Your message dated Sun, 12 Jan 2020 16:25:44 +0000 with message-id <[email protected]> and subject line Bug#933334: fixed in ugene 33.0+dfsg-1 has caused the Debian Bug report #933334, regarding ugene: FTBFS in buster (dpkg-shlibdeps error) 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 [email protected] immediately.) -- 933334: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=933334 Debian Bug Tracking System Contact [email protected] with problems
--- Begin Message ---Package: src:ugene Version: 1.31.1+dfsg-1 Severity: serious Tags: ftbfs Dear maintainer: I tried to build this package in buster but it failed: -------------------------------------------------------------------------------- [...] debian/rules build-arch dh build-arch --buildsystem=qmake dh_update_autotools_config -a -O--buildsystem=qmake dh_autoreconf -a -O--buildsystem=qmake debian/rules override_dh_auto_configure make[1]: Entering directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg' # exclude non-free plugins dh_auto_configure -- QMAKE_CFLAGS_ISYSTEM= QMAKE_CXXFLAGS_ISYSTEM= UGENE_WITHOUT_NON_FREE=1 UGENE_LRELEASE=lrelease-qt5 UGENE_LUPDATE=lupdate-qt5 qmake -makefile "QMAKE_CFLAGS_RELEASE=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" "QMAKE_CFLAGS_DEBUG=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" "QMAKE_CXXFLAGS_RELEASE=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" "QMAKE_CXXFLAGS_DEBUG=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -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 Info: creating stash file /<<BUILDDIR>>/ugene-1.31.1+dfsg/.qmake.stash Project MESSAGE: Using QT from /usr/lib/qt5/bin Project MESSAGE: Generating traslations for language: ru Warning: dropping duplicate messages in '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/_debug/transl_ru.qm': [... snipped ...] /usr/lib/qt5/bin/qmake -install qinstall -exe ../../_release/plugins/libsmith_waterman.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libsmith_waterman.so.1.0.0 : --strip-unneeded /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libsmith_waterman.so.1.0.0 ln -f -s libsmith_waterman.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libsmith_waterman.so ln -f -s libsmith_waterman.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libsmith_waterman.so.1 ln -f -s libsmith_waterman.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libsmith_waterman.so.1.0 make[4]: Leaving directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/smith_waterman' make[3]: Leaving directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/smith_waterman' cd src/plugins/test_runner/ && ( test -e Makefile || /usr/lib/qt5/bin/qmake -o Makefile /<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/test_runner/test_runner.pro 'QMAKE_CFLAGS_RELEASE=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CFLAGS_DEBUG=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CXXFLAGS_RELEASE=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CXXFLAGS_DEBUG=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -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 ) && make -f Makefile install make[3]: Entering directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/test_runner' make -f Makefile.Release install make[4]: Entering directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/test_runner' /usr/lib/qt5/bin/qmake -install qinstall -exe ../../_release/plugins/libtest_runner.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libtest_runner.so.1.0.0 : --strip-unneeded /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libtest_runner.so.1.0.0 ln -f -s libtest_runner.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libtest_runner.so ln -f -s libtest_runner.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libtest_runner.so.1 ln -f -s libtest_runner.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libtest_runner.so.1.0 make[4]: Leaving directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/test_runner' make[3]: Leaving directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/test_runner' cd src/plugins/weight_matrix/ && ( test -e Makefile || /usr/lib/qt5/bin/qmake -o Makefile /<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/weight_matrix/weight_matrix.pro 'QMAKE_CFLAGS_RELEASE=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CFLAGS_DEBUG=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CXXFLAGS_RELEASE=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CXXFLAGS_DEBUG=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -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 ) && make -f Makefile install make[3]: Entering directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/weight_matrix' make -f Makefile.Release install make[4]: Entering directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/weight_matrix' /usr/lib/qt5/bin/qmake -install qinstall -exe ../../_release/plugins/libweight_matrix.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libweight_matrix.so.1.0.0 : --strip-unneeded /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libweight_matrix.so.1.0.0 ln -f -s libweight_matrix.