commit: 7a4cef5af00c759a893ac46a71e11142e88515b1
Author: Justin Lecher <jlec <AT> gentoo <DOT> org>
AuthorDate: Wed Feb 4 08:36:50 2015 +0000
Commit: Justin Lecher <jlec <AT> gentoo <DOT> org>
CommitDate: Wed Feb 4 08:36:50 2015 +0000
URL: http://sources.gentoo.org/gitweb/?p=proj/sci.git;a=commit;h=7a4cef5a
Merge branch 'SoapZaNet-master'
* SoapZaNet-master: (34 commits)
sci-biology/embassy-meme: Bump eclass, Drop old
empty package
empty package
sci-biology/embassy-mse: Bump eclass, drop old
sci-biology/embassy-iprscan: Bump eclass, Drop old
sci-biology/embassy-phylipnew: Bump eclass, drop old
sci-biology/embassy-hmmer: Bump eclass, Drop old
sci-biology/embassy-signature: Bump eclass, drop old
sci-biology/embassy-esim4: Bump eclass, Drop old
sci-biology/embassy-structure: Bump eclass, drop old
sci-biology/embassy-emnu: Bump eclass, Drop old
sci-biology/embassy-topo: Bump eclass, drop old
sci-biology/embassy-domsearch: Bump eclass, Drop old
sci-biology/embassy-vienna: Bump eclass, drop old
sci-biology/embassy-domalign: Bump eclass, Drop old
sci-biology/embassy-domainatrix: Bump eclass, Drop old
sci-biology/embassy-clustalomega: Bump eclass
sci-biology/embassy-cbstools: Bump eclass, Drop old
sci-biology/embassy: Drop old
sci-biology/emboss: Drop old
...
eclass/{emboss.eclass => emboss-r1.eclass} | 89 ++---
profiles/package.mask | 35 +-
sci-biology/embassy-cbstools/ChangeLog | 7 +-
sci-biology/embassy-cbstools/Manifest | 2 +-
...r3.ebuild => embassy-cbstools-1.0.0.650.ebuild} | 6 +-
.../files/embassy-cbstools-1.0.0-r2.patch | 347 ------------------
...bassy-cbstools-1.0.0.650_fix-build-system.patch | 97 +++++
sci-biology/embassy-cbstools/metadata.xml | 2 +-
.../ChangeLog | 8 +-
sci-biology/embassy-clustalomega/Manifest | 1 +
.../embassy-clustalomega-1.1.0.ebuild | 13 +
...bassy-clustalomega-1.1.0_fix-build-system.patch | 90 +++++
.../{trf => embassy-clustalomega}/metadata.xml | 0
sci-biology/embassy-domainatrix/ChangeLog | 7 +-
sci-biology/embassy-domainatrix/Manifest | 2 +-
...6.ebuild => embassy-domainatrix-0.1.650.ebuild} | 6 +-
.../files/embassy-domainatrix-0.1.0-r5.patch | 346 ------------------
...assy-domainatrix-0.1.650_fix-build-system.patch | 91 +++++
sci-biology/embassy-domainatrix/metadata.xml | 2 +-
sci-biology/embassy-domalign/ChangeLog | 7 +-
sci-biology/embassy-domalign/Manifest | 2 +-
...0-r5.ebuild => embassy-domalign-0.1.650.ebuild} | 6 +-
.../files/embassy-domalign-0.1.0-r5.patch | 346 ------------------
...embassy-domalign-0.1.650_fix-build-system.patch | 92 +++++
sci-biology/embassy-domalign/metadata.xml | 2 +-
sci-biology/embassy-domsearch/ChangeLog | 7 +-
sci-biology/embassy-domsearch/Manifest | 2 +-
...-r5.ebuild => embassy-domsearch-0.1.650.ebuild} | 6 +-
.../files/embassy-domsearch-0.1.0-r5.patch | 346 ------------------
...mbassy-domsearch-0.1.650_fix-build-system.patch | 91 +++++
sci-biology/embassy-domsearch/metadata.xml | 2 +-
sci-biology/embassy-emnu/ChangeLog | 7 +-
sci-biology/embassy-emnu/Manifest | 2 +-
...1.05-r7.ebuild => embassy-emnu-1.05.650.ebuild} | 8 +-
.../embassy-emnu/files/embassy-emnu-1.05-r7.patch | 359 -------------------
.../embassy-emnu-1.05.650_fix-build-system.patch | 127 +++++++
sci-biology/embassy-emnu/metadata.xml | 2 +-
sci-biology/embassy-esim4/ChangeLog | 7 +-
sci-biology/embassy-esim4/Manifest | 2 +-
....0-r7.ebuild => embassy-esim4-1.0.0.650.ebuild} | 6 +-
.../files/embassy-esim4-1.0.0-r7.patch | 345 ------------------
.../embassy-esim4-1.0.0.650_fix-build-system.patch | 97 +++++
sci-biology/embassy-esim4/metadata.xml | 2 +-
sci-biology/embassy-hmmer/ChangeLog | 7 +-
sci-biology/embassy-hmmer/Manifest | 2 +-
....2-r4.ebuild => embassy-hmmer-2.3.2.650.ebuild} | 8 +-
.../files/embassy-hmmer-2.3.2-r4.patch | 346 ------------------
.../embassy-hmmer-2.3.2.650_fix-build-system.patch | 90 +++++
sci-biology/embassy-hmmer/metadata.xml | 2 +-
sci-biology/embassy-iprscan/ChangeLog | 7 +-
sci-biology/embassy-iprscan/Manifest | 2 +-
...-r2.ebuild => embassy-iprscan-4.3.1.650.ebuild} | 6 +-
