[Debichem-devel] Bug#777998: massxpert: ftbfs with GCC-5

[Matthias Klose]

Package: src:massxpert
Version: 3.4.1-1
Severity: normal
Tags: sid stretch
User: debian-gcc at lists.debian.org
Usertags: ftbfs-gcc-5

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-5/g++-5, but succeeds to build with gcc-4.9/g++-4.9. The
severity of this report may be raised before the stretch release.

The full build log can be found at:
http://people.debian.org/~doko/logs/gcc5-20150205/massxpert_3.4.1-1_unstable_gcc5.log
The last lines of the build log are at the end of this report.

To build with GCC 5, either set CC=gcc-5 CXX=g++-5 explicitly,
or install the gcc, g++, gfortran, ... packages from experimental.

  apt-get -t experimental install g++ 

Common build failures are C11 as the default C mode, 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-5/porting_to.html

[...]
[ 82%] Building CXX object gui/CMakeFiles/massxpert.dir/moc_mzLabOutputOligomerTableViewDlg.cxx.o
cd /«PKGBUILDDIR»/debian/build-arch/gui && /usr/bin/c++   -DQT_CORE_LIB -DQT_GUI_LIB -DQT_SVG_LIB -DQT_XML_LIB -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2  -g -isystem /usr/include/qt4 -isystem /usr/include/qt4/QtSvg -isystem /usr/include/qt4/QtGui -isystem /usr/include/qt4/QtXml -isystem /usr/include/qt4/QtCore -I/«PKGBUILDDIR»/gui -I/«PKGBUILDDIR»/debian/build-arch/gui -I/«PKGBUILDDIR»/debian/build-arch -I/«PKGBUILDDIR»/gui/../lib    -Wall -Werror -g -O2 -g -O0 -o CMakeFiles/massxpert.dir/moc_mzLabOutputOligomerTableViewDlg.cxx.o -c /«PKGBUILDDIR»/debian/build-arch/gui/moc_mzLabOutputOligomerTableViewDlg.cxx
/usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/debian/build-arch/CMakeFiles 92
[ 83%] Building CXX object gui/CMakeFiles/massxpert.dir/moc_mzLabOutputOligomerTableViewModel.cxx.o
cd /«PKGBUILDDIR»/debian/build-arch/gui && /usr/bin/c++   -DQT_CORE_LIB -DQT_GUI_LIB -DQT_SVG_LIB -DQT_XML_LIB -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2  -g -isystem /usr/include/qt4 -isystem /usr/include/qt4/QtSvg -isystem /usr/include/qt4/QtGui -isystem /usr/include/qt4/QtXml -isystem /usr/include/qt4/QtCore -I/«PKGBUILDDIR»/gui -I/«PKGBUILDDIR»/debian/build-arch/gui -I/«PKGBUILDDIR»/debian/build-arch -I/«PKGBUILDDIR»/gui/../lib    -Wall -Werror -g -O2 -g -O0 -o CMakeFiles/massxpert.dir/moc_mzLabOutputOligomerTableViewModel.cxx.o -c /«PKGBUILDDIR»/debian/build-arch/gui/moc_mzLabOutputOligomerTableViewModel.cxx
/usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/debian/build-arch/CMakeFiles 
[ 83%] /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/debian/build-arch/CMakeFiles 
Building CXX object gui/CMakeFiles/massxpert.dir/moc_mzLabWnd.cxx.o
