Your message dated Tue, 03 May 2022 19:49:12 +0000 with message-id <e1nlywg-000ipp...@fasolo.debian.org> and subject line Bug#1006732: fixed in ngs-sdk 2.11.2-4 has caused the Debian Bug report #1006732, regarding ngs-sdk: autopkgtest failure: fatal error: atomic32.h: No such file or directory 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 ow...@bugs.debian.org immediately.) -- 1006732: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1006732 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: ngs-sdk Version: 2.11.2-3 X-Debbugs-CC: debian...@lists.debian.org Severity: serious User: debian...@lists.debian.org Usertags: fails-always Dear maintainer(s),You recently added an autopkgtest to your package ngs-sdk, great. However, it fails on all but amd64. Currently this failure is blocking the migration to testing [1]. Can you please investigate the situation and fix it?I copied some of the output at the bottom of this report. More information about this bug and the reason for filing it can be found on https://wiki.debian.org/ContinuousIntegration/RegressionEmailInformation Paul [1] https://qa.debian.org/excuses.php?package=ngs-sdk https://ci.debian.net/data/autopkgtest/testing/arm64/n/ngs-sdk/19355330/log.gz run-unit-test: running configure Configuring NGS-SDK package checking system type... Linux checking OS distributor... checking machine architecture... aarch64 checking for supported architecture... aarch64 (64 bits) is supported checking for supported OS... Linux (linux) is supported checking for supported tool chain... gcc tool chain is supported checking for gcc... gcc (Debian 11.2.0-16) 11.2.0 checking for g++... yes checking for Python 3... /usr/bin/python3 checking whether gcc accepts -Wno-array-bounds... yes checking whether g++ accepts -static-libstdc++... no configure: creating 'ld.linux.exe_cmd.sh' configure: creating 'Makefile.config.linux.arm64' configure: creating 'Makefile.config' configure: creating 'reconfigure' build type: release build prefix: /home/debci/ncbi-outdir/ngs-sdk build output path: /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel includedir: /usr/local/ngs/ngs-sdk/include bindir: /usr/local/ngs/ngs-sdk/bin libdir: /usr/local/ngs/ngs-sdk/lib sharedir: /usr/local/ngs/ngs-sdk/share CC = gcc -c CPP = g++ configured with: "" run-unit-test: making testmake[1]: Entering directory '/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language' make[2]: Entering directory '/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++'mkdir -p /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/ilibmkdir -p /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++ g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/ReadCollection.pic.o ReadCollection.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/ReferenceSequence.pic.o ReferenceSequence.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/ReferenceIterator.pic.o ReferenceIterator.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/Reference.pic.o Reference.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/PileupIterator.pic.o PileupIterator.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/Pileup.pic.o Pileup.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/PileupEventIterator.pic.o PileupEventIterator.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/PileupEvent.pic.o PileupEvent.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/AlignmentIterator.pic.o AlignmentIterator.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/Alignment.pic.o Alignment.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/ReadGroupIterator.pic.o ReadGroupIterator.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/ReadGroup.pic.o ReadGroup.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/ReadIterator.pic.o ReadIterator.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/Read.pic.o Read.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/FragmentIterator.pic.o FragmentIterator.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/Fragment.pic.o Fragment.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/Statistics.pic.o Statistics.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/StringRef.pic.o StringRef.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++ -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD ar rc /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/ilib/libngs-bind-c++.a /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/ReadCollection.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/ReferenceSequence.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/ReferenceIterator.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/Reference.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/PileupIterator.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/Pileup.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/PileupEventIterator.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/PileupEvent.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/AlignmentIterator.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/Alignment.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/ReadGroupIterator.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/ReadGroup.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/ReadIterator.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/Read.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/FragmentIterator.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/Fragment.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/Statistics.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/c++/StringRef.pic.o make[2]: Leaving directory '/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/c++' make[2]: Entering directory '/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java' mkdir -p /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ReadCollectionItf.pic.o jni_ReadCollectionItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ReferenceIteratorItf.pic.o jni_ReferenceIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ReferenceItf.pic.o jni_ReferenceItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ReferenceSequenceItf.pic.o jni_ReferenceSequenceItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_PileupIteratorItf.pic.o jni_PileupIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_PileupItf.pic.o jni_PileupItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_PileupEventIteratorItf.pic.o jni_PileupEventIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_PileupEventItf.pic.o jni_PileupEventItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_AlignmentIteratorItf.pic.o jni_AlignmentIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_AlignmentItf.pic.o jni_AlignmentItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ReadGroupIteratorItf.pic.o jni_ReadGroupIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ReadGroupItf.pic.o jni_ReadGroupItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ReadIteratorItf.pic.o jni_ReadIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ReadItf.pic.o jni_ReadItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_FragmentItf.pic.o jni_FragmentItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_StatisticsItf.pic.o jni_StatisticsItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_Package.pic.o jni_Package.