# ChangeLog for sci-biology/ncbi-tools++ # Copyright 1999-2014 Gentoo Foundation; Distributed under the GPL v2 # $Header: $ 16 Sep 2014; Christoph Junghans -files/ncbi-tools++-12.0.0-as-needed.patch, -files/ncbi-tools++-9.0.0-as-needed.patch, -files/ncbi-tools++-9.0.0-conf-opts.patch, -files/ncbi-tools++-9.0.0-disable_test_compress.patch, -files/ncbi-tools++-9.0.0-fix-creaders-linking.patch, -files/ncbi-tools++-9.0.0-fix-order-of-libs.patch, -files/ncbi-tools++-9.0.0-fix-svn-URL-upstream.patch, -files/ncbi-tools++-9.0. 0-fix-undef-reference-to-GenBankReaders_Register_Id1.patch, -files/ncbi-tools++-9.0.0-remove-LZO-definition-upstream.patch, -ncbi-tools++-9.0.0-r1.ebuild, -ncbi-tools++-9.0.0.ebuild, metadata.xml, ncbi-tools++-12.0.0.ebuild: major clean, drop old version and unused patches 23 Jun 2014; Martin Mokrejs ChangeLog: add patches for 12.0.0 to support autoconf-2.60 (so far 2.59 was needed), patches from upstream: http://www.ncbi.nlm.nih.gov/viewvc/v1?view=revision&revision=62745 http://www.ncbi.nlm.nih.gov/viewvc/v1?view=revision&revision=62750 http://www.ncbi.nlm.nih.gov/viewvc/v1?view=revision&revision=62760 14 Sep 2013; Martin Mokrejs ncbi-tools++-9.0.0-r1.ebuild: Support at least when user passes USE="gnutls -ssl -openssl" but what we really want is to prefer gnutls over openssl if both are available on the system. 14 Sep 2013; Martin Mokrejs ncbi-tools++-9.0.0-r1.ebuild, +files/ncbi-tools++-9.0.0-remove-LZO-definition-upstream.patch: Add upstream ncbi-tools++-9.0.0-remove-LZO-definition-upstream.patch with line offset changes. 13 Sep 2013; Martin Mokrejs ncbi-tools++-9.0.0-r1.ebuild, ncbi-tools++-12.0.0.ebuild, +files/ncbi-tools++-9.0.0-fix-svn-URL-upstream.patch, +files/ncbi-tools++-12.0.0-fix-svn-URL-upstream.patch: Fix URL to point to a public SVN repository (an upstream patch from email list): Date: Sun, 28 Jul 2013 22:05:34 -0400 CC: Subject: Re: [C++] new project startup example needed 13 Sep 2013; Martin Mokrejs ncbi-tools++-12.0.0.ebuild, files/ncbi-tools++-9.0.0-fix-creaders-linking.patch, +files/ncbi-tools++-12.0.0-fix-FreeTDS-upstream.patch, files/ncbi-tools++-12.0.0-fix-creaders-linking.patch: Added an upstream patch from: Date: Wed, 28 Aug 2013 10:50:29 -0400 List cpp Subject: Re: [C++] error building ncbi toolkit v.12.0.0 Fixed line offsets in the ncbi-tools++-12.0.0-fix-creaders-linking.patch file. Fixed file path in ncbi-tools++-9.0.0-fix-creaders-linking.patch header. The patches copied blindly from ncbi-tools++-9.0.0-r1 under 12.0.0 need to be adjusted still to have correct line numbers. They do NOT apply cleanly at the moment. 13 Sep 2013; Martin Mokrejs ncbi-tools++-9.0.0-r1.ebuild, ncbi-tools++-12.0.0.ebuild, files/ncbi-tools++-9.0.0-as-needed.patch, +files/ncbi-tools++-9.0.0-fix-undef-reference-to-GenBankReaders_Register_Id1. patch, files/ncbi-tools++-12.0.0-as-needed.patch: files/ncbi-tools++-12.0.0-as-needed.patch files/ncbi-tools++-9.0.0-as-needed.patch Remove redundant connect per message from Aaron Ucko : > +DLL_LIB = xncbi xutil seqset connect xconnect xnetblast Then simply remove connect, which is redundant with xconnect. (connect consists of code shared with NCBI's C Toolkit; xconnect adds a C++ layer.) 13 Sep 2013; Martin Mokrejs ncbi-tools++-12.0.0.ebuild, +files/ncbi-tools++-12.0.0-fix-creaders-linking.patch: No, the fix-creaders-linking is needed for 12.0.0 as well. *ncbi-tools++-12.0.0 (13 Sep 2013) 13 Sep 2013; Martin Mokrejs +ncbi-tools++-12.0.0.ebuild, +files/ncbi-tools++-12.0.0-as-needed.patch, +files/ncbi-tools++-12.0.0-conf-opts.patch: Latest release which needs so far only the two Gentoo patches. Would be better to drop ${PV} from their filename to avoid their duplication I think. 13 Sep 2013; Martin Mokrejs ncbi-tools++-9.0.0-r1.ebuild, +files/ncbi-tools++-9.0.0-fix-creaders-linking.patch: add glew to dependencies inferrred via mesa fix lib/libxobjread.so: undefined reference to 'AlignmentFileFree' message by upstream patch 12 Jun 2013; Justin Lecher ncbi-tools++-9.0.0-r1.ebuild: Drop empty line 12 Jun 2013; Justin Lecher ncbi-tools++-9.0.0-r1.ebuild: Drop autotools.eclass 01 Apr 2013; Justin Lecher ncbi-tools++-9.0.0-r1.ebuild: Some Prefix love 01 Apr 2013; Justin Lecher ncbi-tools++-9.0.0-r1.ebuild: Some Prefix love 03 Mar 2013; Justin Lecher metadata.xml: Document USE 03 Mar 2013; Justin Lecher ncbi-tools++-9.0.0.ebuild, ncbi-tools++-9.0.0-r1.ebuild: Clean whitespace errors 03 Mar 2013; Justin Lecher +metadata.xml: Add metadata.xml