cd /«PKGBUILDDIR»/debian/build-arch/gui && /usr/bin/c++   -DQT_CORE_LIB -DQT_GUI_LIB -DQT_SVG_LIB -DQT_XML_LIB -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2  -g -isystem /usr/include/qt4 -isystem /usr/include/qt4/QtSvg -isystem /usr/include/qt4/QtGui -isystem /usr/include/qt4/QtXml -isystem /usr/include/qt4/QtCore -I/«PKGBUILDDIR»/gui -I/«PKGBUILDDIR»/debian/build-arch/gui -I/«PKGBUILDDIR»/debian/build-arch -I/«PKGBUILDDIR»/gui/../lib    -Wall -Werror -g -O2 -g -O0 -o CMakeFiles/massxpert.dir/moc_mzLabWnd.cxx.o -c /«PKGBUILDDIR»/debian/build-arch/gui/moc_mzLabWnd.cxx
[ 83%] Building CXX object gui/CMakeFiles/massxpert.dir/moc_pkaPhPiDlg.cxx.o
cd /«PKGBUILDDIR»/debian/build-arch/gui && /usr/bin/c++   -DQT_CORE_LIB -DQT_GUI_LIB -DQT_SVG_LIB -DQT_XML_LIB -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2  -g -isystem /usr/include/qt4 -isystem /usr/include/qt4/QtSvg -isystem /usr/include/qt4/QtGui -isystem /usr/include/qt4/QtXml -isystem /usr/include/qt4/QtCore -I/«PKGBUILDDIR»/gui -I/«PKGBUILDDIR»/debian/build-arch/gui -I/«PKGBUILDDIR»/debian/build-arch -I/«PKGBUILDDIR»/gui/../lib    -Wall -Werror -g -O2 -g -O0 -o CMakeFiles/massxpert.dir/moc_pkaPhPiDlg.cxx.o -c /«PKGBUILDDIR»/debian/build-arch/gui/moc_pkaPhPiDlg.cxx
/usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/debian/build-arch/CMakeFiles 93
[ 84%] Building CXX object gui/CMakeFiles/massxpert.dir/moc_polChemDefWnd.cxx.o
cd /«PKGBUILDDIR»/debian/build-arch/gui && /usr/bin/c++   -DQT_CORE_LIB -DQT_GUI_LIB -DQT_SVG_LIB -DQT_XML_LIB -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2  -g -isystem /usr/include/qt4 -isystem /usr/include/qt4/QtSvg -isystem /usr/include/qt4/QtGui -isystem /usr/include/qt4/QtXml -isystem /usr/include/qt4/QtCore -I/«PKGBUILDDIR»/gui -I/«PKGBUILDDIR»/debian/build-arch/gui -I/«PKGBUILDDIR»/debian/build-arch -I/«PKGBUILDDIR»/gui/../lib    -Wall -Werror -g -O2 -g -O0 -o CMakeFiles/massxpert.dir/moc_polChemDefWnd.cxx.o -c /«PKGBUILDDIR»/debian/build-arch/gui/moc_polChemDefWnd.cxx
/usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/debian/build-arch/CMakeFiles 
[ 84%] /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/debian/build-arch/CMakeFiles 
Building CXX object gui/CMakeFiles/massxpert.dir/moc_polymerModificationDlg.cxx.o
cd /«PKGBUILDDIR»/debian/build-arch/gui && /usr/bin/c++   -DQT_CORE_LIB -DQT_GUI_LIB -DQT_SVG_LIB -DQT_XML_LIB -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2  -g -isystem /usr/include/qt4 -isystem /usr/include/qt4/QtSvg -isystem /usr/include/qt4/QtGui -isystem /usr/include/qt4/QtXml -isystem /usr/include/qt4/QtCore -I/«PKGBUILDDIR»/gui -I/«PKGBUILDDIR»/debian/build-arch/gui -I/«PKGBUILDDIR»/debian/build-arch -I/«PKGBUILDDIR»/gui/../lib    -Wall -Werror -g -O2 -g -O0 -o CMakeFiles/massxpert.dir/moc_polymerModificationDlg.cxx.o -c /«PKGBUILDDIR»/debian/build-arch/gui/moc_polymerModificationDlg.cxx
[ 84%] /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/debian/build-arch/CMakeFiles 94
Building CXX object gui/CMakeFiles/massxpert.dir/moc_sequenceEditorFindDlg.cxx.o
