Bug#924843: msxpertsuite: FTBFS: MassSpectrum.cpp:50:10: fatal error: pwiz/data/msdata/MSDataFile.hpp: No such file or directory

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Bug#924843: msxpertsuite: FTBFS: MassSpectrum.cpp:50:10: fatal error: pwiz/data/msdata/MSDataFile.hpp: No such file or directory

Filippo Rusconi-3
found 924843 5.7.3-1
fixed 924843 5.8.6-2
block 924843 by 923928

thanks

The fix in version 5.8.6-2 (currently in unstable) is needed because libpwiz
changed recently the location of the header files. msxpertsuite was uploaded
after libpwiz exactly as a result of this. However msxpertsuite unfortunately is
blocked in unstable because the documentation building system (daps) cannot yet
enter testing. The un-blocking of daps does not seem be happening anytime soon,
sadly (the un-block bug report was closed last Sun, 17 Mar, see #923928).  

So, if the release managers would reconsider not un-blocking daps, then this bug
would be easily fixable by letting msxpertsuite 5.8.6-2 migrate to testing.

daps is an all-arch project that has no other reverse-dependencies than
msxpertsuite.  The fact that msxpertsuite's documentation (fairly large and
complex) can build using daps is a testimony of the robustness of its debian
packaging.

Thank you for your work on the release of Buster !
Cheers,
Filippo

On Sun, Mar 17, 2019 at 06:58:26PM +0100, Lucas Nussbaum wrote:

>Source: msxpertsuite
>Version: 5.7.3-1
>Severity: serious
>Tags: buster sid
>User: [hidden email]
>Usertags: qa-ftbfs-20190315 qa-ftbfs
>Justification: FTBFS in buster on amd64
>
>Hi,
>
>During a rebuild of all packages in buster (in a buster chroot, not a
>sid chroot), your package failed to build on amd64.
>
>Relevant part (hopefully):
>> cd /<<PKGBUILDDIR>>/debian/build/libmass && /usr/bin/c++  -DQT_CORE_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_SQL_LIB -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_XML_LIB -I/<<PKGBUILDDIR>>/debian/build/libmass -I/<<PKGBUILDDIR>>/libmass -I/<<PKGBUILDDIR>>/debian/build/libmass/mass_autogen/include -I/<<PKGBUILDDIR>>/debian/build -I/<<PKGBUILDDIR>> -I/usr/include/pwiz -isystem /usr/include/x86_64-linux-gnu/qt5 -isystem /usr/include/x86_64-linux-gnu/qt5/QtXml -isystem /usr/include/x86_64-linux-gnu/qt5/QtCore -isystem /usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -isystem /usr/include/x86_64-linux-gnu/qt5/QtSvg -isystem /usr/include/x86_64-linux-gnu/qt5/QtWidgets -isystem /usr/include/x86_64-linux-gnu/qt5/QtGui -isystem /usr/include/x86_64-linux-gnu/qt5/QtSql -isystem /usr/include/x86_64-linux-gnu/qt5/QtScript  -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g   -Wno-unknown-pragmas -fPIC -Wall -g -O0 -fopenmp -fPIC -std=c++11 -o CMakeFiles/mass.dir/MassSpectrum.cpp.o -c /<<PKGBUILDDIR>>/libmass/MassSpectrum.cpp
>> /<<PKGBUILDDIR>>/libmass/MassSpectrum.cpp:50:10: fatal error: pwiz/data/msdata/MSDataFile.hpp: No such file or directory
>>  #include <pwiz/data/msdata/MSDataFile.hpp>
>>           ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>> compilation terminated.
>> make[4]: *** [libmass/CMakeFiles/mass.dir/build.make:196: libmass/CMakeFiles/mass.dir/MassSpectrum.cpp.o] Error 1
>
>The full build log is available from:
>   http://aws-logs.debian.net/2019/03/15/msxpertsuite_5.7.3-1_testing.log
>
>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!
>
>About the archive rebuild: The rebuild was done on EC2 VM instances from
>Amazon Web Services, using a clean, minimal and up-to-date chroot. Every
>failed build was retried once to eliminate random failures.
>

