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diff --git a/sci-biology/ncbi-tools/ChangeLog b/sci-biology/ncbi-tools/ChangeLog new file mode 100644 index 0000000..ed0294c --- /dev/null +++ b/sci-biology/ncbi-tools/ChangeLog @@ -0,0 +1,334 @@ +# ChangeLog for sci-biology/ncbi-tools +# Copyright 2000-2007 Gentoo Foundation; Distributed under the GPL v2 +# $Header: /var/cvsroot/gentoo-x86/sci-biology/ncbi-tools/ChangeLog,v 1.53 2007/06/05 11:00:49 armin76 Exp $ + + 05 Jun 2007; Raúl Porcel <armin76@gentoo.org> ncbi-tools-20060507.ebuild: + alpha stable wrt #152292 + + 10 Mar 2007; Olivier Fisette <ribosome@gentoo.org> + +files/ncbi-tools-extra_vib.patch: + Added missing patch. Thanks to Walter Meinl <wuno@lsvw.de> for reporting + (bug #170202). + +*ncbi-tools-20061015-r1 (09 Mar 2007) + + 09 Mar 2007; Olivier Fisette <ribosome@gentoo.org> + -ncbi-tools-20061015.ebuild, +ncbi-tools-20061015-r1.ebuild: + Install ans2all utility. Added support for compiling/installing arbitrary + NCBI utilities. Thanks to José María Fernández González + <jmfernandez@cnio.es> for his work (see bug #169822). Pruned old version. + + 03 Nov 2006; Olivier Fisette <ribosome@gentoo.org> + -ncbi-tools-20050605-r2.ebuild: + Pruned old version. + +*ncbi-tools-20061015 (03 Nov 2006) + + 03 Nov 2006; Olivier Fisette <ribosome@gentoo.org> + +ncbi-tools-20061015.ebuild: + New upstream version. + + 30 Oct 2006; Christian Faulhammer <opfer@gentoo.org> + ncbi-tools-20060507.ebuild: + stable x86 as requested in bug #152292 + + 25 Oct 2006; Lars Weiler <pylon@gentoo.org> ncbi-tools-20060507.ebuild: + Stable on ppc; bug #152292. + + 25 Oct 2006; Fabian Groffen <grobian@gentoo.org> + ncbi-tools-20050605.ebuild, ncbi-tools-20050605-r2.ebuild: + Dropped ppc-macos, see you in prefix. + + 24 Oct 2006; Fabian Groffen <grobian@gentoo.org> + ncbi-tools-20060507.ebuild: + Dropped ppc-macos, we don't have pmake + + 24 Oct 2006; Jeff Gardner <je_fro@gentoo.org> ncbi-tools-20060507.ebuild: + Stable on amd64. + + 23 Oct 2006; Markus Rothe <corsair@gentoo.org> ncbi-tools-20060507.ebuild: + Stable on ppc64; bug #152292 + + 23 Oct 2006; Jeff Gardner <je_fro@gentoo.org> ncbi-tools-20060507.ebuild: + Stable on sparc - bug #152292 + + 27 Jun 2006; Brent Baude <ranger@gentoo.org> ncbi-tools-20060507.ebuild: + Keywording ncbi-tools-20060507 ~ppc64 for bug #138082 + + 27 Jun 2006; Olivier Fisette <ribosome@gentoo.org> + -files/ncbi-tools-20050605-lop.patch, +files/ncbi-tools-lop.patch, + ncbi-tools-20050605.ebuild, ncbi-tools-20050605-r2.ebuild, + ncbi-tools-20060507.ebuild: + Fixed ppc64 lop patch (my mistake). + +*ncbi-tools-20060507 (26 Jun 2006) + + 26 Jun 2006; Olivier Fisette <ribosome@gentoo.org> + +files/ncbi-tools-asn2all.patch, +ncbi-tools-20060507.ebuild: + New upstream version. Switched from GNU make to pmake as GNU make 3.81 is + confused by some Makefiles (fixes bug #136904, thanks to Greg Wilson for + reporting). Compile and install asn2all (fixes bug #136206, thanks to José + María Fernández González for the suggestion). Minor bugfixes and ebuild + clean-up. ppc64 keyword dropped as