[Debian-med-packaging] Bug#959643: pbbam: FTBFS: ../tests/src/test_BamWriter.cpp:40:34: error: call of overloaded ‘CigarData?=(const char [1])=?UTF-8?Q?’ is ambiguous

[Lucas Nussbaum]

Source: pbbam
Version: 1.0.6+dfsg-2
Severity: serious
Justification: FTBFS on amd64
Tags: bullseye sid ftbfs
Usertags: ftbfs-20200501 ftbfs-bullseye

Hi,

During a rebuild of all packages in sid, your package failed to build
on amd64.

Relevant part (hopefully):
> c++ -Itests/59830eb@@pbbam_test at exe -Itests -I../tests -Iinclude -I../include -I/usr/include -fdiagnostics-color=always -DNDEBUG -pipe -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_ALL_NO_LIB -DBOOST_ALL_DYN_LINK -Wl,--start-group -lpthread -Wl,--end-group -DGTEST_HAS_PTHREAD=1 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test at exe/src_test_BamWriter.cpp.o' -MF 'tests/59830eb@@pbbam_test at exe/src_test_BamWriter.cpp.o.d' -o 'tests/59830eb@@pbbam_test at exe/src_test_BamWriter.cpp.o' -c ../tests/src/test_BamWriter.cpp
> ../tests/src/test_BamWriter.cpp: In function ‘void BamWriterTests::checkSingleRecord(bool)’:
> ../tests/src/test_BamWriter.cpp:40:34: error: call of overloaded ‘CigarData(const char [1])’ is ambiguous
>    40 |     bamRecord.Impl().CigarData("");
>       |                                  ^
> In file included from ../include/pbbam/BamRecord.h:24,
>                  from ../tests/src/test_BamWriter.cpp:11:
> ../include/pbbam/BamRecordImpl.h:251:20: note: candidate: ‘PacBio::BAM::BamRecordImpl& PacBio::BAM::BamRecordImpl::CigarData(const Cigar&)’
>   251 |     BamRecordImpl& CigarData(const Cigar& cigar);
>       |                    ^~~~~~~~~
> ../include/pbbam/BamRecordImpl.h:258:20: note: candidate: ‘PacBio::BAM::BamRecordImpl& PacBio::BAM::BamRecordImpl::CigarData(const string&)’
>   258 |     BamRecordImpl& CigarData(const std::string& cigarString);
>       |                    ^~~~~~~~~
> [129/216] c++ -Itests/59830eb@@pbbam_test at exe -Itests -I../tests -Iinclude -I../include -I/usr/include -fdiagnostics-color=always -DNDEBUG -pipe -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_ALL_NO_LIB -DBOOST_ALL_DYN_LINK -Wl,--start-group -lpthread -Wl,--end-group -DGTEST_HAS_PTHREAD=1 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test at exe/src_test_BamRecordMapping.cpp.o' -MF 'tests/59830eb@@pbbam_test at exe/src_test_BamRecordMapping.cpp.o.d' -o 'tests/59830eb@@pbbam_test at exe/src_test_BamRecordMapping.cpp.o' -c ../tests/src/test_BamRecordMapping.cpp
> [130/216] c++ -Itests/59830eb@@pbbam_test at exe -Itests -I../tests -Iinclude -I../include -I/usr/include -fdiagnostics-color=always -DNDEBUG -pipe -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_ALL_NO_LIB -DBOOST_ALL_DYN_LINK -Wl,--start-group -lpthread -Wl,--end-group -DGTEST_HAS_PTHREAD=1 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test at exe/src_test_BamRecordClipping.cpp.o' -MF 'tests/59830eb@@pbbam_test at exe/src_test_BamRecordClipping.cpp.o.d' -o 'tests/59830eb@@pbbam_test at exe/src_test_BamRecordClipping.cpp.o' -c ../tests/src/test_BamRecordClipping.cpp
> [131/216] c++ -Itests/59830eb@@pbbam_test at exe -Itests -I../tests -Iinclude -I../include -I/usr/include -fdiagnostics-color=always -DNDEBUG -pipe -D_FILE_OFFSET_BITS=64 -std=c++14 -g -O2 -fdebug-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -DBOOST_ALL_NO_LIB -DBOOST_ALL_DYN_LINK -Wl,--start-group -lpthread -Wl,--end-group -DGTEST_HAS_PTHREAD=1 -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ 'tests/59830eb@@pbbam_test at exe/src_test_BamRecordImplVariableData.cpp.o' -MF 'tests/59830eb@@pbbam_test at exe/src_test_BamRecordImplVariableData.cpp.o.d' -o 'tests/59830eb@@pbbam_test at exe/src_test_BamRecordImplVariableData.cpp.o' -c ../tests/src/test_BamRecordImplVariableData.cpp
> ninja: build stopped: subcommand failed.
> dh_auto_build: error: cd obj-x86_64-linux-gnu && LC_ALL=C.UTF-8 ninja -j4 -v returned exit code 1
> make: *** [debian/rules:13: build] Error 25

The full build log is available from:
   http://qa-logs.debian.net/2020/05/01/pbbam_1.0.6+dfsg-2_unstable.log

A list of current common problems and possible solutions is available at
http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute!

About the archive rebuild: The rebuild was done on EC2 VM instances from
Amazon Web Services, using a clean, minimal and up-to-date chroot. Every
failed build was retried once to eliminate random failures.