# ChangeLog for sci-biology/bowtie # Copyright 1999-2016 Gentoo Foundation; Distributed under the GPL v2 # (auto-generated from git log) *bowtie-1.0.0 (09 Aug 2015) *bowtie-0.12.8 (09 Aug 2015) 09 Aug 2015; Robin H. Johnson +bowtie-0.12.8.ebuild, +bowtie-1.0.0.ebuild, +files/bowtie-0.12.8-gcc-47.patch, +metadata.xml: 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 X-Thanks: Alec Warner - did the GSoC 2006 migration tests X-Thanks: Robin H. Johnson - infra guy, herding this project X-Thanks: Nguyen Thai Ngoc Duy - Former Gentoo developer, wrote Git features for the migration X-Thanks: Brian Harring - wrote much python to improve cvs2svn X-Thanks: Rich Freeman - validation scripts X-Thanks: Patrick Lauer - Gentoo dev, running new 2014 work in migration X-Thanks: Michał Górny - scripts, QA, nagging X-Thanks: All of other Gentoo developers - many ideas and lots of paint on the bikeshed 24 Aug 2015; Justin Lecher metadata.xml: Use https by default Convert all URLs for sites supporting encrypted connections from http to https Signed-off-by: Justin Lecher 24 Aug 2015; Mike Gilbert metadata.xml: Revert DOCTYPE SYSTEM https changes in metadata.xml repoman does not yet accept the https version. This partially reverts eaaface92ee81f30a6ac66fe7acbcc42c00dc450. Bug: https://bugs.gentoo.org/552720 *bowtie-1.1.2 (14 Oct 2015) 14 Oct 2015; Justin Lecher -bowtie-0.12.8.ebuild, -bowtie-1.0.0.ebuild, +bowtie-1.1.2.ebuild, -files/bowtie-0.12.8-gcc-47.patch, +files/bowtie-1.1.2-tbb-tinythread-missing.patch, metadata.xml: version bump, SLOT major version sci-biology/bowtie is now SLOTed, in order to allow for a parallel installation with bowtie2. In addition, the latest bowtie now supports dev-cpp/tbb with 'tbb' USE flag. *bowtie-2.2.6 (14 Oct 2015) 14 Oct 2015; Justin Lecher +bowtie-2.2.6.ebuild: Add bowtie2 in SLOT=2 14 Oct 2015; Justin Lecher bowtie-1.1.2.ebuild: do not remove -Wall from CXXFLAGS Retain -Wall in CXXFLAGS in bowtie-1.1.2 14 Oct 2015; Justin Lecher files/bowtie-1.1.2-tbb-tinythread-missing.patch: include descriptive header in patch 14 Oct 2015; Justin Lecher bowtie-2.2.6.ebuild: remove REQUIRED_USE When SSE2 support is not explicitly enabled, the user is informed by erroring out instead of portage recommending enabling cpu flags. 14 Oct 2015; Justin Lecher bowtie-1.1.2.ebuild: 1.1.2: Enable 'tbb' USE flag by default 14 Oct 2015; Justin Lecher bowtie-2.2.6.ebuild: 2.2.6: Enable 'tbb' USE flag by default *bowtie-0.12.8 (14 Oct 2015) 14 Oct 2015; Justin Lecher +bowtie-0.12.8.ebuild, +files/bowtie-0.12.8-gcc-47.patch: bring back stable bowtie-0.12.8 bowtie-0.12.8 is the only stable variant and removing it breaks the stable depgraph. 14 Oct 2015; Justin Lecher bowtie-2.2.6.ebuild, metadata.xml: Respect CXX Package-Manager: portage-2.2.23 Signed-off-by: Justin Lecher 25 Dec 2015; Agostino Sarubbo bowtie-2.2.6.ebuild: amd64 stable wrt bug #569708 Package-Manager: portage-2.2.24 RepoMan-Options: --include-arches="amd64" Signed-off-by: Agostino Sarubbo 25 Dec 2015; Agostino Sarubbo bowtie-1.1.2.ebuild: amd64 stable wrt bug #569706 Package-Manager: portage-2.2.24 RepoMan-Options: --include-arches="amd64" Signed-off-by: Agostino Sarubbo 25 Dec 2015; Agostino Sarubbo bowtie-2.2.6.ebuild: x86 stable wrt bug #569708 Package-Manager: portage-2.2.24 RepoMan-Options: --include-arches="x86" Signed-off-by: Agostino Sarubbo 25 Dec 2015; Agostino Sarubbo bowtie-1.1.2.ebuild: x86 stable wrt bug #569706 Package-Manager: portage-2.2.24 RepoMan-Options: --include-arches="x86" Signed-off-by: Agostino Sarubbo 26 Dec 2015; Justin Lecher -bowtie-0.12.8.ebuild, -files/bowtie-0.12.8-gcc-47.patch: Drop old obsoletes: Gentoo-Bug: https://bugs.gentoo.org/show_bug.cgi?id=564320 Package-Manager: portage-2.2.26 Signed-off-by: Justin Lecher 26 Dec 2015; Justin Lecher bowtie-2.2.6.ebuild: Chop DESCRIPTION to 80 chars Package-Manager: portage-2.2.26 Signed-off-by: Justin Lecher 24 Jan 2016; Michał Górny metadata.xml: Replace all herds with appropriate projects (GLEP 67) Replace all uses of herd with appropriate project maintainers, or no maintainers in case of herds requested to be disbanded. 24 Jan 2016; Michał Górny metadata.xml: Set appropriate maintainer types in metadata.xml (GLEP 67) *bowtie-1.1.2-r1 (09 Apr 2016) 09 Apr 2016; David Seifert +bowtie-1.1.2-r1.ebuild, +files/bowtie-1.1.2-_ContextLss-1.1-1.4.patch, +files/bowtie-1.1.2-fix-setBegin-call.patch, +files/bowtie-1.1.2-seqan-popcount.patch, +files/bowtie-1.1.2-seqan-rename-ChunkPool.patch, +files/bowtie-1.1.2-seqan-rename-fill-to-resize.patch, +files/bowtie-1.1.2-spelling.patch, +files/bowtie-1.1.2-unbundle-seqan.patch: unbundle SeqAn, import Debian patches * EAPI=6 Package-Manager: portage-2.2.28 *bowtie-2.2.8 (10 Apr 2016) 10 Apr 2016; David Seifert +bowtie-2.2.8.ebuild: Version bump to 2.2.8 * EAPI=6 Package-Manager: portage-2.2.28 *bowtie-2.2.9 (04 Jun 2016) 04 Jun 2016; David Seifert -bowtie-2.2.8.ebuild, +bowtie-2.2.9.ebuild: version bump Package-Manager: portage-2.3.0_rc1 18 Sep 2016; David Seifert bowtie-2.2.9.ebuild, +files/bowtie-2.2.9-fix-c++14.patch: Allow for compiling with GCC 6 Gentoo-bug: 593966 Package-Manager: portage-2.3.0