[med-svn] [ncbi-blast+] annotated tag upstream/2.2.31 created (now d84e594)
Andreas Tille
tille at debian.org
Tue Apr 12 11:17:59 UTC 2016
This is an automated email from the git hooks/post-receive script.
tille pushed a change to annotated tag upstream/2.2.31
in repository ncbi-blast+.
at d84e594 (tag)
tagging 03c4257c90dabff2b5ffe63c03acfee26e2eebc5 (commit)
tagged by Andreas Tille
on Tue Apr 12 12:45:52 2016 +0200
- Log -----------------------------------------------------------------
Upstream version 2.2.31
Aaron M. Ucko (63):
Override dh_auto_install in favor of explicitly installing files of interest
Rework configure invocation:
Override dh_auto_build to focus on selected subtrees and their dependencies
Rework override_dh_install; adjust debian/legacy/legacy.sh accordingly.
Clean up build and runtime dependencies.
Replace the old fix_checks patch (unnecessary when build-depending on time)
Report any test suite errors in more detail but otherwise ignore them, as some
Rework override_dh_clean to clean *all* files produced at build time.
Build with DLL_LDFLAGS=-Wl,--as-needed, addressing some dpkg-shlibdeps warnings.
Retire postinst and postrm scripts, obsolete as of r6878.
Invoke dh --with autotools_dev to ensure use of fresh config.{guess,sub} files.
Clean up copyright file.
Formal cosmetic cleanups.
override_dh_auto_configure: respect existing LD_LIBRARY_PATH settings,
Update Vcs-* fields per move to ncbi-blast+ and new Alioth setup.
Finalize ncbi-blast+ 2.2.25-1 for upload, updating changelog timestamp.
Start work on ncbi-blast+ 2.2.25-2, which will aim to address several
debian/rules (override_dh_install): Correctly support building only
debian/patches/support_other_cpus (new; committed upstream too):
debian/rules (DEB_CONFIGURE_EXTRA_FLAGS): add --without-caution to override
debian/rules (DEB_CONFIGURE_EXTRA_FLAGS): Limit C++ optimization level to -O
Correct backwards test in previous revision, which accidentally kept
Finalize ncbi-blast+ 2.2.25-2 for upload to unstable, closing #629656.
Start work on ncbi-blast+ 2.2.25-3, to address remaining build
debian/rules: Export MAKE to override an internal upstream build
debian/rules: Force CONFIG_SHELL=/bin/bash to avoid lossage that can occur
Finalize ncbi-blast+ 2.2.25-3 for upload to unstable, hopefully
Start work on ncbi-blast+ 2.2.25-4, as Hurd builds still fail (#629656).
debian/patches/support_other_cpus: belatedly add a descriptive header.
debian/patches/hurd_fixes: new; fix hurd-specific issues.
Fix one more PATH_MAX assumption, in src/connect/ext/ncbi_localnet.c.
d/control: B-D += libc0.3-dev (>= 2.13-9~) [hurd-i386] to avoid #630180;
debian/patches/fix_lib_deps: new; ensure that all libraries link against
debian/rules: tweak LDFLAGS, supplying -Wl,--as-needed across the
debian/patches/no_multiarch_rpath: new; avoid redundant rpath entries
debian/control: Declare both binary packages as Multi-Arch: foreign.
Finalize ncbi-blast+ 2.2.25-4 for upload to unstable.
Start work on ncbi-blast+ 2.2.25-5.
Address ncbi-blast+'s continued failure to build on the Hurd
Finalize ncbi-blast+ 2.2.25-5 for upload to unstable.
Start work on ncbi-blast+ 2.2.26-3.
ncbi-blast+: Note Andreas's Vcs-* modernization in debian/changelog.
debian/patches/fix_gcc47_errors: fix various GCC 4.7 compilation
ncbi-blast+: Wrap and sort build dependencies to ease maintenance thereof.
ncbi-blast+: Enable full hardening flags, introducing a small patch
ncbi-blast+: Use upstream's new --with-symbols flag in nostrip builds.
Finalize ncbi-blast+ 2.2.26-3 for upload to unstable.
Start work on ncbi-blast+ 2.2.28-2, to fix mips* FTBFS (#710807).
* debian/patches/use_pie_for_apps: Explicitly build all executables with
Standards-Version: 3.9.4. (Already compliant.)
