[Debian-med-packaging] Bug#1043584: pbbam FTBFS with pbcopper 2.2.0

Adrian Bunk bunk at debian.org
Sun Aug 13 11:22:50 BST 2023


Source: pbbam
Version: 2.1.0+dfsg-2
Severity: serious
Tags: ftbfs trixie sid
Forwarded: https://github.com/PacificBiosciences/pbbam/commit/1142a51493d2b047f6f8c71931ced230f593ef2b

https://buildd.debian.org/status/fetch.php?pkg=pbbam&arch=amd64&ver=2.1.0%2Bdfsg-2%2Bb1&stamp=1691776254&raw=0

...
FAILED: src/libpbbam.so.2.1.0.p/AlignmentPrinter.cpp.o
c++ -Isrc/libpbbam.so.2.1.0.p -Isrc -I../src -Iinclude -I../include -fdiagnostics-color=always -DNDEBUG -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -Wextra -Wpedantic -std=c++20 -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -DBOOST_ALL_NO_LIB -pthread -Wduplicated-cond -Wduplicated-branches -Wlogical-op -Wrestrict -Wnull-dereference -Wuseless-cast -Wdouble-promotion -Wshadow -Wformat=1 -MD -MQ src/libpbbam.so.2.1.0.p/AlignmentPrinter.cpp.o -MF src/libpbbam.so.2.1.0.p/AlignmentPrinter.cpp.o.d -o src/libpbbam.so.2.1.0.p/AlignmentPrinter.cpp.o -c ../src/AlignmentPrinter.cpp
In file included from ../include/pbbam/AlignmentPrinter.h:6,
                 from ../src/AlignmentPrinter.cpp:3:
../include/pbbam/BamRecord.h:1525:50: error: ‘UnmappedPosition’ is not a member of ‘PacBio::Data’; did you mean ‘PacBio::BAM::UnmappedPosition’?
 1525 |     mutable Data::Position alignedStart_ = Data::UnmappedPosition;
      |                                                  ^~~~~~~~~~~~~~~~
...


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