cd /«PKGBUILDDIR»/debian/build-arch/gui && /usr/bin/c++   -DQT_CORE_LIB -DQT_GUI_LIB -DQT_SVG_LIB -DQT_XML_LIB -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2  -g -isystem /usr/include/qt4 -isystem /usr/include/qt4/QtSvg -isystem /usr/include/qt4/QtGui -isystem /usr/include/qt4/QtXml -isystem /usr/include/qt4/QtCore -I/«PKGBUILDDIR»/gui -I/«PKGBUILDDIR»/debian/build-arch/gui -I/«PKGBUILDDIR»/debian/build-arch -I/«PKGBUILDDIR»/gui/../lib    -Wall -Werror -g -O2 -g -O0 -o CMakeFiles/massxpert.dir/moc_sequenceEditorFindDlg.cxx.o -c /«PKGBUILDDIR»/debian/build-arch/gui/moc_sequenceEditorFindDlg.cxx
[ 85%] Building CXX object gui/CMakeFiles/massxpert.dir/moc_sequenceEditorGraphicsView.cxx.o
cd /«PKGBUILDDIR»/debian/build-arch/gui && /usr/bin/c++   -DQT_CORE_LIB -DQT_GUI_LIB -DQT_SVG_LIB -DQT_XML_LIB -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2  -g -isystem /usr/include/qt4 -isystem /usr/include/qt4/QtSvg -isystem /usr/include/qt4/QtGui -isystem /usr/include/qt4/QtXml -isystem /usr/include/qt4/QtCore -I/«PKGBUILDDIR»/gui -I/«PKGBUILDDIR»/debian/build-arch/gui -I/«PKGBUILDDIR»/debian/build-arch -I/«PKGBUILDDIR»/gui/../lib    -Wall -Werror -g -O2 -g -O0 -o CMakeFiles/massxpert.dir/moc_sequenceEditorGraphicsView.cxx.o -c /«PKGBUILDDIR»/debian/build-arch/gui/moc_sequenceEditorGraphicsView.cxx
/usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/debian/build-arch/CMakeFiles 
[ 85%] Building CXX object gui/CMakeFiles/massxpert.dir/moc_sequenceEditorWnd.cxx.o
cd /«PKGBUILDDIR»/debian/build-arch/gui && /usr/bin/c++   -DQT_CORE_LIB -DQT_GUI_LIB -DQT_SVG_LIB -DQT_XML_LIB -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2  -g -isystem /usr/include/qt4 -isystem /usr/include/qt4/QtSvg -isystem /usr/include/qt4/QtGui -isystem /usr/include/qt4/QtXml -isystem /usr/include/qt4/QtCore -I/«PKGBUILDDIR»/gui -I/«PKGBUILDDIR»/debian/build-arch/gui -I/«PKGBUILDDIR»/debian/build-arch -I/«PKGBUILDDIR»/gui/../lib    -Wall -Werror -g -O2 -g -O0 -o CMakeFiles/massxpert.dir/moc_sequenceEditorWnd.cxx.o -c /«PKGBUILDDIR»/debian/build-arch/gui/moc_sequenceEditorWnd.cxx
/usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/debian/build-arch/CMakeFiles 
[ 85%] Building CXX object gui/CMakeFiles/massxpert.dir/moc_sequenceImportDlg.cxx.o
cd /«PKGBUILDDIR»/debian/build-arch/gui && /usr/bin/c++   -DQT_CORE_LIB -DQT_GUI_LIB -DQT_SVG_LIB -DQT_XML_LIB -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2  -g -isystem /usr/include/qt4 -isystem /usr/include/qt4/QtSvg -isystem /usr/include/qt4/QtGui -isystem /usr/include/qt4/QtXml -isystem /usr/include/qt4/QtCore -I/«PKGBUILDDIR»/gui -I/«PKGBUILDDIR»/debian/build-arch/gui -I/«PKGBUILDDIR»/debian/build-arch -I/«PKGBUILDDIR»/gui/../lib    -Wall -Werror -g -O2 -g -O0 -o CMakeFiles/massxpert.dir/moc_sequenceImportDlg.cxx.o -c /«PKGBUILDDIR»/debian/build-arch/gui/moc_sequenceImportDlg.cxx
/usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/debian/build-arch/CMakeFiles 95
[ 86%] /usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/debian/build-arch/CMakeFiles 