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libweight_matrix.so ln -f -s libweight_matrix.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libweight_matrix.so.1 ln -f -s libweight_matrix.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libweight_matrix.so.1.0 make[4]: Leaving directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/weight_matrix' make[3]: Leaving directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/weight_matrix' cd src/plugins/wevote_support/ && ( test -e Makefile || /usr/lib/qt5/bin/qmake -o Makefile /<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/wevote_support/wevote_support.pro 'QMAKE_CFLAGS_RELEASE=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CFLAGS_DEBUG=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CXXFLAGS_RELEASE=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CXXFLAGS_DEBUG=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -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_ISYSTE M= QMAKE_CXXFLAGS_ISYSTEM= UGENE_WITHOUT_NON_FREE=1 UGENE_LRELEASE=lrelease-qt5 UGENE_LUPDATE=lupdate-qt5 ) && make -f Makefile install make[3]: Entering directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/wevote_support' make -f Makefile.Release install make[4]: Entering directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/wevote_support' /usr/lib/qt5/bin/qmake -install qinstall -exe ../../_release/plugins/libwevote_support.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libwevote_support.so.1.0.0 : --strip-unneeded /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libwevote_support.so.1.0.0 ln -f -s libwevote_support.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libwevote_support.so ln -f -s libwevote_support.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libwevote_support.so.1 ln -f -s libwevote_support.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libwevote_support.so.1.0 make[4]: Leaving directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/wevote_support' make[3]: Leaving directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/wevote_support' cd src/plugins/workflow_designer/ && ( test -e Makefile || /usr/lib/qt5/bin/qmake -o Makefile /<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/workflow_designer/workflow_designer.pro 'QMAKE_CFLAGS_RELEASE=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CFLAGS_DEBUG=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CXXFLAGS_RELEASE=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CXXFLAGS_DEBUG=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -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_CFLA GS_ISYSTEM= QMAKE_CXXFLAGS_ISYSTEM= UGENE_WITHOUT_NON_FREE=1 UGENE_LRELEASE=lrelease-qt5 UGENE_LUPDATE=lupdate-qt5 ) && make -f Makefile install make[3]: Entering directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/workflow_designer' make -f Makefile.Release install make[4]: Entering directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/workflow_designer' /usr/lib/qt5/bin/qmake -install qinstall -exe ../../_release/plugins/libworkflow_designer.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libworkflow_designer.so.1.0.0 : --strip-unneeded /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libworkflow_designer.so.1.0.0 ln -f -s libworkflow_designer.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libworkflow_designer.so ln -f -s libworkflow_designer.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libworkflow_designer.so.1 ln -f -s libworkflow_designer.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libworkflow_designer.so.1.0 make[4]: Leaving directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/workflow_designer' make[3]: Leaving directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/workflow_designer' cd src/plugins/opencl_support/ && ( test -e Makefile || /usr/lib/qt5/bin/qmake -o Makefile /<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/opencl_support/opencl_support.pro 'QMAKE_CFLAGS_RELEASE=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CFLAGS_DEBUG=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CXXFLAGS_RELEASE=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2' 'QMAKE_CXXFLAGS_DEBUG=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/ugene-1.31.1+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -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_ISYSTE M= QMAKE_CXXFLAGS_ISYSTEM= UGENE_WITHOUT_NON_FREE=1 UGENE_LRELEASE=lrelease-qt5 UGENE_LUPDATE=lupdate-qt5 ) && make -f Makefile install make[3]: Entering directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/opencl_support' make -f Makefile.Release install make[4]: Entering directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/opencl_support' /usr/lib/qt5/bin/qmake -install qinstall -exe ../../_release/plugins/libopencl_support.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libopencl_support.so.1.0.0 : --strip-unneeded /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libopencl_support.so.1.0.0 ln -f -s libopencl_support.