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_String.pic.o jni_String.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_Refcount.pic.o jni_Refcount.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ErrorMsg.pic.o jni_ErrorMsg.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD ar rc /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/ilib/libngs-bind-java.a /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ReadCollectionItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ReferenceIteratorItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ReferenceItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ReferenceSequenceItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_PileupIteratorItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_PileupItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_PileupEventIteratorItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_PileupEventItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_AlignmentIteratorItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_AlignmentItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ReadGroupIteratorItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ReadGroupItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ReadIteratorItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ReadItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_FragmentItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_StatisticsItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_Package.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_String.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_Refcount.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/java/jni_ErrorMsg.pic.o make[2]: Leaving directory '/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/java' make[2]: Entering directory '/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python' mkdir -p /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_AlignmentItf.pic.o py_AlignmentItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_AlignmentIteratorItf.pic.o py_AlignmentIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_FragmentItf.pic.o py_FragmentItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_FragmentIteratorItf.pic.o py_FragmentIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_PackageItf.pic.o py_PackageItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_PileupEventItf.pic.o py_PileupEventItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_PileupEventIteratorItf.pic.o py_PileupEventIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_PileupItf.pic.o py_PileupItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_PileupIteratorItf.pic.o py_PileupIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_ReadCollectionItf.pic.o py_ReadCollectionItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_ReadGroupItf.pic.o py_ReadGroupItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_ReadGroupIteratorItf.pic.o py_ReadGroupIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_ReadItf.pic.o py_ReadItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_ReadIteratorItf.pic.o py_ReadIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_ReferenceItf.pic.o py_ReferenceItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_ReferenceIteratorItf.pic.o py_ReferenceIteratorItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_ReferenceSequenceItf.pic.o py_ReferenceSequenceItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_StatisticsItf.pic.o py_StatisticsItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_Refcount.pic.o py_Refcount.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_StringItf.pic.o py_StringItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD ar rc /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/ilib/libngs-bind-python.a /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_AlignmentItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_AlignmentIteratorItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_FragmentItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_FragmentIteratorItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_PackageItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_PileupEventItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_PileupEventIteratorItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_PileupItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_PileupIteratorItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_ReadCollectionItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_ReadGroupItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_ReadGroupIteratorItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_ReadItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_ReadIteratorItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_ReferenceItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_ReferenceIteratorItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_ReferenceSequenceItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_StatisticsItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_Refcount.