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* sci-biology/foldingathome: use #!/sbin/openrc-run instead of #!/sbin/runscriptAustin English2016-05-18
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* sci-biology/abyss: add missing dev-libs/boost dependencySergei Trofimovich2016-05-15
| | | | Package-Manager: portage-2.2.28
* sci-biology/vienna-rna: Fix QA MissingSlotDepDavid Seifert2016-05-15
| | | | Package-Manager: portage-2.2.28
* sci-biology/vienna-rna: Fix QA MissingSlotDepDavid Seifert2016-05-15
| | | | Package-Manager: portage-2.2.28
* sci-biology/mrbayes: Fix QA MissingSlotDepDavid Seifert2016-05-15
| | | | Package-Manager: portage-2.2.28
* sci-biology/bwa: Version bumpDavid Seifert2016-05-08
| | | | Package-Manager: portage-2.2.28
* sci-biology/allpathslg: replace isnan macro with proper std::isnan functionDavid Seifert2016-05-05
| | | | | | Gentoo-Bug: 580086 Package-Manager: portage-2.2.28
* sci-biology/bioperl: Fix dependency on dev-perl/YAMLKent Fredric2016-04-29
| | | | | Package-Manager: portage-2.2.28 RepoMan-Options: --include-arches="alpha amd64 amd64-fbsd arm arm64 hppa ia64 m68k mips nios2 ppc ppc64 riscv s390 sh sparc sparc-fbsd x86 x86-fbsd"
* sci-biology/emboss: Clean up of files dirJustin Lecher2016-04-26
| | | | | | | | | Move to readme.gentoo-r1.eclass Gentoo-Bug: https://bugs.gentoo.org/show_bug.cgi?id=579728 Package-Manager: portage-2.2.28 Signed-off-by: Justin Lecher <jlec@gentoo.org>
* sci-biology/hmmer: cheamup of 2.3.2 versionIan Stakenvicius2016-04-19
| | | | | | | | | * Bumped EAPI * Merged KEYWORDS between 2.3.2-r1 and 2.3.2-r2 * dropped IUSE="pvm" as package was dropped 5 years ago * fixed metadata.xml to match Package-Manager: portage-2.2.26
* sci-biology/bioperl: Fix dependency on dev-perl/Set-ScalarKent Fredric2016-04-15
| | | | | Package-Manager: portage-2.2.28 RepoMan-Options: --include-arches="amd64 amd64-fbsd arm arm64 mips nios2 ppc ppc64 riscv s390 sh sparc-fbsd"
* sci-biology/goby: Clean up old.Patrice Clement2016-04-15
| | | | Package-Manager: portage-2.2.26
* sci-biology/goby: Bump fastutil dependency SLOT to 0.Patrice Clement2016-04-15
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* sci-biology/bowtie: Version bump to 2.2.8David Seifert2016-04-10
| | | | | | * EAPI=6 Package-Manager: portage-2.2.28
* sci-biology/samtools: Remove lua dep, fix perl shebangsDavid Seifert2016-04-10
| | | | Package-Manager: portage-2.2.28
* sci-biology/pysam: Remove oldDavid Seifert2016-04-10
| | | | Package-Manager: portage-2.2.28
* sci-biology/pysam: Version bump, add py3 supportDavid Seifert2016-04-10
| | | | Package-Manager: portage-2.2.28
* sci-biology/samtools: Remove lua dep, fix perl shebangsDavid Seifert2016-04-09
| | | | Package-Manager: portage-2.2.28
* sci-biology/seqan: Remove old and broken ebuildsDavid Seifert2016-04-09
| | | | Package-Manager: portage-2.2.28
* sci-biology/tophat: Remove old and brokenDavid Seifert2016-04-09
| | | | Package-Manager: portage-2.2.28
* sci-biology/tophat: Version bump, use samtools:0.1-legacyDavid Seifert2016-04-09
| | | | | | | | | Gentoo-Bug: 545154, 546816, 566494, 572054 * EAPI=6 * Unbundle samtools and SeqAn * Fix broken shebangs in python scripts Package-Manager: portage-2.2.28
* sci-biology/bowtie: unbundle SeqAn, import Debian patchesDavid Seifert2016-04-09
| | | | | | * EAPI=6 Package-Manager: portage-2.2.28
* sci-biology/seqan: SLOT 1.4 and 2.1, allow for parallel installationDavid Seifert2016-04-09
| | | | | | | Gentoo-Bug: 566502 * EAPI=6 Package-Manager: portage-2.2.28
* sci-biology/readseq: Remove dead package, see bug #550148James Le Cuirot2016-04-03
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* sci-biology/abyss: Remove oldDavid Seifert2016-04-03
| | | | Package-Manager: portage-2.2.28
* sci-biology/abyss: Latest ebuild from science-overlayDavid Seifert2016-04-03
| | | | | | * EAPI=6 Package-Manager: portage-2.2.28
* sci-biology/cufflinks: Remove oldDavid Seifert2016-04-03
| | | | Package-Manager: portage-2.2.28