pmake is not available for that arch. + + 01 Feb 2006; Donnie Berkholz <spyderous@gentoo.org>; + ncbi-tools-20050605.ebuild, ncbi-tools-20050605-r2.ebuild: + (#121066) Port to modular X. Add some die messages to -r2 so the die's + aren't completely unhelpful. Fix the path expansion for html docs so it + doesn't break the installation -- not sure how it got committed as is: + {*.html *.gif} is missing a comma. + + 21 Jan 2006; Olivier Fisette <ribosome@gentoo.org> + -ncbi-tools-20050605-r1.ebuild: + Removed buggy version. + +*ncbi-tools-20050605-r2 (14 Dec 2005) + + 14 Dec 2005; Olivier Fisette <ribosome@gentoo.org> + +ncbi-tools-20050605-r2.ebuild: + Fixed file collisions with "dev-libs/libpcre" (bug #115463). + + 16 Nov 2005; Olivier Fisette <ribosome@gentoo.org> + ncbi-tools-20050605-r1.ebuild: + Readded ~sparc (closes bug #111807). + + 15 Nov 2005; Fernando J. Pereda <ferdy@gentoo.org> + ncbi-tools-20050605-r1.ebuild: + re-add ~alpha wrt bug #111807 + +*ncbi-tools-20050605-r1 (15 Nov 2005) + + 15 Nov 2005; Olivier Fisette <ribosome@gentoo.org> + +ncbi-tools-20050605-r1.ebuild: + Added MPI support for the BLAST family of programs. Thanks to Brady + Catherman <bradyc@uidaho.edu> for his work (fixes bug #111807). + + 09 Nov 2005; Jason Wever <weeve@gentoo.org> ncbi-tools-20050605.ebuild: + Stable on SPARC wrt bug #108334. + + 22 Oct 2005; Olivier Fisette <ribosome@gentoo.org> -files/21ncbi, + -ncbi-tools-20041020-r1.ebuild, -ncbi-tools-20050429.ebuild: + Pruning old versions. + + 22 Oct 2005; Fabian Groffen <grobian@gentoo.org> + ncbi-tools-20050605.ebuild: + Marked ppc-macos per bug #108334 + + 18 Oct 2005; Aron Griffis <agriffis@gentoo.org> + ncbi-tools-20050605.ebuild: + Mark 20050605 stable on alpha + + 12 Oct 2005; Michael Hanselmann <hansmi@gentoo.org> + ncbi-tools-20050605.ebuild: + Stable on ppc. + + 11 Oct 2005; Luis Medinas <metalgod@gentoo.org> + ncbi-tools-20050605.ebuild: + Marked Stable on amd64 + + 09 Oct 2005; Mark Loeser <halcy0n@gentoo.org> ncbi-tools-20050605.ebuild: + Stable on x86 + + 07 Oct 2005; Brent Baude <ranger@gentoo.org> ncbi-tools-20050605.ebuild: + Marking ncbi-tools-200506 ppc64 stable for bug 108334 + + 19 Sep 2005; Olivier Fisette <ribosome@gentoo.org> metadata.xml: + Maintainer changed from Stephen Diener (MIA) to Olivier Fisette. + + 16 Sep 2005; Aron Griffis <agriffis@gentoo.org> + ncbi-tools-20050429.ebuild: + Mark 20050429 stable on alpha + + 19 Aug 2005; Michael Hanselmann <hansmi@gentoo.org> + ncbi-tools-20050429.ebuild: + Removed from ppc (xlc not available). + + 09 Aug 2005; Brent Baude <ranger@gentoo.org> + +files/ncbi-tools-20050605-lop.patch, + -files/ncbi-tools-20050605-lop.patch.gz, ncbi-tools-20050605.ebuild: + For the ebuild ncbi-tools-20050605, I was asked to remove the gz patch and + submit it as plain text. This commit will remove the gz patch and replace it + with a plain text one. The patch name change is also reflected in the + ebuild. + + 08 Aug 2005; Brent Baude <ranger@gentoo.org> + +files/ncbi-tools-20050605-lop.patch.gz, ncbi-tools-20050605.ebuild: + Added patch for 20050506 which