[Debian-med-packaging] Bug#1098031: ugene: ftbfs with GCC-15

[Matthias Klose]

Package: src:ugene
Version: 51.0+dfsg-3
Severity: important
Tags: sid forky
User: debian-gcc at lists.debian.org
Usertags: ftbfs-gcc-15

[This bug is NOT 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-15/g++-15, but succeeds to build with gcc-14/g++-14. The
severity of this report will be raised before the forky release.

The full build log can be found at:
http://qa-logs.debian.net/2025/02/16/amd64exp/ugene_51.0+dfsg-3_unstable_gccexp.log.gz
The last lines of the build log are at the end of this report.

To build with GCC 15, either set CC=gcc-15 CXX=g++-15 explicitly,
or install the gcc, g++, gfortran, ... packages from experimental.

  apt-get -t=experimental install g++ 

GCC 15 now defaults to the C23/C++23 standards, exposing many FTBFS.
Other 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-15/porting_to.html

[...]
g++ -c -pipe -Wall -Wno-deprecated-declarations -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++1y -D_REENTRANT -w -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"hmm2\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I_tmp/ui -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/moc_HMMSearchQDActor.o _tmp/moc/release/moc_HMMSearchQDActor.cpp
g++ -c -pipe -Wall -Wno-deprecated-declarations -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++1y -D_REENTRANT -w -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"hmm2\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I_tmp/ui -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/moc_uhmmsearch.o _tmp/moc/release/moc_uhmmsearch.cpp
g++ -c -pipe -Wall -Wno-deprecated-declarations -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++1y -D_REENTRANT -w -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"hmm2\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I_tmp/ui -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/moc_uhmmerTests.o _tmp/moc/release/moc_uhmmerTests.cpp
rm -f libhmm2.so
g++ -Wl,--no-undefined -Wl,-z,relro -Wl,-z,now -Wl,-rpath,'$ORIGIN' -Wl,-rpath,'$ORIGIN/..' -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libhmm2.so -o libhmm2.so _tmp/obj/release/HMMIO.o _tmp/obj/release/HMMIOWorker.o _tmp/obj/release/TaskLocalStorage.o _tmp/obj/release/uHMMPlugin.o _tmp/obj/release/aligneval.o _tmp/obj/release/alphabet.o _tmp/obj/release/altivec_algorithms.o _tmp/obj/release/checksum.o _tmp/obj/release/cluster.o _tmp/obj/release/core_algorithms.o _tmp/obj/release/fast_algorithms.o _tmp/obj/release/histogram.o _tmp/obj/release/iupac.o _tmp/obj/release/masks.o _tmp/obj/release/mathsupport.o _tmp/obj/release/modelmakers.o _tmp/obj/release/msa.o _tmp/obj/release/plan7.o _tmp/obj/release/prior.o _tmp/obj/release/sqerror.o _tmp/obj/release/sre_math.o _tmp/obj/release/sre_random.o _tmp/obj/release/sre_string.o _tmp/obj/release/tophits.o _tmp/obj/release/trace.o _tmp/obj/release/vectorops.o _tmp/obj/release/weight.o _tmp/obj/release/HMMBuildDialogController.o _tmp/obj/release/HMMBuildWorker.o _tmp/obj/release/uhmmbuild.o _tmp/obj/release/HMMCalibrateDialogController.o _tmp/obj/release/HMMCalibrateTask.o _tmp/obj/release/uhmmcalibrate.o _tmp/obj/release/HMMSearchDialogController.o _tmp/obj/release/HMMSearchTask.o _tmp/obj/release/HMMSearchWorker.o _tmp/obj/release/HMMSearchQDActor.o _tmp/obj/release/uhmmsearch.o _tmp/obj/release/uhmmsearch_opt.o _tmp/obj/release/uhmmerTests.o _tmp/obj/release/uhmmsearch_sse.o _tmp/obj/release/qrc_hmm2.o _tmp/obj/release/moc_HMMIO.o _tmp/obj/release/moc_HMMIOWorker.o _tmp/obj/release/moc_uHMMPlugin.o _tmp/obj/release/moc_HMMBuildDialogController.o _tmp/obj/release/moc_HMMBuildWorker.o _tmp/obj/release/moc_uhmmbuild.o _tmp/obj/release/moc_HMMCalibrateDialogController.o _tmp/obj/release/moc_HMMCalibrateTask.o _tmp/obj/release/moc_HMMSearchDialogController.o _tmp/obj/release/moc_HMMSearchTask.o _tmp/obj/release/moc_HMMSearchWorker.o _tmp/obj/release/moc_HMMSearchQDActor.o _tmp/obj/release/moc_uhmmsearch.o _tmp/obj/release/moc_uhmmerTests.o  -L../../_release -lU2Core -lU2Algorithm -lU2Formats -lU2Gui -lU2View -lU2Test -lU2Lang -lU2Designer -lpthread /usr/lib/x86_64-linux-gnu/libQt5Svg.so /usr/lib/x86_64-linux-gnu/libQt5Widgets.so /usr/lib/x86_64-linux-gnu/libQt5Gui.so /usr/lib/x86_64-linux-gnu/libQt5Script.so /usr/lib/x86_64-linux-gnu/libQt5Network.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so /usr/lib/x86_64-linux-gnu/libQt5Core.so -lGL    