Building CXX object gui/CMakeFiles/massxpert.dir/moc_sequencePurificationDlg.cxx.o
cd /«PKGBUILDDIR»/debian/build-arch/gui && /usr/bin/c++   -DQT_CORE_LIB -DQT_GUI_LIB -DQT_SVG_LIB -DQT_XML_LIB -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2  -g -isystem /usr/include/qt4 -isystem /usr/include/qt4/QtSvg -isystem /usr/include/qt4/QtGui -isystem /usr/include/qt4/QtXml -isystem /usr/include/qt4/QtCore -I/«PKGBUILDDIR»/gui -I/«PKGBUILDDIR»/debian/build-arch/gui -I/«PKGBUILDDIR»/debian/build-arch -I/«PKGBUILDDIR»/gui/../lib    -Wall -Werror -g -O2 -g -O0 -o CMakeFiles/massxpert.dir/moc_sequencePurificationDlg.cxx.o -c /«PKGBUILDDIR»/debian/build-arch/gui/moc_sequencePurificationDlg.cxx
[ 86%] Building CXX object gui/CMakeFiles/massxpert.dir/moc_spectrumCalculationDlg.cxx.o
cd /«PKGBUILDDIR»/debian/build-arch/gui && /usr/bin/c++   -DQT_CORE_LIB -DQT_GUI_LIB -DQT_SVG_LIB -DQT_XML_LIB -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2  -g -isystem /usr/include/qt4 -isystem /usr/include/qt4/QtSvg -isystem /usr/include/qt4/QtGui -isystem /usr/include/qt4/QtXml -isystem /usr/include/qt4/QtCore -I/«PKGBUILDDIR»/gui -I/«PKGBUILDDIR»/debian/build-arch/gui -I/«PKGBUILDDIR»/debian/build-arch -I/«PKGBUILDDIR»/gui/../lib    -Wall -Werror -g -O2 -g -O0 -o CMakeFiles/massxpert.dir/moc_spectrumCalculationDlg.cxx.o -c /«PKGBUILDDIR»/debian/build-arch/gui/moc_spectrumCalculationDlg.cxx
/usr/bin/cmake -E cmake_progress_report /«PKGBUILDDIR»/debian/build-arch/CMakeFiles 
make[3]: *** No rule to make target 'lib/libmasslib.a', needed by 'gui/massxpert'.  Stop.
make[3]: *** Waiting for unfinished jobs....
[ 86%] Building CXX object gui/CMakeFiles/massxpert.dir/qrc_application.cxx.o
cd /«PKGBUILDDIR»/debian/build-arch/gui && /usr/bin/c++   -DQT_CORE_LIB -DQT_GUI_LIB -DQT_SVG_LIB -DQT_XML_LIB -g -O2 -fPIE -fstack-protector-strong -Wformat -Werror=format-security -D_FORTIFY_SOURCE=2  -g -isystem /usr/include/qt4 -isystem /usr/include/qt4/QtSvg -isystem /usr/include/qt4/QtGui -isystem /usr/include/qt4/QtXml -isystem /usr/include/qt4/QtCore -I/«PKGBUILDDIR»/gui -I/«PKGBUILDDIR»/debian/build-arch/gui -I/«PKGBUILDDIR»/debian/build-arch -I/«PKGBUILDDIR»/gui/../lib    -Wall -Werror -g -O2 -g -O0 -o CMakeFiles/massxpert.dir/qrc_application.cxx.o -c /«PKGBUILDDIR»/debian/build-arch/gui/qrc_application.cxx
make[3]: Leaving directory '/«PKGBUILDDIR»/debian/build-arch'
make[2]: *** [gui/CMakeFiles/massxpert.dir/all] Error 2
CMakeFiles/Makefile2:128: recipe for target 'gui/CMakeFiles/massxpert.dir/all' failed
make[2]: Leaving directory '/«PKGBUILDDIR»/debian/build-arch'
make[1]: *** [all] Error 2
Makefile:120: recipe for target 'all' failed
make[1]: Leaving directory '/«PKGBUILDDIR»/debian/build-arch'
make: *** [build-arch-stamp] Error 2
debian/rules:91: recipe for target 'build-arch-stamp' failed
dpkg-buildpackage: error: debian/rules build-arch gave error exit status 2