Your message dated Sun, 23 Oct 2022 17:34:42 +0000
with message-id <e1omery-00075y...@fasolo.debian.org>
and subject line Bug#1022309: fixed in spades 3.15.5+dfsg-2
has caused the Debian Bug report #1022309,
regarding spades: FTBFS: CheckIncludeFile.c:1:10: fatal error: cxxabi.h: No
such file or directory
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.
(NB: If you are a system administrator and have no idea what this
message is talking about, this may indicate a serious mail system
misconfiguration somewhere. Please contact ow...@bugs.debian.org
immediately.)
--
1022309: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1022309
Debian Bug Tracking System
Contact ow...@bugs.debian.org with problems
--- Begin Message ---
Source: spades
Version: 3.15.5+dfsg-1
Severity: serious
Justification: FTBFS
Tags: bookworm sid ftbfs
User: lu...@debian.org
Usertags: ftbfs-20221023 ftbfs-bookworm
Hi,
During a rebuild of all packages in sid, your package failed to build
on amd64.
Relevant part (hopefully):
> /usr/bin/cc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=.
> -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time
> -D_FORTIFY_SOURCE=2 -fopenmp -o
> CMakeFiles/cmTC_d9a5b.dir/CheckIncludeFile.c.o -c
> /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp/CheckIncludeFile.c
> /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp/CheckIncludeFile.c:1:10:
> fatal error: cxxabi.h: No such file or directory
> 1 | #include <cxxabi.h>
> | ^~~~~~~~~~
> compilation terminated.
> gmake[3]: *** [CMakeFiles/cmTC_d9a5b.dir/build.make:78:
> CMakeFiles/cmTC_d9a5b.dir/CheckIncludeFile.c.o] Error 1
> gmake[3]: Leaving directory
> '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
> gmake[2]: *** [Makefile:127: cmTC_d9a5b/fast] Error 2
> gmake[2]: Leaving directory
> '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
>
>
>
> Determining if the include file mach/mach.h exists failed with the following
> output:
> Change Dir: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp
>
> Run Build Command(s):/usr/bin/gmake -f Makefile cmTC_17e7d/fast && gmake[2]:
> Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
> /usr/bin/gmake -f CMakeFiles/cmTC_17e7d.dir/build.make
> CMakeFiles/cmTC_17e7d.dir/build
> gmake[3]: Entering directory
> '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
> Building C object CMakeFiles/cmTC_17e7d.dir/CheckIncludeFile.c.o
> /usr/bin/cc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=.
> -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time
> -D_FORTIFY_SOURCE=2 -fopenmp -o
> CMakeFiles/cmTC_17e7d.dir/CheckIncludeFile.c.o -c
> /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp/CheckIncludeFile.c
> /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp/CheckIncludeFile.c:1:10:
> fatal error: mach/mach.h: No such file or directory
> 1 | #include <mach/mach.h>
> | ^~~~~~~~~~~~~
> compilation terminated.
> gmake[3]: *** [CMakeFiles/cmTC_17e7d.dir/build.make:78:
> CMakeFiles/cmTC_17e7d.dir/CheckIncludeFile.c.o] Error 1
> gmake[3]: Leaving directory
> '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
> gmake[2]: *** [Makefile:127: cmTC_17e7d/fast] Error 2
> gmake[2]: Leaving directory
> '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
>
>
>
> Determining if the include file malloc/malloc.h exists failed with the
> following output:
> Change Dir: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp
>
> Run Build Command(s):/usr/bin/gmake -f Makefile cmTC_40da2/fast && gmake[2]:
> Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
> /usr/bin/gmake -f CMakeFiles/cmTC_40da2.dir/build.make
> CMakeFiles/cmTC_40da2.dir/build
> gmake[3]: Entering directory
> '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
> Building C object CMakeFiles/cmTC_40da2.dir/CheckIncludeFile.c.o
> /usr/bin/cc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=.