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libopencl_support.so ln -f -s libopencl_support.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libopencl_support.so.1 ln -f -s libopencl_support.so.1.0.0 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/plugins/libopencl_support.so.1.0 make[4]: Leaving directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/opencl_support' make[3]: Leaving directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg/src/plugins/opencl_support' /usr/lib/qt5/bin/qmake -install qinstall -exe /<<BUILDDIR>>/ugene-1.31.1+dfsg/ugene /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/bin/ugene : /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/bin/ugene /usr/lib/qt5/bin/qmake -install qinstall -exe /<<BUILDDIR>>/ugene-1.31.1+dfsg/src/_release/ugene /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/ugene : /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/ugene /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/src/_release/transl_en.qm /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/transl_en.qm /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/src/_release/transl_ru.qm /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/lib/ugene/transl_ru.qm /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/adapters /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/adapters /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/back_translation /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/back_translation /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/biostruct3d_plugin /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/biostruct3d_plugin /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/cmdline /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/cmdline /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/custom_annotations /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/custom_annotations /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/DBXRefRegistry.txt /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/DBXRefRegistry.txt /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/enzymes /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/enzymes /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/genome_lengths /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/genome_lengths /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/license /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/license /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/position_weight_matrix /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/position_weight_matrix /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/primer3 /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/primer3 /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/query_samples /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/query_samples /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/samples /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/samples /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/sitecon_models /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/sitecon_models /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/snp_scripts /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/snp_scripts /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/translations.txt /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/translations.txt /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/weight_matrix /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/weight_matrix /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/data/workflow_samples /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/ugene/data/workflow_samples /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/installer/_common_data/ugene.desktop /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/applications/ugene.desktop /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/installer/_common_data/ugene.png /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/pixmaps/ugene.png /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/installer/_common_data/ugene.xpm /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/pixmaps/ugene.xpm /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/installer/_common_data/application-x-ugene.xml /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/mime/packages/application-x-ugene.xml /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/installer/_common_data/application-x-ugene-ext.png /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/icons/hicolor/32x32/mimetypes/application-x-ugene-ext.png /usr/lib/qt5/bin/qmake -install qinstall /<<BUILDDIR>>/ugene-1.31.1+dfsg/installer/_common_data/ugene.1.gz /<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/tmp/usr/share/man/man1/ugene.1.gz make[2]: Leaving directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg' # This should be default: # /usr/bin/make INSTALL_ROOT=$(pwd)/debian/ugene install # Remove data dir which goes to ugene-data package rm -rf debian/ugene/usr/share/ugene make[1]: Leaving directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg' dh_install -a -O--buildsystem=qmake dh_installdocs -a -O--buildsystem=qmake dh_installchangelogs -a -O--buildsystem=qmake dh_installman -a -O--buildsystem=qmake dh_installinit -a -O--buildsystem=qmake dh_installsystemduser -a -O--buildsystem=qmake dh_icons -a -O--buildsystem=qmake dh_perl -a -O--buildsystem=qmake dh_link -a -O--buildsystem=qmake dh_strip_nondeterminism -a -O--buildsystem=qmake dh_compress -a -O--buildsystem=qmake dh_fixperms -a -O--buildsystem=qmake dh_missing -a -O--buildsystem=qmake debian/rules override_dh_dwz make[1]: Entering directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg' echo "Do not run dh_dwz since it just results in:" Do not run dh_dwz since it just results in: echo " dwz: debian/ugene/usr/lib/ugene/libU2View.so.1.0.0: Couldn't find DIE referenced by DW_OP_GNU_parameter_ref" dwz: debian/ugene/usr/lib/ugene/libU2View.so.1.0.0: Couldn't find DIE referenced by DW_OP_GNU_parameter_ref echo " dwz: debian/ugene/usr/lib/ugene/plugins/libexternal_tool_support.so.1.0.0: Couldn't find DIE referenced by DW_OP_GNU_parameter_ref" dwz: debian/ugene/usr/lib/ugene/plugins/libexternal_tool_support.so.1.0.0: Couldn't find DIE referenced by DW_OP_GNU_parameter_ref echo " dh_dwz: dwz -q -mdebian/ugene/usr/lib/debug/.dwz/x86_64-linux-gnu/ugene.debug -M/usr/lib/debug/.dwz/x86_64-linux-gnu/ugene.debug ..." dh_dwz: dwz -q -mdebian/ugene/usr/lib/debug/.dwz/x86_64-linux-gnu/ugene.debug -M/usr/lib/debug/.dwz/x86_64-linux-gnu/ugene.debug ... make[1]: Leaving directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg' dh_strip -a -O--buildsystem=qmake dh_makeshlibs -a -O--buildsystem=qmake debian/rules override_dh_shlibdeps make[1]: Entering directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg' dh_shlibdeps -l/<<BUILDDIR>>/ugene-1.31.1+dfsg/debian/ugene/usr/lib/ugene/:/build/ugene-1.31.1+dfsg/debian/ugene/usr/lib/ugene/plugins/ dpkg-shlibdeps: error: cannot find library libngs_reads_classification.so.1 needed by debian/ugene/usr/lib/ugene/plugins/libclark_support.so.1.0.0 (ELF format: 'elf64-x86-64' abi: '0201003e00000000'; RPATH: '') dpkg-shlibdeps: warning: debian/ugene/usr/lib/ugene/libU2Formats.so.1.0.0 contains an unresolvable reference to symbol gzclose: it's probably a plugin dpkg-shlibdeps: warning: 2 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: error: cannot find library libngs_reads_classification.so.1 needed by debian/ugene/usr/lib/ugene/plugins/libwevote_support.so.1.0.0 (ELF format: 'elf64-x86-64' abi: '0201003e00000000'; RPATH: '') dpkg-shlibdeps: error: cannot find library libngs_reads_classification.so.1 needed by debian/ugene/usr/lib/ugene/plugins/libkraken_support.so.1.0.0 (ELF format: 'elf64-x86-64' abi: '0201003e00000000'; RPATH: '') dpkg-shlibdeps: warning: debian/ugene/usr/lib/ugene/plugins/libdbi_bam.so.1.0.0 contains an unresolvable reference to symbol inflateInit2_: it's probably a plugin dpkg-shlibdeps: warning: 7 other similar warnings have been skipped (use -v to see them all) dpkg-shlibdeps: error: cannot find library libngs_reads_classification.so.1 needed by debian/ugene/usr/lib/ugene/plugins/libdiamond_support.so.1.0.0 (ELF format: 'elf64-x86-64' abi: '0201003e00000000'; RPATH: '') dpkg-shlibdeps: warning: package could avoid a useless dependency if debian/ugene/usr/lib/ugene/ugenem was not linked against libX11.so.6 (it uses none of the library's symbols) dpkg-shlibdeps: error: cannot continue due to the errors listed above Note: libraries are not searched in other binary packages that do not have any shlibs or symbols file. To help dpkg-shlibdeps find private libraries, you might need to use -l. dh_shlibdeps: dpkg-shlibdeps -Tdebian/ugene.substvars -l/<<BUILDDIR>>/ugene-1.31.1\+dfsg/debian/ugene/usr/lib/ugene/ -l/build/ugene-1.31.1\+dfsg/debian/ugene/usr/lib/ugene/plugins/ debian/ugene/usr/lib/ugene/ugenem debian/ugene/usr/lib/ugene/libU2Private.so.1.0.0 debian/ugene/usr/lib/ugene/libU2Script.so.1.0.0 debian/ugene/usr/lib/ugene/libU2Formats.so.1.0.0 debian/ugene/usr/lib/ugene/libbreakpad.so.1.0.0 debian/ugene/usr/lib/ugene/libU2Designer.so.1.0.0 debian/ugene/usr/lib/ugene/libU2Core.so.1.0.0 debian/ugene/usr/lib/ugene/ugenecl debian/ugene/usr/lib/ugene/libU2Algorithm.so.1.0.0 debian/ugene/usr/lib/ugene/libU2Lang.so.1.0.0 debian/ugene/usr/lib/ugene/libU2Test.so.1.0.0 debian/ugene/usr/lib/ugene/libU2View.so.1.0.0 debian/ugene/usr/lib/ugene/libU2Gui.so.1.0.0 debian/ugene/usr/lib/ugene/ugeneui debian/ugene/usr/lib/ugene/plugins_checker debian/ugene/usr/lib/ugene/plugins/libCoreTests.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libchroma_view.so.1.0.0 debian/ugene/usr/lib/ugene/plu gins/libannotator.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libbrowser_support.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libkraken_support.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libpcr.