when ppc64, will patch the makefile to use + gcc instead of the default xlc (IBM compiler) which doesnt exist on gentoo. + + 08 Aug 2005; Brent Baude <ranger@gentoo.org> ncbi-tools-20050429.ebuild: + ncbi-tools-20050429.ebuild does not compile on ppc64; will fix later ebuild + +*ncbi-tools-20050605 (06 Aug 2005) + + 06 Aug 2005; Olivier Fisette <ribosome@gentoo.org> + -ncbi-tools-20040616.ebuild, ncbi-tools-20050429.ebuild, + +ncbi-tools-20050605.ebuild: + New version. Added 20050429 to x86. Removed old version. + + 09 Jun 2005; Markus Rothe <corsair@gentoo.org> + ncbi-tools-20041020-r1.ebuild: + Stable on ppc64 + + 02 Jun 2005; Olivier Fisette <ribosome@gentoo.org> ChangeLog: + Use "virtual/motif" instead of "x11-libs/openmotif". + + 16 May 2005; Olivier Fisette <ribosome@gentoo.org> + ncbi-tools-20050429.ebuild: + Fixed CFLAGS not being applied properly (bug #92564). + +*ncbi-tools-20050429 (13 May 2005) + + 13 May 2005; Olivier Fisette <ribosome@gentoo.org> + +ncbi-tools-20050429.ebuild: + New version. + + 29 Apr 2005; Markus Rothe <corsair@gentoo.org> + ncbi-tools-20041020-r1.ebuild: + Added ~ppc64 to KEYWORDS + + 24 Apr 2005; Michael Hanselmann <hansmi@gentoo.org> + ncbi-tools-20041020-r1.ebuild: + Stable on ppc. + +*ncbi-tools-20041020-r1 (06 Mar 2005) + + 06 Mar 2005; Olivier Fisette <ribosome@gentoo.org> +files/21ncbi-r1, + +ncbi-tools-20041020-r1.ebuild, -ncbi-tools-20041020.ebuild: + Added the "BLASTMAT" environment variable to the env.d file. + + 02 Mar 2005; Lina Pezzella <j4rg0n@gentoo.org> ncbi-tools-20041020.ebuild: + Stable ppc-macos + + 01 Mar 2005; Olivier Fisette <ribosome@gentoo.org> + ncbi-tools-20041020.ebuild: + Added to x86. + + 02 Feb 2005; Lina Pezzella <j4rg0n@gentoo.org> ncbi-tools-20040616.ebuild: + Stable ppc-macos + + 30 Jan 2005; Olivier Fisette <ribosome@gentoo.org> + ncbi-tools-20041020.ebuild: + Ebuild cleanup. + +*ncbi-tools-20041020 (18 Jan 2005) + + 18 Jan 2005; Olivier Fisette <ribosome@gentoo.org> + +ncbi-tools-20041020.ebuild: + New version. + + 02 Jan 2005; Olivier Fisette <ribosome@gentoo.org> : + Added to x86. Use toolchain-funcs rather than gcc eclass. + + 29 Dec 2004; Ciaran McCreesh <ciaranm@gentoo.org> : + Change encoding to UTF-8 for GLEP 31 compliance + +*ncbi-tools-20040616 (23 Dec 2004) + + 23 Dec 2004; Olivier Fisette <ribosome@gentoo.org> +metadata.xml, + +files/21ncbi, +files/ncbirc, +ncbi-tools-20040616.ebuild: + Moved from app-sci/ncbi-tools to sci-biology/ncbi-tools. + + 30 Nov 2004; <j4rg0n@gentoo.org> ncbi-tools-20040616.ebuild: + Keyworded ~ppc-macos. + + 22 Nov 2004; Karol Wojtaszek <sekretarz@gentoo.org> + ncbi-tools-20040616.ebuild: + Added to ~amd64 + + 14 Oct 2004; Olivier Fisette <ribosome@gentoo.org> + ncbi-tools-20040616.ebuild: + Use gcc-getCC from gcc.eclass rather than ${CC}. + + 04 Oct 2004; Olivier Fisette <ribosome@gentoo.org> + ncbi-tools-20040616.ebuild: + Fixed potential bug in "SRC_URI". + +*ncbi-tools-20040616 (03 Oct 2004) + + 03 Oct 2004; Olivier Fisette <ribosome@gentoo.org> files/21ncbi, + -files/dot-ncbirc, +files/ncbirc, -ncbi-tools-20031103.ebuild, + -ncbi-tools-20040202-r1.ebuild, +ncbi-tools-20040616.ebuild: + Updated version and new ebuild. This fixes bug #65941. + + 02 Jun 2004; Aron Griffis <agriffis@gentoo.org> ncbi-tools-20031103.ebuild, + ncbi-tools-20040202-r1.ebuild: + Fix use invocation + + 05 May 2004; Bryan Østergaard <kloeri@gentoo.org> + ncbi-tools-20040202-r1.ebuild: + Stable on alpha. + + 19 Apr 2004; Patrick Kursawe <phosphan@gentoo.org> + ncbi-tools-04222003-r2.ebuild, ncbi-tools-20030422.ebuild, + ncbi-tools-20031103.ebuild, ncbi-tools-20040202-r1.ebuild, + ncbi-tools-20040202.ebuild: + Cleanup, removing S=... with no effect + + 30 Mar 2004; Donnie Berkholz <spyderous@gentoo.org>; + ncbi-tools-04222003-r2.ebuild, ncbi-tools-20030422.ebuild, + ncbi-tools-20031103.ebuild, ncbi-tools-20040202-r1.ebuild, + ncbi-tools-20040202.ebuild: + Change x11-base/xfree dependency to virtual/x11. + + 21 Mar 2004; Martin Holzer <mholzer@gentoo.org> + ncbi-tools-04222003-r2.ebuild, ncbi-tools-20030422.ebuild, + ncbi-tools-20031103.ebuild, ncbi-tools-20040202-r1.ebuild, + ncbi-tools-20040202.ebuild: + adding categorie. see 45110 for details + +*ncbi-tools-20040202-r1 (06 Feb 2004) + + 06 Feb 2004; Stephen Diener <sediener@gentoo.org> + ncbi-tools-20040202-r1.ebuild: + Replaced buggy tarball with new one. Bumped revision to propogate. + +*ncbi-tools-20040202 (05 Feb 2004) + + 05 Feb 2004; Stephen Diener <sediener@gentoo.org> + ncbi-tools-04222003-r1.ebuild, ncbi-tools-04222003.ebuild, + ncbi-tools-20030422.ebuild, ncbi-tools-20031103.ebuild, + ncbi-tools-20040202.ebuild: + Bumped 20031103 to x86, removed old ebuilds, added new release 20040202 + +*ncbi-tools-20040202 (04 Feb 2004) + + 04 Feb 2004; Stephen Diener <sediener@gentoo.org> + ncbi-tools-20031103.ebuild, ncbi-tools-20040202.ebuild: + Version bump. Changes -O3 -> -O2 so X11 apps will work. + + 11 Jan 2004; Heinrich Wendel <lanius@gentoo.org> + ncbi-tools-04222003-r1.ebuild, ncbi-tools-04222003-r2.ebuild, + ncbi-tools-20030422.ebuild, ncbi-tools-20031103.ebuild: + fixed motif dep + +*ncbi-tools-20031103 (13 Dec 2003) + + 13 Dec 2003; Stephen Diener <sediener@gentoo.org> + ncbi-tools-20031103.ebuild: + Added november release of ncbi-tools (blast-2.2.6 included); + Added support for -X + +*ncbi-tools-20030422 (11 Nov 2003) + + 11 Nov 2003; <sediener@gentoo.org> ncbi-tools-20030422.ebuild: + added bl2seq to list of installed binaries; changed date format from 04222003 + to 20030422; renamed files to have date appended to not collide and changed + SRC_URI to mirror://gentoo/ + +*ncbi-tools-04222003-r2 (08 Oct 2003) + + 08 Oct 2003; Robin H. Johnson <robbat2@gentoo.org> + ncbi-tools-04222003-r2.ebuild: + modified patch from #30656, corrected two pathes in the postinst message + +*ncbi-tools-04222003-r1 (05 May 2003) + + 05 May 2003; Jon Portnoy <avenj@gentoo.org> ncbi-tools-04222003-r1.ebuild : + A few enhancements from Gontran Zepeda <gontran@gontran.net>. + +*ncbi-tools-04222003 (03 May 2003) + + 03 May 2003; Jon Portnoy <avenj@gentoo.org> ncbi-tools-04222003 : + Initial important. Ebuild submitted by Steve Diener + <sediener@unity.ncsu.edu>. |