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/language/python/py_StringItf.pic.o make[2]: Leaving directory '/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language/python' make[1]: Leaving directory '/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/language' make[1]: Entering directory '/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch'mkdir -p /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatchg++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/ReadCollectionItf.pic.o ReadCollectionItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/ReferenceItf.pic.o ReferenceItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/ReferenceSequenceItf.pic.o ReferenceSequenceItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/PileupItf.pic.o PileupItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/PileupEventItf.pic.o PileupEventItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/AlignmentItf.pic.o AlignmentItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/ReadGroupItf.pic.o ReadGroupItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/ReadItf.pic.o ReadItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/FragmentItf.pic.o FragmentItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/StatisticsItf.pic.o StatisticsItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/PackageItf.pic.o PackageItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/StringItf.pic.o StringItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/Refcount.pic.o Refcount.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/VTable.pic.o VTable.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/ErrBlock.pic.o ErrBlock.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD g++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/ErrorMsg.pic.o ErrorMsg.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD ar rc /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/ilib/libngs-disp.a /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/ReadCollectionItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/ReferenceItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/ReferenceSequenceItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/PileupItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/PileupEventItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/AlignmentItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/ReadGroupItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/ReadItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/FragmentItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/StatisticsItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/PackageItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/StringItf.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/Refcount.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/VTable.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/ErrBlock.pic.o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/dispatch/ErrorMsg.pic.o make[1]: Leaving directory '/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/dispatch' make[1]: Entering directory '/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/adapter'mkdir -p /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/lib mkdir -p /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/adapterg++ -c -std=c++11 -o /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/adapter/ReadCollectionItf.pic.o ReadCollectionItf.cpp -fPIC -DNDEBUG -O3 -I. -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/adapter -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk -I/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/unix/generic -MD In file included from /tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/adapter/Refcount.hpp:35, from /tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/adapter/ReadCollectionItf.hpp:31,from ReadCollectionItf.cpp:27:/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/ngs/adapter/defs.h:35:10: fatal error: atomic32.h: No such file or directory35 | #include <atomic32.h> | ^~~~~~~~~~~~ compilation terminated.make[1]: *** [/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/./Makefile.config.linux.arm64:110: /home/debci/ncbi-outdir/ngs-sdk/linux/gcc/arm64/rel/obj/adapter/ReadCollectionItf.pic.o] Error 1 make[1]: Leaving directory '/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/adapter' make: *** [/tmp/autopkgtest-lxc.5m6nldbq/downtmp/build.gg3/src/ngs-sdk/Makefile.rules:31: adapter] Error 2autopkgtest [11:23:34]: test run-unit-testOpenPGP_signature
Description: OpenPGP digital signature
--- End Message ---
--- Begin Message ---Source: ngs-sdk Source-Version: 2.11.2-4 Done: Pierre Gruet <p...@debian.org> We believe that the bug you reported is fixed in the latest version of ngs-sdk, 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 1006...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Pierre Gruet <p...@debian.org> (supplier of updated ngs-sdk 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 ftpmas...@ftp-master.debian.org) -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 1.8 Date: Tue, 03 May 2022 21:17:32 +0200 Source: ngs-sdk Architecture: source Version: 2.11.2-4 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Pierre Gruet <p...@debian.org> Closes: 1006732 Changes: ngs-sdk (2.11.2-4) unstable; urgency=medium . * Team upload * Rewriting the autopkgtest to test the package as-installed (Closes: #1006732) Checksums-Sha1: e29499ad8c60a41a141a93d23cf9303f69a2ae28 2333 ngs-sdk_2.11.2-4.dsc 68900dc720c8ad8c8dd14ddefa595dd1f94e9418 12856 ngs-sdk_2.11.2-4.debian.tar.xz 4118a82cdefc71640517f32897034dd761717e80 10886 ngs-sdk_2.11.2-4_source.buildinfo Checksums-Sha256: e05bda6d09994fe13d22d8f78072601cb21fca494c7a87d6627a35bd961f5c27 2333 ngs-sdk_2.11.2-4.dsc a680534abee53cb35ec95f75284b57737833b090ade5758c8060338478e3b103 12856 ngs-sdk_2.11.2-4.debian.tar.xz 9bb6f5ba75ea7cced4940f91f5ba037578191bc19fcb4a0a26fa7d48a7de465f 10886 ngs-sdk_2.11.2-4_source.buildinfo Files: 2d1303fcc8fda17eba535f4f70c6e63c 2333 science optional ngs-sdk_2.11.2-4.dsc 6168ce700f8b7244013a86c35266b925 12856 science optional ngs-sdk_2.11.2-4.debian.tar.xz 8c3650b8797eccb21027be9f95805042 10886 science optional ngs-sdk_2.11.2-4_source.buildinfo -----BEGIN PGP SIGNATURE----- iQIzBAEBCgAdFiEEM8soQxPpC9J9y0UjYAMWptwndHYFAmJxgrUACgkQYAMWptwn dHZK7Q//VJ3mEk+VAC65bGHHPUlZQI/6ur+MPimdgXqGuW9KU+npXd4fKTFQdmb/ sV/nATSz2EjGvDTQluEzcBeRqM9Km/pJjUqp/umavpvC6fSU0D0vuDE4E7MwQHrr CH4iVIeFzjwP+c1eocjFvxPIwYZuOyH+RQCj/d9RDslUUNRvyBpDnq8fymjbVL59 YmBKltBQp4MsVAM8zTyuS3tt+CIP+DqzJt8a27EkpnDmH1ZweIcte9/YPCujR1UR qnTQgIDtvAO6sdJhwRRW0I1OraURXQR225uxQ1O4spMS5GWOWxkOScc/XCJEsTlI LNWT72Jd9AUJ756psQLvDvkMFmz1XlgsXZ3E2KC5PGYwqC7ZFnWRiyBuRyQBnNo0 WAPixnLrxX6hXO/HbH/k6pR8gLiLEFes4JpvPSyeEBQ1fc6LODsfr8+jGbT7Fuzc J4Z+rQCaRdYvOfyLt67Emjc4hzmcyrH5CYrO8qsJurFdqNcZa78QSk3p+UAg6TLx jym7o9UKZ1aayN1zPvC15VnjcUJo8ii4+rArEDFwRTWALolZBp1QlG6irYr9xt8H 4ou0cx1DjMUyvjs+HSE0d7yleWv8cttwj85+QXgvJe9icPlrYzpMUryW8ROplhbF gtQtAiVkbLWZQ27JQ1PhlX9zThorX4vigjoRWB8iQ5EucDnXhoY= =lSlc -----END PGP SIGNATURE-----
--- End Message ---