Your message dated Tue, 23 Jul 2024 19:04:18 +0000
with message-id <[email protected]>
and subject line Bug#1075207: fixed in libssw 1.1-15
has caused the Debian Bug report #1075207,
regarding libssw: ftbfs with GCC-14
to be marked as done.
This means that you claim that the problem has been dealt with.
If this is not the case it is now your responsibility to reopen the
Bug report if necessary, and/or fix the problem forthwith.
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--
1075207: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1075207
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: src:libssw
Version: 1.1-14
Severity: important
Tags: sid trixie
User: [email protected]
Usertags: ftbfs-gcc-14
[This bug is targeted to the upcoming trixie release]
Please keep this issue open in the bug tracker for the package it
was filed for. If a fix in another package is required, please
file a bug for the other package (or clone), and add a block in this
package. Please keep the issue open until the package can be built in
a follow-up test rebuild.
The package fails to build in a test rebuild on at least amd64 with
gcc-14/g++-14, but succeeds to build with gcc-13/g++-13. The
severity of this report will be raised before the trixie release.
The full build log can be found at:
http://qa-logs.debian.net/2024/07/01/libssw_1.1-14_unstable_gccexp.log
The last lines of the build log are at the end of this report.
To build with GCC 14, either set CC=gcc-14 CXX=g++-14 explicitly,
or install the gcc, g++, gfortran, ... packages from experimental.
apt-get -t=experimental install g++
Common build failures are new warnings resulting in build failures with
-Werror turned on, or new/dropped symbols in Debian symbols files.
For other C/C++ related build failures see the porting guide at
http://gcc.gnu.org/gcc-14/porting_to.html
[...]
Target: 9651
CCCC-TTGTGGATGTATGGCCGGTGCTTTTCCCAGTATTTAGGTCATCTCTGCA---CAC 9706
|||| ||*||*|| ||| ****||*|||||*|| ||| |||| ||||**| *||
Query: 907
CCCCTTTCTGCAT-TAT--TTAATGATTTTCTCA-TAT----GTCA-CTCTTAAATGTAC 957
Target: 9707 TGTTGATTGTTTC-CTTT 9723
|**|*||| |||| ||||
Query: 958 TTCTAATT-TTTCACTTT 974
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
create-stamp debian/debhelper-build-stamp
dh_prep
debian/rules override_dh_auto_install
make[1]: Entering directory '/<<PKGBUILDDIR>>'
sed 's/@DEB_HOST_MULTIARCH@/x86_64-linux-gnu/g' debian/libssw0.install.in >
debian/libssw0.install
sed 's/@DEB_HOST_MULTIARCH@/x86_64-linux-gnu/g' debian/libssw-dev.install.in >
debian/libssw-dev.install
sed -e 's/@DEB_HOST_MULTIARCH@/x86_64-linux-gnu/g' \
-e 's/@DEB_JAVA_PKG_VERSION@/1.1/g' debian/libssw-dev.links.in >
debian/libssw-dev.links
sed 's/@DEB_HOST_MULTIARCH@/x86_64-linux-gnu/g' debian/libssw-java.install.in >
debian/libssw-java.install
sed -e 's/@DEB_HOST_MULTIARCH@/x86_64-linux-gnu/g' \
-e 's/@DEB_JAVA_PKG_VERSION@/1.1/g' debian/libssw-java.links.in >
debian/libssw-java.links
mv src/ssw.jar src/ssw-1.1.jar
dh_auto_install
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_install
jh_installjavadoc
dh_installdocs
dh_installchangelogs
debian/rules override_dh_installman
make[1]: Entering directory '/<<PKGBUILDDIR>>'
LD_LIBRARY_PATH=`pwd`/src help2man --version-string=' ' --help-option=' ' \
-I debian/extra-man-info.txt \
-N -n 'fast Smith-Waterman aligner' \
--no-discard-stderr src/ssw-align \
| fgrep -v ERROR > debian/ssw-align.1
dh_installman
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_perl
dh_link
jh_installlibs
jh_classpath
jh_manifest
jh_exec
jh_depends
mh_installpoms
mh_linkjars --skip-clean-poms
dh_strip_nondeterminism
dh_compress
dh_fixperms
dh_missing
dh_dwz -a
dh_strip -a
dh_makeshlibs -a
dpkg-gensymbols: warning: some new symbols appeared in the symbols file: see
diff output below
dpkg-gensymbols: error: some symbols or patterns disappeared in the symbols
file: see diff output below
dpkg-gensymbols: warning: debian/libssw0/DEBIAN/symbols doesn't match
completely debian/libssw0.symbols
--- debian/libssw0.symbols (libssw0_1.1-14_amd64)
+++ dpkg-gensymbolsqLidJp 2024-07-02 01:11:28.677337636 +0000
@@ -21,7 +21,8 @@
_ZNK20StripedSmithWaterman7Aligner13TranslateBaseEPKcRKiPa@Base 1.1
_ZNK20StripedSmithWaterman7Aligner5AlignEPKcRKNS_6FilterEPNS_9AlignmentE@Base
1.1
_ZNK20StripedSmithWaterman7Aligner5AlignEPKcS2_RKiRKNS_6FilterEPNS_9AlignmentE@Base
1.1
-
_ZNSt6vectorIjSaIjEE17_M_realloc_insertIJRKjEEEvN9__gnu_cxx17__normal_iteratorIPjS1_EEDpOT_@Base
1.1
+ _ZNSt6vectorIjSaIjEE17_M_realloc_appendIJRKjEEEvDpOT_@Base 1.1-14
+#MISSING: 1.1-14#
_ZNSt6vectorIjSaIjEE17_M_realloc_insertIJRKjEEEvN9__gnu_cxx17__normal_iteratorIPjS1_EEDpOT_@Base
1.1
align_destroy@Base 1.1
init_destroy@Base 1.1
mark_mismatch@Base 1.1
dh_makeshlibs: error: failing due to earlier errors
make: *** [debian/rules:20: binary] Error 25
dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2
--- End Message ---
--- Begin Message ---
Source: libssw
Source-Version: 1.1-15
Done: Étienne Mollier <[email protected]>
We believe that the bug you reported is fixed in the latest version of
libssw, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Étienne Mollier <[email protected]> (supplier of updated libssw package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Format: 1.8
Date: Tue, 23 Jul 2024 20:36:29 +0200
Source: libssw
Architecture: source
Version: 1.1-15
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<[email protected]>
Changed-By: Étienne Mollier <[email protected]>
Closes: 1015525 1075207
Changes:
libssw (1.1-15) unstable; urgency=medium
.
* Team upload.
.
[ Michael R. Crusoe ]
* d/rules: append extra flag for ppc64el, don't override.
.
[ Étienne Mollier ]
* d/libssw0.symbols: mark compiler leaked symbol as optional.
(Closes: #1015525, #1075207)
* d/rules: forcefully run LTO builds.
* d/control: declare compliance to standards version 4.7.0.
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Files:
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