> -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time
> -D_FORTIFY_SOURCE=2 -fopenmp -o
> CMakeFiles/cmTC_40da2.dir/CheckIncludeFile.c.o -c
> /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp/CheckIncludeFile.c
> /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp/CheckIncludeFile.c:1:10:
> fatal error: malloc/malloc.h: No such file or directory
> 1 | #include <malloc/malloc.h>
> | ^~~~~~~~~~~~~~~~~
> compilation terminated.
> gmake[3]: *** [CMakeFiles/cmTC_40da2.dir/build.make:78:
> CMakeFiles/cmTC_40da2.dir/CheckIncludeFile.c.o] Error 1
> gmake[3]: Leaving directory
> '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
> gmake[2]: *** [Makefile:127: cmTC_40da2/fast] Error 2
> gmake[2]: Leaving directory
> '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
>
>
>
> Determining if the mallctl exist failed with the following output:
> Change Dir: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp
>
> Run Build Command(s):/usr/bin/gmake -f Makefile cmTC_e8965/fast && gmake[2]:
> Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
> /usr/bin/gmake -f CMakeFiles/cmTC_e8965.dir/build.make
> CMakeFiles/cmTC_e8965.dir/build
> gmake[3]: Entering directory
> '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
> Building C object CMakeFiles/cmTC_e8965.dir/CheckSymbolExists.c.o
> /usr/bin/cc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=.
> -fstack-protector-strong -Wformat -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp
> -o CMakeFiles/cmTC_e8965.dir/CheckSymbolExists.c.o -c
> /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp/CheckSymbolExists.c
> /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp/CheckSymbolExists.c:2:10:
> fatal error: malloc_np.h: No such file or directory
> 2 | #include <malloc_np.h>
> | ^~~~~~~~~~~~~
> compilation terminated.
> gmake[3]: *** [CMakeFiles/cmTC_e8965.dir/build.make:78:
> CMakeFiles/cmTC_e8965.dir/CheckSymbolExists.c.o] Error 1
> gmake[3]: Leaving directory
> '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
> gmake[2]: *** [Makefile:127: cmTC_e8965/fast] Error 2
> gmake[2]: Leaving directory
> '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
>
>
> File
> /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp/CheckSymbolExists.c:
> /* */
> #include <malloc_np.h>
>
> int main(int argc, char** argv)
> {
> (void)argv;
> #ifndef mallctl
> return ((int*)(&mallctl))[argc];
> #else
> (void)argc;
> return 0;
> #endif
> }
> Determining if the malloc_zone_statistics exist failed with the following
> output:
> Change Dir: /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp
>
> Run Build Command(s):/usr/bin/gmake -f Makefile cmTC_f5c2b/fast && gmake[2]:
> Entering directory '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
> /usr/bin/gmake -f CMakeFiles/cmTC_f5c2b.dir/build.make
> CMakeFiles/cmTC_f5c2b.dir/build
> gmake[3]: Entering directory
> '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
> Building C object CMakeFiles/cmTC_f5c2b.dir/CheckSymbolExists.c.o
> /usr/bin/cc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=.
> -fstack-protector-strong -Wformat -Wdate-time -D_FORTIFY_SOURCE=2 -fopenmp
> -o CMakeFiles/cmTC_f5c2b.dir/CheckSymbolExists.c.o -c
> /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp/CheckSymbolExists.c
> /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp/CheckSymbolExists.c:2:10:
> fatal error: malloc/malloc.h: No such file or directory
> 2 | #include <malloc/malloc.h>
> | ^~~~~~~~~~~~~~~~~
> compilation terminated.