rm -f ../../_release/plugins/libhmm2.so
mv -f libhmm2.so ../../_release/plugins/libhmm2.so
make[3]: Leaving directory '/build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/hmm2'
make[2]: Leaving directory '/build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/hmm2'
cd src/plugins_3rdparty/gor4/ && ( test -e Makefile || /usr/lib/qt5/bin/qmake -o Makefile /build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/gor4/gor4.pro 'QMAKE_CFLAGS_RELEASE=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CFLAGS_DEBUG=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CXXFLAGS_RELEASE=-g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CXXFLAGS_DEBUG=-g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_LFLAGS_RELEASE=-Wl,-z,relro -Wl,-z,now' 'QMAKE_LFLAGS_DEBUG=-Wl,-z,relro -Wl,-z,now' QMAKE_STRIP=: PREFIX=/usr QMAKE_CFLAGS_ISYSTEM= QMAKE_CXXFLAGS_ISYSTEM= UGENE_WITHOUT_NON_FREE=1 UGENE_LRELEASE=lrelease-qt5 UGENE_LUPDATE=lupdate-qt5 UGENE_USE_BUNDLED_ZLIB=0 UGENE_USE_SYSTEM_SQLITE=1 ) && make -f Makefile 
make[2]: Entering directory '/build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/gor4'
make -f Makefile.Release
make[3]: Entering directory '/build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/gor4'
g++ -c -pipe -Wall -Wno-deprecated-declarations -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++1y -D_REENTRANT -Wall -Wextra -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"gor4\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/gor.o src/gor.cpp
g++ -c -pipe -Wall -Wno-deprecated-declarations -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++1y -D_REENTRANT -Wall -Wextra -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"gor4\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/GorIVAlgTask.o src/GorIVAlgTask.cpp
g++ -c -pipe -Wall -Wno-deprecated-declarations -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++1y -D_REENTRANT -Wall -Wextra -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"gor4\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/GorIVPlugin.o src/GorIVPlugin.cpp
g++ -c -pipe -Wall -Wno-deprecated-declarations -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++1y -D_REENTRANT -Wall -Wextra -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"gor4\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/nrutil.o src/nrutil.cpp
/usr/lib/qt5/bin/rcc -name gor4 gor4.qrc -o _tmp/rcc/qrc_gor4.cpp
g++ -pipe -Wall -Wno-deprecated-declarations -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++1y -D_REENTRANT -dM -E -o _tmp/moc/release/moc_predefs.h /usr/lib/x86_64-linux-gnu/qt5/mkspecs/features/data/dummy.cpp
g++ -c -pipe -Wall -Wno-deprecated-declarations -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++1y -D_REENTRANT -Wall -Wextra -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"gor4\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/qrc_gor4.o _tmp/rcc/qrc_gor4.cpp
/usr/lib/qt5/bin/moc -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"gor4\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB --include /build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/gor4/_tmp/moc/release/moc_predefs.h -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -I/build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/gor4 -I/build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/gor4/src -I/build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/gor4/_tmp -I/build/reproducible-path/ugene-51.0+dfsg/src/include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I/usr/include/c++/15 -I/usr/include/x86_64-linux-gnu/c++/15 -I/usr/include/c++/15/backward -I/usr/lib/gcc/x86_64-linux-gnu/15/include -I/usr/local/include -I/usr/include/x86_64-linux-gnu -I/usr/include src/GorIVAlgTask.h -o _tmp/moc/release/moc_GorIVAlgTask.cpp
/usr/lib/qt5/bin/moc -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"gor4\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB --include /build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/gor4/_tmp/moc/release/moc_predefs.h -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -I/build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/gor4 -I/build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/gor4/src -I/build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/gor4/_tmp -I/build/reproducible-path/ugene-51.0+dfsg/src/include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I/usr/include/c++/15 -I/usr/include/x86_64-linux-gnu/c++/15 -I/usr/include/c++/15/backward -I/usr/lib/gcc/x86_64-linux-gnu/15/include -I/usr/local/include -I/usr/include/x86_64-linux-gnu -I/usr/include src/GorIVPlugin.h -o _tmp/moc/release/moc_GorIVPlugin.cpp
