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Bug#933334: marked as done (RM: ugene -- RoM; non-free; fails to build)

Your message dated Sat, 09 May 2020 08:22:37 +0000
with message-id <E1jXKkn-000Fnv-0t@fasolo.debian.org>
and subject line Bug#933334: Removed package(s) from stable
has caused the Debian Bug report #933334,
regarding RM: ugene -- RoM; non-free; fails to build
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 owner@bugs.debian.org
immediately.)


-- 
933334: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=933334
Debian Bug Tracking System
Contact owner@bugs.debian.org 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 --- 
We believe that the bug you reported is now fixed; the following
package(s) have been removed from stable:

     ugene | 1.31.1+dfsg-1 | source, amd64
ugene-data | 1.31.1+dfsg-1 | all

------------------- Reason -------------------
RoM; non-free; fails to build
----------------------------------------------

Note that the package(s) have simply been removed from the tag
database and may (or may not) still be in the pool; this is not a bug.
The package(s) will be physically removed automatically when no suite
references them (and in the case of source, when no binary references
it).  Please also remember that the changes have been done on the
master archive and will not propagate to any mirrors until the next
dinstall run at the earliest.

Packages are usually not removed from testing by hand. Testing tracks
unstable and will automatically remove packages which were removed
from unstable when removing them from testing causes no dependency
problems. The release team can force a removal from testing if it is
really needed, please contact them if this should be the case.

Bugs which have been reported against this package are not automatically
removed from the Bug Tracking System.  Please check all open bugs and
close them or re-assign them to another package if the removed package
was superseded by another one.

The version of this package that was in Debian prior to this removal
can still be found using http://snapshot.debian.org/.

Thank you for reporting the bug, which will now be closed.  If you
have further comments please address them to 933334@bugs.debian.org.

The full log for this bug can be viewed at https://bugs.debian.org/933334

This message was generated automatically; if you believe that there is
a problem with it please contact the archive administrators by mailing
ftpmaster@ftp-master.debian.org.

Debian distribution maintenance software
pp.
Archive Administrator (the ftpmaster behind the curtain)

--- End Message ---
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