.../files/embassy-iprscan-4.3.1-r2.patch | 349 ------------------
...mbassy-iprscan-4.3.1.650_fix-build-system.patch | 97 +++++
sci-biology/embassy-iprscan/metadata.xml | 2 +-
.../{embassy-memenew => embassy-meme}/ChangeLog | 8 +-
sci-biology/embassy-meme/Manifest | 1 +
.../embassy-meme/embassy-meme-4.7.650.ebuild | 13 +
.../embassy-meme-4.7.650_fix-build-system.patch | 90 +++++
sci-biology/{trf => embassy-meme}/metadata.xml | 0
.../files/embassy-memenew-4.0.0-r1.patch | 346 ------------------
sci-biology/embassy-memenew/metadata.xml | 5 -
sci-biology/embassy-mira/ChangeLog | 50 ---
.../embassy-mira/files/embassy-mira-2.8.2-r2.patch | 345 ------------------
sci-biology/embassy-mira/metadata.xml | 5 -
sci-biology/embassy-mse/ChangeLog | 6 +-
sci-biology/embassy-mse/Manifest | 2 +-
...e-3.0.0.ebuild => embassy-mse-3.0.0.650.ebuild} | 12 +-
.../embassy-mse-3.0.0.650_fix-build-system.patch | 133 +++++++
.../embassy-mse/files/embassy-mse-3.0.0.patch | 398 ---------------------
sci-biology/embassy-mse/metadata.xml | 2 +-
sci-biology/embassy-phylipnew/ChangeLog | 7 +-
sci-biology/embassy-phylipnew/Manifest | 2 +-
...69.ebuild => embassy-phylipnew-3.69.650.ebuild} | 6 +-
...bassy-phylipnew-3.69.650_fix-build-system.patch | 98 +++++
.../files/embassy-phylipnew-3.69.patch | 346 ------------------
sci-biology/embassy-phylipnew/metadata.xml | 2 +-
sci-biology/embassy-signature/ChangeLog | 7 +-
sci-biology/embassy-signature/Manifest | 2 +-
...-r5.ebuild => embassy-signature-0.1.650.ebuild} | 6 +-
.../files/embassy-signature-0.1.0-r5.patch | 346 ------------------
...mbassy-signature-0.1.650_fix-build-system.patch | 90 +++++
sci-biology/embassy-signature/metadata.xml | 2 +-
sci-biology/embassy-structure/ChangeLog | 7 +-
sci-biology/embassy-structure/Manifest | 2 +-
...-r5.ebuild => embassy-structure-0.1.650.ebuild} | 6 +-
.../files/embassy-structure-0.1.0-r5.patch | 347 ------------------
...mbassy-structure-0.1.650_fix-build-system.patch | 90 +++++
sci-biology/embassy-structure/metadata.xml | 2 +-
sci-biology/embassy-topo/ChangeLog | 6 +-
sci-biology/embassy-topo/Manifest | 2 +-
...po-2.0.0.ebuild => embassy-topo-2.0.650.ebuild} | 6 +-
.../embassy-topo/files/embassy-topo-2.0.0.patch | 346 ------------------
.../embassy-topo-2.0.650_fix-build-system.patch | 97 +++++
sci-biology/embassy-topo/metadata.xml | 2 +-
sci-biology/embassy-vienna/ChangeLog | 7 +-
sci-biology/embassy-vienna/Manifest | 2 +-
...2-r2.ebuild => embassy-vienna-1.7.2.650.ebuild} | 6 +-
.../files/embassy-vienna-1.7.2-r2.patch | 355 ------------------
...embassy-vienna-1.7.2.650_fix-build-system.patch | 98 +++++
sci-biology/embassy-vienna/metadata.xml | 2 +-
sci-biology/embassy/ChangeLog | 6 +-
sci-biology/embassy/embassy-6.3.1.ebuild | 43 ---
sci-biology/embassy/embassy-6.6.0.ebuild | 30 ++
sci-biology/embassy/metadata.xml | 2 +-
sci-biology/emboss/ChangeLog | 8 +-
sci-biology/emboss/Manifest | 4 -
sci-biology/emboss/emboss-6.3.1_p4-r2.ebuild | 94 -----
sci-biology/emboss/emboss-6.5.7.ebuild | 79 ----
sci-biology/emboss/emboss-6.6.0.ebuild | 62 +---
.../{emboss-README.Gentoo-2 => README.gentoo} | 4 +-
sci-biology/emboss/files/ax_lib_mysql.m4 | 147 --------
.../emboss/files/emboss-6.3.1_p4-r2_Makefile.patch | 47 ---
.../emboss-6.3.1_p4-r2_compilations-paths.patch | 315 ----------------
.../emboss/files/emboss-6.3.1_p4-r2_libtool.patch | 18 -
.../emboss/files/emboss-6.3.1_p4-r2_plcol.patch | 112 ------
...mboss-6.3.1_p4-r2_rename_plwid_to_plwidth.patch | 13 -
.../files/emboss-6.6.0_FORTIFY_SOURCE-fix.patch | 11 +
.../files/emboss-6.6.0_fix-build-system.patch | 368 +++++++++++++++++++
sci-biology/emboss/files/emboss-6.6.0_plcol.patch | 112 ------
.../files/emboss-6.6.0_plplot-declarations.patch | 61 ++++
.../emboss-6.6.0_qa-implicit-declarations.patch | 74 ++++
sci-biology/emboss/metadata.xml | 4 +-
sci-biology/fastdnaml/fastdnaml-1.2.2_p10.ebuild | 2 +-
.../fastx_toolkit/fastx_toolkit-0.0.14.ebuild | 11 +
125 files changed, 2422 insertions(+), 6860 deletions(-)