g++ -c -pipe -Wall -Wno-deprecated-declarations -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++1y -D_REENTRANT -Wall -Wextra -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"gor4\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/moc_GorIVPlugin.o _tmp/moc/release/moc_GorIVPlugin.cpp
g++ -c -pipe -Wall -Wno-deprecated-declarations -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++1y -D_REENTRANT -Wall -Wextra -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"gor4\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/moc_GorIVAlgTask.o _tmp/moc/release/moc_GorIVAlgTask.cpp
rm -f libgor4.so
g++ -Wl,--no-undefined -Wl,-z,relro -Wl,-z,now -Wl,-rpath,'$ORIGIN' -Wl,-rpath,'$ORIGIN/..' -Wl,-z,relro -Wl,-z,now -shared -Wl,-soname,libgor4.so -o libgor4.so _tmp/obj/release/gor.o _tmp/obj/release/GorIVAlgTask.o _tmp/obj/release/GorIVPlugin.o _tmp/obj/release/nrutil.o _tmp/obj/release/qrc_gor4.o _tmp/obj/release/moc_GorIVAlgTask.o _tmp/obj/release/moc_GorIVPlugin.o  -L../../_release -lU2Core -lU2Algorithm -lU2Formats -lU2Gui -lU2View -lU2Test -lU2Lang -lU2Designer -lpthread /usr/lib/x86_64-linux-gnu/libQt5Svg.so /usr/lib/x86_64-linux-gnu/libQt5Widgets.so /usr/lib/x86_64-linux-gnu/libQt5Gui.so /usr/lib/x86_64-linux-gnu/libQt5Script.so /usr/lib/x86_64-linux-gnu/libQt5Network.so /usr/lib/x86_64-linux-gnu/libQt5Xml.so /usr/lib/x86_64-linux-gnu/libQt5Core.so -lGL    
rm -f ../../_release/plugins/libgor4.so
mv -f libgor4.so ../../_release/plugins/libgor4.so
make[3]: Leaving directory '/build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/gor4'
make[2]: Leaving directory '/build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/gor4'
cd src/plugins_3rdparty/primer3/ && ( test -e Makefile || /usr/lib/qt5/bin/qmake -o Makefile /build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/primer3/primer3.pro 'QMAKE_CFLAGS_RELEASE=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CFLAGS_DEBUG=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CXXFLAGS_RELEASE=-g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CXXFLAGS_DEBUG=-g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_LFLAGS_RELEASE=-Wl,-z,relro -Wl,-z,now' 'QMAKE_LFLAGS_DEBUG=-Wl,-z,relro -Wl,-z,now' QMAKE_STRIP=: PREFIX=/usr QMAKE_CFLAGS_ISYSTEM= QMAKE_CXXFLAGS_ISYSTEM= UGENE_WITHOUT_NON_FREE=1 UGENE_LRELEASE=lrelease-qt5 UGENE_LUPDATE=lupdate-qt5 UGENE_USE_BUNDLED_ZLIB=0 UGENE_USE_SYSTEM_SQLITE=1 ) && make -f Makefile 
make[2]: Entering directory '/build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/primer3'
make -f Makefile.Release
make[3]: Entering directory '/build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/primer3'
/usr/lib/qt5/bin/uic src/Primer3Dialog.ui -o _tmp/ui/ui_Primer3Dialog.h
/usr/lib/qt5/bin/uic src/temperature/Primer3TmCalculatorSettingsWidget.ui -o _tmp/ui/ui_Primer3TmCalculatorSettingsWidget.h
g++ -c -pipe -Wall -Wno-deprecated-declarations -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -std=gnu++1y -D_REENTRANT -w -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"primer3\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc/primer3_core -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I_tmp/ui -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/Primer3Tests.o src/Primer3Tests.cpp
gcc -c -pipe -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -w -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"primer3\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc/primer3_core -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I_tmp/ui -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/dpal.o src/primer3_core/dpal.c
gcc -c -pipe -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -w -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"primer3\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc/primer3_core -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I_tmp/ui -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/format_output.o src/primer3_core/format_output.c