--

⢀⣴⠾⠻⢶⣦⠀  Filippo Rusconi, PhD
⣾⠁⢠⠒⠀⣿⡁   Scientist at CNRS
⢿⡄⠘⠷⠚⠋⠀   Debian Developer
⠈⠳⣄⠀⠀⠀⠀  http://msxpertsuite.org
          http://www.debian.org

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Bug#924843: [Debichem-devel] Bug#924843: msxpertsuite: FTBFS: MassSpectrum.cpp:50:10: fatal error: pwiz/data/msdata/MSDataFile.hpp: No such file or directory

Graham Inggs-3
Control: reopen 923928

Hi Release Team

The following mail was sent to bug #924843, but I think it should have
been sent to #923928 as well, so here it is.

On Mon, 18 Mar 2019 at 16:03, Filippo Rusconi <[hidden email]> wrote:

>
> found 924843 5.7.3-1
> fixed 924843 5.8.6-2
> block 924843 by 923928
>
> thanks
>
> The fix in version 5.8.6-2 (currently in unstable) is needed because libpwiz
> changed recently the location of the header files. msxpertsuite was uploaded
> after libpwiz exactly as a result of this. However msxpertsuite unfortunately is
> blocked in unstable because the documentation building system (daps) cannot yet
> enter testing. The un-blocking of daps does not seem be happening anytime soon,
> sadly (the un-block bug report was closed last Sun, 17 Mar, see #923928).
>
> So, if the release managers would reconsider not un-blocking daps, then this bug
> would be easily fixable by letting msxpertsuite 5.8.6-2 migrate to testing.
>
> daps is an all-arch project that has no other reverse-dependencies than
> msxpertsuite.  The fact that msxpertsuite's documentation (fairly large and
> complex) can build using daps is a testimony of the robustness of its debian
> packaging.
>
> Thank you for your work on the release of Buster !
> Cheers,
> Filippo

Regards
Graham

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Bug#924843: [Debichem-devel] Bug#924843: msxpertsuite: FTBFS: MassSpectrum.cpp:50:10: fatal error: pwiz/data/msdata/MSDataFile.hpp: No such file or directory

Ivo De Decker-3
Hi,

On Sun, Apr 21, 2019 at 09:32:42PM +0200, Graham Inggs wrote:

> Control: reopen 923928
>
> Hi Release Team
>
> The following mail was sent to bug #924843, but I think it should have
> been sent to #923928 as well, so here it is.
>
> On Mon, 18 Mar 2019 at 16:03, Filippo Rusconi <[hidden email]> wrote:
> >
> > found 924843 5.7.3-1
> > fixed 924843 5.8.6-2
> > block 924843 by 923928
> >
> > thanks
> >
> > The fix in version 5.8.6-2 (currently in unstable) is needed because libpwiz
> > changed recently the location of the header files. msxpertsuite was uploaded
> > after libpwiz exactly as a result of this. However msxpertsuite unfortunately is
> > blocked in unstable because the documentation building system (daps) cannot yet
> > enter testing. The un-blocking of daps does not seem be happening anytime soon,
> > sadly (the un-block bug report was closed last Sun, 17 Mar, see #923928).
> >
> > So, if the release managers would reconsider not un-blocking daps, then this bug
> > would be easily fixable by letting msxpertsuite 5.8.6-2 migrate to testing.

We don't accept new packages into testing at this point. Even if we did, the
changes in msxpertsuite aren't even close to appropriate during the freeze. So
both msexpersuite and daps will not be unblocked.

Please do read the freeze policy:

https://release.debian.org/buster/freeze_policy.html

As msxpertsuite FTBFS in buster, we will need to remove it unless a targeted
fix show up soon.

> > daps is an all-arch project that has no other reverse-dependencies than
> > msxpertsuite.  The fact that msxpertsuite's documentation (fairly large and
> > complex) can build using daps is a testimony of the robustness of its debian
> > packaging.

Ivo