> gmake[3]: *** [CMakeFiles/cmTC_f5c2b.dir/build.make:78:
> CMakeFiles/cmTC_f5c2b.dir/CheckSymbolExists.c.o] Error 1
> gmake[3]: Leaving directory
> '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
> gmake[2]: *** [Makefile:127: cmTC_f5c2b/fast] Error 2
> gmake[2]: Leaving directory
> '/<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp'
>
>
> File
> /<<PKGBUILDDIR>>/obj-x86_64-linux-gnu/CMakeFiles/CMakeTmp/CheckSymbolExists.c:
> /* */
> #include <malloc/malloc.h>
>
> int main(int argc, char** argv)
> {
> (void)argv;
> #ifndef malloc_zone_statistics
> return ((int*)(&malloc_zone_statistics))[argc];
> #else
> (void)argc;
> return 0;
> #endif
> }
> dh_auto_configure: error: cd obj-x86_64-linux-gnu && cmake
> -DCMAKE_INSTALL_PREFIX=/usr -DCMAKE_BUILD_TYPE=None
> -DCMAKE_INSTALL_SYSCONFDIR=/etc -DCMAKE_INSTALL_LOCALSTATEDIR=/var
> -DCMAKE_EXPORT_NO_PACKAGE_REGISTRY=ON -DCMAKE_FIND_USE_PACKAGE_REGISTRY=OFF
> -DCMAKE_FIND_PACKAGE_NO_PACKAGE_REGISTRY=ON
> -DFETCHCONTENT_FULLY_DISCONNECTED=ON -DCMAKE_INSTALL_RUNSTATEDIR=/run
> -DCMAKE_SKIP_INSTALL_ALL_DEPENDENCY=ON "-GUnix Makefiles"
> -DCMAKE_VERBOSE_MAKEFILE=ON -DCMAKE_INSTALL_LIBDIR=lib/x86_64-linux-gnu
> -DBoost_NO_BOOST_CMAKE=TRUE ../assembler/src returned exit code 1
> make[1]: *** [debian/rules:26: override_dh_auto_configure] Error 25
The full build log is available from:
http://qa-logs.debian.net/2022/10/23/spades_3.15.5+dfsg-1_unstable.log
All bugs filed during this archive rebuild are listed at:
https://bugs.debian.org/cgi-bin/pkgreport.cgi?tag=ftbfs-20221023;users=lu...@debian.org
or:
https://udd.debian.org/bugs/?release=na&merged=ign&fnewerval=7&flastmodval=7&fusertag=only&fusertagtag=ftbfs-20221023&fusertaguser=lu...@debian.org&allbugs=1&cseverity=1&ctags=1&caffected=1#results
A list of current common problems and possible solutions is available at
http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute!
If you reassign this bug to another package, please marking it as 'affects'-ing
this package. See https://www.debian.org/Bugs/server-control#affects
If you fail to reproduce this, please provide a build log and diff it with mine
so that we can identify if something relevant changed in the meantime.
--- End Message ---
--- Begin Message ---
Source: spades
Source-Version: 3.15.5+dfsg-2
Done: Étienne Mollier <emoll...@debian.org>
We believe that the bug you reported is fixed in the latest version of
spades, 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 1022...@bugs.debian.org,
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Étienne Mollier <emoll...@debian.org> (supplier of updated spades 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 ftpmas...@ftp-master.debian.org)
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA512
Format: 1.8
Date: Sun, 23 Oct 2022 16:59:13 +0200
Source: spades
Architecture: source
Version: 3.15.5+dfsg-2
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team
<debian-med-packag...@lists.alioth.debian.org>
Changed-By: Étienne Mollier <emoll...@debian.org>
Closes: 1022086 1022309
Changes:
spades (3.15.5+dfsg-2) unstable; urgency=medium
.
* d/control: add missing build-deps following llvm reorganization.
(Closes: #1022309)
* yaml_load.patch: update to fix new pyyaml.load calls. (Closes: #1022086)
* d/copyright: bump copyright year.
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spades_3.15.5+dfsg-2.debian.tar.xz
Checksums-Sha256:
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spades_3.15.5+dfsg-2.dsc
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Files:
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