| # 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 <robbat2@gentoo.org> +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 <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 |
| |
| 24 Aug 2015; Justin Lecher <jlec@gentoo.org> metadata.xml: |
| Use https by default |
| |
| Convert all URLs for sites supporting encrypted connections from http to |
| https |
| |
| Signed-off-by: Justin Lecher <jlec@gentoo.org> |
| |
| 24 Aug 2015; Mike Gilbert <floppym@gentoo.org> 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 <jlec@gentoo.org> -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 <jlec@gentoo.org> +bowtie-2.2.6.ebuild: |
| Add bowtie2 in SLOT=2 |
| |
| 14 Oct 2015; Justin Lecher <jlec@gentoo.org> 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 <jlec@gentoo.org> |
| files/bowtie-1.1.2-tbb-tinythread-missing.patch: |
| include descriptive header in patch |
| |
| 14 Oct 2015; Justin Lecher <jlec@gentoo.org> 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 <jlec@gentoo.org> bowtie-1.1.2.ebuild: |
| 1.1.2: Enable 'tbb' USE flag by default |
| |
| 14 Oct 2015; Justin Lecher <jlec@gentoo.org> 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 <jlec@gentoo.org> +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 <jlec@gentoo.org> bowtie-2.2.6.ebuild, |
| metadata.xml: |
| Respect CXX |
| |
| Package-Manager: portage-2.2.23 |
| Signed-off-by: Justin Lecher <jlec@gentoo.org> |
| |
| 25 Dec 2015; Agostino Sarubbo <ago@gentoo.org> 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 <ago@gentoo.org> |
| |
| 25 Dec 2015; Agostino Sarubbo <ago@gentoo.org> 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 <ago@gentoo.org> |
| |
| 25 Dec 2015; Agostino Sarubbo <ago@gentoo.org> 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 <ago@gentoo.org> |
| |
| 25 Dec 2015; Agostino Sarubbo <ago@gentoo.org> 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 <ago@gentoo.org> |
| |
| 26 Dec 2015; Justin Lecher <jlec@gentoo.org> -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 <jlec@gentoo.org> |
| |
| 26 Dec 2015; Justin Lecher <jlec@gentoo.org> bowtie-2.2.6.ebuild: |
| Chop DESCRIPTION to 80 chars |
| |
| Package-Manager: portage-2.2.26 |
| Signed-off-by: Justin Lecher <jlec@gentoo.org> |
| |
| 24 Jan 2016; Michał Górny <mgorny@gentoo.org> 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 <mgorny@gentoo.org> metadata.xml: |
| Set appropriate maintainer types in metadata.xml (GLEP 67) |
| |
| *bowtie-1.1.2-r1 (09 Apr 2016) |
| |
| 09 Apr 2016; David Seifert <soap@gentoo.org> +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 <soap@gentoo.org> +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 <soap@gentoo.org> -bowtie-2.2.8.ebuild, |
| +bowtie-2.2.9.ebuild: |
| version bump |
| |
| Package-Manager: portage-2.3.0_rc1 |
| |
| 18 Sep 2016; David Seifert <soap@gentoo.org> 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 |
| |
