ncbi-blast+ (2.2.29-3) unstable; urgency=medium * debian/patches/include_typeinfo: Patch include/corelib/ncbistl.hpp to ensure sufficient coverage; fix typos in patch headers. (Closes: #753190.) * Standards-Version: 3.9.4. (Already compliant.) -- Aaron M. Ucko Tue, 01 Jul 2014 18:27:46 -0400 ncbi-blast+ (2.2.29-2) unstable; urgency=medium * d/patches/include_typeinfo (Closes: #753190). -- Olivier Sallou Sat, 07 Jun 2014 11:28:22 +0200 ncbi-blast+ (2.2.29-1) unstable; urgency=medium * New upstream release -- Olivier Sallou Fri, 06 Jun 2014 22:38:40 +0200 ncbi-blast+ (2.2.28-2) unstable; urgency=low * debian/patches/use_pie_for_apps: Explicitly build all executables with -fPIE -pie, to avoid giving project_tree_builder a partial PIE treatment that now fails on mips and mipsel. (Closes: #710807.) * debian/rules: Retire redundant APP_LDFLAGS override. * Standards-Version: 3.9.4. (Already compliant.) -- Aaron M. Ucko Sun, 02 Jun 2013 23:00:44 -0400 ncbi-blast+ (2.2.28-1) unstable; urgency=low * New upstream release - Thanks to Tim Booth for package update help. -- Olivier Sallou Sat, 01 Jun 2013 08:40:51 +0200 ncbi-blast+ (2.2.27-3) unstable; urgency=low * debian/series: active patch fix_arm_mips_build (Closes: #688661). -- Olivier Sallou Fri, 05 Oct 2012 11:03:03 +0200 ncbi-blast+ (2.2.27-2) unstable; urgency=low * debian/patches/fix_arm_mips_build: Fix FTBS on ARM and MIPS (Closes: #688661). * debian/rules: rename seedtop to seedtop+ to avoid blast2 conflict (Closes: #688684). -- Olivier Sallou Mon, 24 Sep 2012 09:28:29 +0200 ncbi-blast+ (2.2.27-1) unstable; urgency=low * New upstream release -- Olivier Sallou Fri, 21 Sep 2012 17:25:41 +0200 ncbi-blast+ (2.2.26-3) unstable; urgency=low [ Aaron M. Ucko ] * debian/patches/fix_gcc47_errors: fix various GCC 4.7 compilation errors and warnings. (Closes: #669679.) - Explicitly qualify more dependent names originating in base templates. - Directly #include headers as needed. - Use modern syntax for making protected base members public. - Add forward declarations as needed. * Wrap and sort build dependencies to ease maintenance thereof. * Enable full hardening flags, introducing a small patch (use_pie_for_apps) to reflect the need to build executables and libraries differently. * Use upstream's new --with-symbols flag in nostrip builds. [ Andreas Tille ] * debian/control: Modernize Vcs-* fields. -- Aaron M. Ucko Thu, 10 May 2012 23:42:49 -0400 ncbi-blast+ (2.2.26-2) unstable; urgency=low * debian/patches/wrong_path_to_touch.patch :Fix upstream FTBFS on the Hurd hardcodes wrong path to touch (Closes: #663244) -- Olivier Sallou Wed, 07 Mar 2012 17:29:23 +0100 ncbi-blast+ (2.2.26-1) unstable; urgency=low [ Olivier Sallou ] * New upstream release * Remove some patches, applied upstream [ Andreas Tille] * debian/copyright: Added Upstream-Contact -- Olivier Sallou Wed, 07 Mar 2012 09:37:10 +0100 ncbi-blast+ (2.2.25-7) unstable; urgency=low * Do not output everything to STDERR in c++/src/app/blast/update_blastdb.pl Closes: #644237 * debian/control: Depends s/${python:Depends}/python/ because the python dependency of /usr/bin/windowmasker_2.2.22_adapter is not detected obviosely * debian/copyright: Indentation fixes to get DEP5 compatibility -- Andreas Tille Wed, 21 Dec 2011 15:47:04 +0100 ncbi-blast+ (2.2.25-6) unstable; urgency=low * debian/control: Luca Capello , fix reference for legacy_blast (Closes: #642986). + add a new line to separate the actual description from usage instruction in the long Description:. * debian/rules: add gene_info_reader binary in package -- Olivier Sallou Fri, 30 Sep 2011 12:31:05 -0400 ncbi-blast+ (2.2.25-5) unstable; urgency=low * Team upload. * debian/patches/hurd_fixes: further patch configure(.ac) to reflect -Wl,rpath,... support. (Closes: #629656.) * debian/patches/fix_lib_deps: link makembindex and srsearch against libxconnect rather than libconnect for consistency with libblast, which uses the former for consistency with other projects. -- Aaron M. Ucko Mon, 29 Aug 2011 12:31:05 -0400 ncbi-blast+ (2.2.25-4) unstable; urgency=low [ Aaron M. Ucko ] * Team upload. * debian/patches/support_other_cpus: belatedly add a descriptive header. * debian/patches/hurd_fixes: new; fix hurd-specific issues. (In conjunction with the following change, finally closes: #629656.) * debian/control: - Build-Depends += libc0.3-dev (>= 2.13-9~) [hurd-i386] to avoid #630180. - Declare both binary packages as Multi-Arch: foreign. * debian/patches/fix_lib_deps: new; ensure that all libraries link against all direct dependencies. (Break the dependency loop between libxblast and libxalgoblastdbindex by having the former provide only the C++ BLAST API, leaving the C core only in libblast.) (Closes: #633567.) * debian/rules: tweak LDFLAGS, supplying -Wl,--as-needed across the board (as it is now safe to do so) and adding -Wl,--enable-new-dtags to allow LD_LIBRARY_PATH to override the private rpath. * debian/patches/no_multiarch_rpath: new; avoid redundant rpath entries on multiarch systems (courtesy of overzealous logic to ensure executables will be able to find libstdc++.) [ Andreas Tille ] * Enhances: t-coffee (as stated in tasks file) -- Aaron M. Ucko Sun, 28 Aug 2011 18:45:19 -0400 ncbi-blast+ (2.2.25-3) unstable; urgency=low * Team upload. * debian/rules: - Export MAKE to override an internal upstream build script that otherwise incorrectly defaults to gmake on non-Linux architectures. (Really closes: #629656, with any luck.) - Force CONFIG_SHELL=/bin/bash to avoid lossage that can occur with zsh4 masquerading as ksh, which configure otherwise favors (due to complaints from users with broken BASH_ENV scripts that change directories). -- Aaron M. Ucko Thu, 09 Jun 2011 19:25:45 -0400 ncbi-blast+ (2.2.25-2) unstable; urgency=low * Team upload. * Fix several sources of build failures (closes: #629656): - debian/rules (override_dh_install): Correctly support building only architecture-dependent packages. (DEB_CONFIGURE_EXTRA_FLAGS): Add --without-caution to override the upstream build system's reluctance to build shared libraries on the Hurd or kFreeBSD, which it doesn't specifically recognize. Limit C++ optimization level to -O (rather than the default -O2) on mips(el), on which g++ otherwise crashes. :-/ - debian/patches/support_other_cpus (new; committed upstream too): build correctly on architectures that wound up defining NCBI_SLOW_ATOMIC_SWAP (spuriously in the case of powerpc, whose detection the patch fixes as well). -- Aaron M. Ucko Wed, 08 Jun 2011 21:42:52 -0400 ncbi-blast+ (2.2.25-1) unstable; urgency=low * Initial release (Closes: #624394) -- Olivier Sallou Wed, 08 Jun 2011 00:15:15 +0200