* sci-biology/cufflinks: Depend only on sci-biology/samtools:0.1-legacyDavid Seifert2016-04-03
| | | | | | | | | | Gentoo-Bug: 535716 * EAPI=6 * Updated boost in tree has fixed serialization for boost::shared_ptr * Build system is now orthogonal to sci-biology/samtools:0 and does not block updating to latest samtools Package-Manager: portage-2.2.28
* sci-biology/rebase: amd64/ppc/x86 stable, (ALLARCHES policy) wrt bug #578804Agostino Sarubbo2016-04-02
| | | | | Package-Manager: portage-2.2.26 Signed-off-by: Agostino Sarubbo <ago@gentoo.org>
* sci-biology/rebase: Version BumpJustin Lecher2016-04-02
| | | | | Package-Manager: portage-2.2.27 Signed-off-by: Justin Lecher <jlec@gentoo.org>
* sci-biology/samtools: version bump to 1.3, to match htslibDavid Seifert2016-03-28
| | | | | | | | * EAPI=6 * Added modern AX_WITH_CURSES that works with pkg-config * Fixed incorrect symlinks for libbam.so Package-Manager: portage-2.2.28
* sci-biology/samtools: Move to SLOT="0.1-legacy" for future legacy versionsDavid Seifert2016-03-28
| | | | Package-Manager: portage-2.2.28
* sci-biology/samtools: Add elog message discouraging direct useDavid Seifert2016-03-28
| | | | Package-Manager: portage-2.2.28
* sci-biology/samtools: Version bump to 0.1.20David Seifert2016-03-28
| | | | | | | | | * EAPI=6 * samtools will be slotted with SLOT="legacy", in order to be able to install applications that rely on the old monolithic library. Package-Manager: portage-2.2.28
* sci-biology/samtools: Trim DESCRIPTIONDavid Seifert2016-03-28
| | | | | | * Add sub-slot operator for 'sys-libs/ncurses' dependency Package-Manager: portage-2.2.28
* sci-biology/samtools: Trim DESCRIPTIONDavid Seifert2016-03-28
| | | | | | * Add sub-slot operator for 'sys-libs/ncurses' dependency Package-Manager: portage-2.2.28
* sci-biology/samtools: Trim DESCRIPTIONDavid Seifert2016-03-28
| | | | | | * Add sub-slot operator for 'sys-libs/ncurses' dependency Package-Manager: portage-2.2.28
* sci-biology/samtools: Trim DESCRIPTIONDavid Seifert2016-03-28
| | | | | | * Add sub-slot operator for 'sys-libs/ncurses' dependency Package-Manager: portage-2.2.28
* sci-biology/samtools: Trim DESCRIPTIONDavid Seifert2016-03-28
| | | | | | * Add sub-slot operator for 'sys-libs/ncurses' dependency Package-Manager: portage-2.2.28
* sci-biology/samtools: Trim DESCRIPTIONDavid Seifert2016-03-28
| | | | Package-Manager: portage-2.2.28
* sci-biology/biopython: Add python3_5 supportDavid Seifert2016-03-27
| | | | Package-Manager: portage-2.2.28
* sci-biology/bioruby: Remove ruby19Manuel RĂ¼ger2016-03-20
| | | | Package-Manager: portage-2.2.28
* sci-biology/seaview: ppc stable wrt bug #575914Agostino Sarubbo2016-03-16
| | | | | | Package-Manager: portage-2.2.26 RepoMan-Options: --include-arches="ppc" Signed-off-by: Agostino Sarubbo <ago@gentoo.org>
* sci-biology/primer3: ppc stable wrt bug #575016Agostino Sarubbo2016-03-16
| | | | | | Package-Manager: portage-2.2.26 RepoMan-Options: --include-arches="ppc" Signed-off-by: Agostino Sarubbo <ago@gentoo.org>
* sci-biology/seaview: x86 stable wrt bug #575914Agostino Sarubbo2016-03-15
| | | | | | Package-Manager: portage-2.2.26 RepoMan-Options: --include-arches="x86" Signed-off-by: Agostino Sarubbo <ago@gentoo.org>
* sci-biology/primer3: x86 stable wrt bug #575016Agostino Sarubbo2016-03-15
| | | | | | Package-Manager: portage-2.2.26 RepoMan-Options: --include-arches="x86" Signed-off-by: Agostino Sarubbo <ago@gentoo.org>
* sci-biology/phrap: Fix dependency on dev-perl/TkKent Fredric2016-03-15
| | | | Package-Manager: portage-2.2.27
* sci-biology/biojava: Remove outdated unmaintained packageJames Le Cuirot2016-03-06
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* sci-biology/mauvealigner: Remove outdated unmaintained packageJames Le Cuirot2016-03-06
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* sci-biology/mauve: Remove outdated unmaintained packageJames Le Cuirot2016-03-06
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