Versions
v3.1_beta2-r1 :: 0 :: gentoo
- Modified
- License
- GPL-3
- Keywords
- ~amd64 ~amd64-linux ~ppc-macos ~x86 ~x86-linux
- USE flags
- gsl mpi test
v2.3.2-r6 :: 2 :: gentoo
- Modified
- License
- GPL-2
- Keywords
- ~amd64 ~x86
- USE flags
- test
USE flags
General
- gsl
- Use the GNU scientific library for calculations
- mpi
- Add MPI (Message Passing Interface) layer to the apps that support it
- test
- Enable dependencies and/or preparations necessary to run tests (usually controlled by FEATURES=test but can be toggled independently)
cpu_flags_ppc
- altivec
- Use the AltiVec/VMX instruction set
cpu_flags_x86
- sse
- Use the SSE instruction set
Dependencies
sci-libs / gsl : The GNU Scientific Library
virtual / mpi : Virtual for Message Passing Interface (MPI) v2.0 implementation
Runtime Dependencies
sci-libs / gsl : The GNU Scientific Library
virtual / mpi : Virtual for Message Passing Interface (MPI) v2.0 implementation
Depending packages
sci-biology / embassy-hmmer : EMBOSS integrated version of HMMER wrapper - sequence analysis with profile HMMs
sci-biology / qrna : Prototype ncRNA genefinder
sci-biology / wise : Intelligent algorithms for DNA searches
Bugs
Change logs
- Repository mirror & CI · gentoo
Merge updates from master - NHOrus · gentoo
sci-biology/hmmer: Add missing include into configure
There are no autotools source files, so we can't just autoreconf the problem out of existence [sam: Revbump.] Closes: https://bugs.gentoo.org/900551 Signed-off-by: NHOrus <jy6x2b32pie9@yahoo.com> Closes: https://github.com/gentoo/gentoo/pull/36599 Signed-off-by: Sam James <sam@gentoo.org> - Repository mirror & CI · gentoo
Merge updates from master - David Seifert · gentoo
sci-biology/hmmer: expose XSI pthread_setconcurrency() prototypes
Closes: https://bugs.gentoo.org/882279 Signed-off-by: David Seifert <soap@gentoo.org> - Repository mirror & CI · gentoo
Merge updates from master - David Seifert · gentoo
sci-biology/hmmer: update EAPI 6 -> 8 (3.1_beta2)
Signed-off-by: David Seifert <soap@gentoo.org> - David Seifert · gentoo
sci-biology/hmmer: update EAPI 6 -> 8 (2.3.2)
Closes: https://bugs.gentoo.org/725306 Signed-off-by: David Seifert <soap@gentoo.org> - Repository mirror & CI · gentoo
Merge updates from master - Michał Górny · gentoo
*/*: [QA] Fix trivial cases of MissingTestRestrict
The result was achieved via the following pipeline: pkgcheck scan -c RestrictTestCheck -R FormatReporter \ --format '{category}/{package}/{package}-{version}.ebuild' | xargs -n32 grep -L RESTRICT | xargs -n32 sed -i -e '/^IUSE=.*test/aRESTRICT="!test? ( test )"' The resulting metadata was compared before and after the change. Few Go ebuilds had to be fixed manually due to implicit RESTRICT=strip added by the eclass. Two ebuilds have to be fixed because of multiline IUSE. Suggested-by: Robin H. Johnson <robbat2@gentoo.org> Closes: https://github.com/gentoo/gentoo/pull/13942 Signed-off-by: Michał Górny <mgorny@gentoo.org> - Kent Fredric · gentoo
sci-biology/hmmer: Cleanup broken versions re bug #421799
Closes: https://bugs.gentoo.org/421799 Package-Manager: Portage-2.3.8, Repoman-2.3.3 - Kent Fredric · gentoo
sci-biology/hmmer: de-stabilize
Sci Team don't want unnecessary stable pacakges, and this is not necessary. The stated stable versions are broken on all available perls anyway. Package-Manager: Portage-2.3.8, Repoman-2.3.3 - Robin H. Johnson · gentoo
Drop $Id$ per council decision in bug #611234.
Signed-off-by: Robin H. Johnson <robbat2@gentoo.org> - David Seifert · gentoo
sci-biology/hmmer: Remove old
Package-Manager: Portage-2.3.3, Repoman-2.3.1 Closes: https://github.com/gentoo/gentoo/pull/3856 - David Seifert · gentoo
sci-biology/hmmer: Only keep amd64 and x86 in KEYWORDS
Package-Manager: Portage-2.3.3, Repoman-2.3.1 Closes: https://github.com/gentoo/gentoo/pull/3856 - David Seifert · gentoo
sci-biology/hmmer: Properly SLOT=2 hmmer-2.3.2
Gentoo-bug: 328911, 586960 * EAPI=6 * Introduce SLOT=2 and rename binaries and static libraries Package-Manager: portage-2.3.1 - David Seifert · gentoo
sci-biology/hmmer: Version bump to 3.1_beta2
* EAPI=6 * Make perl shebangs portable * Install headers into 'hmmer3' subdir Package-Manager: portage-2.3.1 - Ian Stakenvicius · gentoo
sci-biology/hmmer: cheamup of 2.3.2 version
* 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 - Robin H. Johnson · gentoo
proj/gentoo: Initial commit
This commit represents a new era for Gentoo: Storing the gentoo-x86 tree in Git, as converted from CVS. This commit is the start of the NEW history. Any historical data is intended to be grafted onto this point. Creation process: 1. Take final CVS checkout snapshot 2. Remove ALL ChangeLog* files 3. Transform all Manifests to thin 4. Remove empty Manifests 5. Convert all stale $Header$/$Id$ CVS keywords to non-expanded Git $Id$ 5.1. Do not touch files with -kb/-ko keyword flags. Signed-off-by: Robin H. Johnson <robbat2@gentoo.org> X-Thanks: Alec Warner <antarus@gentoo.org> - did the GSoC 2006 migration tests X-Thanks: Robin H. Johnson <robbat2@gentoo.org> - infra guy, herding this project X-Thanks: Nguyen Thai Ngoc Duy <pclouds@gentoo.org> - Former Gentoo developer, wrote Git features for the migration X-Thanks: Brian Harring <ferringb@gentoo.org> - wrote much python to improve cvs2svn X-Thanks: Rich Freeman <rich0@gentoo.org> - validation scripts X-Thanks: Patrick Lauer <patrick@gentoo.org> - Gentoo dev, running new 2014 work in migration X-Thanks: Michał Górny <mgorny@gentoo.org> - scripts, QA, nagging X-Thanks: All of other Gentoo developers - many ideas and lots of paint on the bikeshed