJustin Lecher2012-06-255-26/+165
| | | | Package-Manager: portage-2.2.0_alpha110/cvs/Linux x86_64
* Stable for amd64, wrt bug #418439Agostino Sarubbo2012-06-243-19/+16
| | | | Package-Manager: portage-2.1.10.65/cvs/Linux x86_64
* Don't install docs that are no longer there, thanks to David Abbott for the ↵Kacper Kowalik2012-06-233-21/+40
| | | | | | patch Package-Manager: portage-2.2.0_alpha110/cvs/Linux x86_64
* sci-biology/bioperl-db: Add missing DEP on dev-perl/DBD-mysql, #422999Justin Lecher2012-06-233-12/+18
| | | | Package-Manager: portage-2.2.0_alpha110/cvs/Linux x86_64
* sci-biology/maq: Add patch for gcc-4.7, #422869Justin Lecher2012-06-234-11/+52
| | | | Package-Manager: portage-2.2.0_alpha110/cvs/Linux x86_64
* sci-biology/last: Version BUmp, allows to compile with gcc-4.7, #422573Justin Lecher2012-06-203-6/+54
| | | | Package-Manager: portage-2.2.0_alpha110/cvs/Linux x86_64
* sci-biology/prank: Fix compilation with gcc-4.7, #422581Justin Lecher2012-06-205-21/+52
| | | | Package-Manager: portage-2.2.0_alpha110/cvs/Linux x86_64
* sci-biology/abyss: Fix compilation with gcc-4.7, #422599; install docs ↵Justin Lecher2012-06-207-13/+96
| | | | | | inside /usr/share/doc/, #297205 Package-Manager: portage-2.2.0_alpha110/cvs/Linux x86_64
* sci-biology/cd-hit: Version Bump, which fixes compilation problems with gcc ↵Justin Lecher2012-06-207-22/+193
| | | | | | 4.7, #422569; add missing eutils.eclass Package-Manager: portage-2.2.0_alpha110/cvs/Linux x86_64
* sci-biology/bowtie: Version Bump, Fix compilation with gcc-4.7, #421919Justin Lecher2012-06-194-8/+107
| | | | Package-Manager: portage-2.2.0_alpha110/cvs/Linux x86_64
* sci-biology/ariadne: Correct deps, bump EAPI, handle static-libsJustin Lecher2012-06-144-25/+30
| | | | Package-Manager: portage-2.2.0_alpha110/cvs/Linux x86_64
* sci-biology/ncbi-tools: Change Version numbers from x to 0.x in order to be ↵Justin Lecher2012-06-134-43/+259
| | | | | | | able to follow upstream new versioning scheme; Drop old unstable Package-Manager: portage-2.2.0_alpha110/cvs/Linux x86_64 RepoMan-Options: --force
* sci-biology/clustalx: Cleaned oldJustin Lecher2012-06-133-13/+13
| | | | Package-Manager: portage-2.2.0_alpha110/cvs/Linux x86_64
* Remove old wrt bug #311481.Johannes Huber2012-06-133-56/+12
| | | | Package-Manager: portage-2.2.0_alpha110/cvs/Linux x86_64
* Stable for x86, wrt bug #416891Johannes Huber2012-06-132-20/+20
| | | | | Package-Manager: portage-2.2.0_alpha110/cvs/Linux x86_64 Manifest-Sign-Key: 0xF3CFD2BD
* Stable for x86, wrt bug #416891Johannes Huber2012-06-134-6/+12
| | | | Package-Manager: portage-2.2.0_alpha110/cvs/Linux x86_64
* Stable for amd64, wrt bug #416891Agostino Sarubbo2012-06-042-34/+22
| | | | | Package-Manager: portage-2.1.10.49/cvs/Linux x86_64 Manifest-Sign-Key: 0x7CD2DC5D