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libvariants.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libwevote_support.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libworkflow_designer.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libdna_graphpack.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libremote_blast.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libapi_tests.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libdbi_bam.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libsmith_waterman.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libngs_reads_classification.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libgenome_aligner.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libdna_stat.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libball.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libenzymes.so.1.0.0 debian/ugene/usr/li b/ugene/plugins/libptools.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libcircular_view.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libquery_designer.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libgor4.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libkalign.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libumuscle.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libtest_runner.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libprimer3.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/liblinkdata_support.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libexternal_tool_support.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libdna_flexibility.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libdiamond_support.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libhmm2.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libdotplot.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libweight_matrix.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/liborf_marker.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libdna_export.so.1.0.0 debian/ugene/usr/lib/ ugene/plugins/libopencl_support.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libclark_support.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libperf_monitor.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libsitecon.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/librepeat_finder.so.1.0.0 debian/ugene/usr/lib/ugene/plugins/libbiostruct3d_view.so.1.0.0 returned exit code 2 dh_shlibdeps: Aborting due to earlier error make[1]: *** [debian/rules:41: override_dh_shlibdeps] Error 25 make[1]: Leaving directory '/<<BUILDDIR>>/ugene-1.31.1+dfsg' make: *** [debian/rules:12: binary-arch] Error 2 dpkg-buildpackage: error: fakeroot debian/rules binary-arch subprocess returned exit status 2 -------------------------------------------------------------------------------- The above is just how the build ends but I think it's also the most relevant part. The build was made in my autobuilder with "dpkg-buildpackage -B". It seems to fail every time (tried more than once), but if for whatever reason you need a test machine to reproduce it, please contact me privately. If this is really a bug in one of the build-depends, please use reassign and affects, so that this is still visible in the BTS web page for this package. Thanks.
--- End Message ---
--- Begin Message ---Source: ugene Source-Version: 33.0+dfsg-1 We believe that the bug you reported is fixed in the latest version of ugene, 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. Andreas Tille <[email protected]> (supplier of updated ugene 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: Thu, 09 Jan 2020 15:11:09 +0100 Source: ugene Binary: ugene ugene-data ugene-dbgsym Architecture: source all amd64 Version: 33.0+dfsg-1 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <[email protected]> Changed-By: Andreas Tille <[email protected]> Description: ugene - integrated bioinformatics toolkit ugene-data - required data for UGENE - integrated bioinformatics toolkit Closes: 933334 943514 Changes: ugene (33.0+dfsg-1) unstable; urgency=medium . [ Steffen Moeller ] * New upstream version. Closes: #933334, #943514 * Standards-Version: 4.4.1 (no changes required) * Adjusted patches - Upstream now builds against regular sqlite almost by default - changed default to system sqlite by a patch - Adjusted paths for dh_shlibdeps . [ Andreas Tille ] * Remove psipred from upstream source - it is excluded from build anyway * d/watch: dversionmangle=auto (to accept +dfsg[0-9]) * Add external plugins to Recommends as far as these are packaged * Drop Ivan Efremov <[email protected]> from Uploaders (thanks for your previous work on this package, Ivan) * Use UGENE_USE_BUNDLED_ZLIB=0 * debhelper-compat 12 * Remove trailing whitespace in debian/changelog * Remove trailing whitespace in debian/control * Remove trailing whitespace in debian/copyright * Set upstream metadata fields: Bug-Database, Bug-Submit. 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