gcc -c -pipe -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -w -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"primer3\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc/primer3_core -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I_tmp/ui -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/masker.o src/primer3_core/masker.c
gcc -c -pipe -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -w -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"primer3\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc/primer3_core -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I_tmp/ui -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/oligotm.o src/primer3_core/oligotm.c
gcc -c -pipe -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -w -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"primer3\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc/primer3_core -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I_tmp/ui -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/p3_seq_lib.o src/primer3_core/p3_seq_lib.c
gcc -c -pipe -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -w -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"primer3\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc/primer3_core -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I_tmp/ui -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/primer3_boulder_main.o src/primer3_core/primer3_boulder_main.c
gcc -c -pipe -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -w -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"primer3\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc/primer3_core -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I_tmp/ui -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/print_boulder.o src/primer3_core/print_boulder.c
gcc -c -pipe -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -w -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"primer3\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc/primer3_core -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I_tmp/ui -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/read_boulder.o src/primer3_core/read_boulder.c
gcc -c -pipe -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/ugene-51.0+dfsg=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -w -fPIC -DUGENE_VERSION=51.0 -DQT_DISABLE_DEPRECATED_BEFORE=0x050900 -DUGENE_USE_SYSTEM_SQLITE -DQT_DLL -DNDEBUG -DPLUGIN_ID=\"primer3\" -DQT_NO_DEBUG -DQT_SVG_LIB -DQT_WIDGETS_LIB -DQT_GUI_LIB -DQT_SCRIPT_LIB -DQT_NETWORK_LIB -DQT_XML_LIB -DQT_CORE_LIB -I. -Isrc/primer3_core -Isrc -I_tmp -I../../include -I/usr/include/x86_64-linux-gnu/qt5 -I/usr/include/x86_64-linux-gnu/qt5/QtSvg -I/usr/include/x86_64-linux-gnu/qt5/QtWidgets -I/usr/include/x86_64-linux-gnu/qt5/QtGui -I/usr/include/x86_64-linux-gnu/qt5/QtScript -I/usr/include/x86_64-linux-gnu/qt5/QtNetwork -I/usr/include/x86_64-linux-gnu/qt5/QtXml -I/usr/include/x86_64-linux-gnu/qt5/QtCore -I_tmp/moc/release -I_tmp/ui -I/usr/lib/x86_64-linux-gnu/qt5/mkspecs/linux-g++ -o _tmp/obj/release/thal.o src/primer3_core/thal.c
src/primer3_core/read_boulder.c:107:15: error: conflicting types for ‘strtod’; have ‘double(void)’
  107 | extern double strtod();
      |               ^~~~~~
In file included from src/primer3_core/read_boulder.c:46:
/usr/include/stdlib.h:118:15: note: previous declaration of ‘strtod’ with type ‘double(const char * restrict,  char ** restrict)’
  118 | extern double strtod (const char *__restrict __nptr,
      |               ^~~~~~
src/primer3_core/read_boulder.c: In function ‘parse_double’:
src/primer3_core/read_boulder.c:1002:12: error: too many arguments to function ‘strtod’; expected 0, have 2
 1002 |     *out = strtod(datum, &nptr);
      |            ^~~~~~ ~~~~~
src/primer3_core/read_boulder.c:107:15: note: declared here
  107 | extern double strtod();
      |               ^~~~~~
make[3]: *** [Makefile.Release:1603: _tmp/obj/release/read_boulder.o] Error 1
make[3]: *** Waiting for unfinished jobs....
make[3]: Leaving directory '/build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/primer3'
make[2]: *** [Makefile:42: release] Error 2
make[2]: Leaving directory '/build/reproducible-path/ugene-51.0+dfsg/src/plugins_3rdparty/primer3'
make[1]: *** [Makefile:1089: sub-src-plugins_3rdparty-primer3-make_first-ordered] Error 2
make[1]: Leaving directory '/build/reproducible-path/ugene-51.0+dfsg'
dh_auto_build: error: make -j8 returned exit code 2
make: *** [debian/rules:12: binary] Error 25
dpkg-buildpackage: error: debian/rules binary subprocess returned exit status 2