Finalize ncbi-blast+ 2.2.28-2 for upload to unstable.
Start work on ncbi-blast+ 2.2.29-3, to fix #753190 for real.
debian/patches/include_typeinfo: Patch include/corelib/ncbistl.hpp to
Standards-Version: 3.9.4. (Already compliant.)
Finalize ncbi-blast+ 2.2.29-3 for upload to unstable.
changelog: 2.2.30-1 went to experimental.
Start work on ncbi-blast+ 2.2.30-2, to address GCC 5 FTBFS #778021.
d/patches/allow_gcc5 (new): Allow compilation with GCC 5, per upstream.
Finalize ncbi-blast+ 2.2.30-2 for upload to experimental.
Start work on ncbi-blast+ 2.2.30-4, to address #790667 (compilation
d/patches/fix_compilation: Add an upstream patch to
Finalize ncbi-blast+ 2.2.30-4 for upload to unstable.
Really finalize ncbi-blast+ 2.2.30-4 for upload to unstable.
Andreas Tille (14):
Enhances t-coffee
Patch for more sensible output of a perl script; Depends python (as needed by a python script); DEP5 fixes
Patch description
Added upstream contact
Fix Vcs fields globally in all remaining packages because I'm bored by warnings in logfiles when investigating machine readable files of not yet uploaded packages
Drop explicite mentioning of quilt
There seems to be no change of upstream source any more
Enable building architecture independent package separately
Override false lintian error
DEP5 fixes
DEP5 fixes and upload to unstable
Really enable building architecture independent package separately
Save time and do nothing for architecture independent builds
Imported Upstream version 2.2.31
Olivier Sallou (73):
add ncbi-blast-plus debian packaging stuff
update upstream get scripts
update doc
changelog modify dir name
changelog modify dir name
update comments
update homepage, limit projects make
set svn stuff
force test binaries removal
a libs not generated anymore, skip move
remove dev, update rpath issues
remote some rpath references, change compil options
wrong package name
add dependency to avoid internal use
add perl dependency
boost required by configure
fix for pbuilder gcc 4.6 error on prtdiff
gcc46 error patch
headers update, apply patch from upstream for gcc 4.6
gcc4.6 does not accept anymore such mutable
pbuilder requires cpio
rename packages to blast+, update copyright for zlib, use libbooost-test instead of all
add quilt depends
add legacy package for blast cmd line compatibility
move to use/share legacy files
missing misc depends
rename ncbi-blast-plus ot ncbi-blast+ as per package name
add comments regarding bug 642991 and add gene_info_reader to package
fix typo
add patch info, reduce log size
update for new upstream release
revert to UNRELEASED, need to update patches for offset/fuzz errors
fix offset/fuzz errors in patch after upstream release update
set back to unstable for upload after patches update
change my uploader address, change URL of copyright format
fix upstream bug for Hurd build
revert to UNRELEASE, need more fixes in patch
fixed rpath issuer on patch, set back to unstable for upload
remove fixed bug patches
fix clean target
update patches for new release
set new upstream release 2.2.27
remove fuzzy patch data
add patch for arm/mips FTBS
rename seedtop to seedtop+ to fix #688684
add info for sparc buildd errors
release to fix conflict with blast2
fix tab issue
add patch to series
new upstream 2.2.28, include updates from T. Booth from Ubuntu to compile this release
remove deprecated parameter
add headers to patches, prepare for upload
add missing dep
add info on fortify lintian warnings
update patches for new upstream release 2.2.29
Add patch to fix way to find configure script for Debian build
add missing dep on submit
prepare new upload 2.2.29
fix fuzz in patch
prevent cleanup of configure.orig
fix include issue with recent compiler
add patch headers
prepare new release 2.2.30
update patch to match new release
adapt patches to new release
adapt patches to new release, add status to changelog
update patches to fix compilation issues
update changes and patch header
upload to unstable
add changelog entry for unstable upload after experimental
prepare new upstream release 2.2.31
upload release 2.2.31
fix missing colon causing FTBS on some archs
Steffen Moeller (1):
Seed of a package of blast+
Tim Booth (2):
Various changes explained in e-mail to list.
I'm backporting this to Ubuntu LTS. Explicitly specifying newer version of autotools-dev
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