[Debian-med-packaging] Bug#848755: pbdagcon: FTBFS: DNASequence.hpp:15:29: fatal error: pbbam/BamRecord.h: No such file or directory

[Lucas Nussbaum]

Source: pbdagcon
Version: 0~20160325+ds-1
Severity: serious
Tags: stretch sid
User: debian-qa at lists.debian.org
Usertags: qa-ftbfs-20161219 qa-ftbfs
Justification: FTBFS on amd64

Hi,

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

Relevant part (hopefully):
> g++ -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/pbdagcon-0~20160325+ds=. -fstack-protector-strong -Wformat -Werror=format-security -O3 -std=c++11 -Wall -Wuninitialized -pedantic -Wdate-time -D_FORTIFY_SOURCE=2 -I/usr/include/pbseq/alignment -I/usr/include/pbseq/pbdata -I/usr/include/pbseq/hdf -MMD -MP -I/<<BUILDDIR>>/pbdagcon-0~20160325+ds/../DAZZ_DB -I/<<BUILDDIR>>/pbdagcon-0~20160325+ds/../DALIGNER -isystem.//third-party  -c -o SimpleAligner.o SimpleAligner.cpp
> In file included from SimpleAligner.hpp:5:0,
>                  from SimpleAligner.cpp:8:
> /usr/include/pbseq/pbdata/DNASequence.hpp:15:29: fatal error: pbbam/BamRecord.h: No such file or directory
>  #include <pbbam/BamRecord.h>
>                              ^
> compilation terminated.
> <builtin>: recipe for target 'SimpleAligner.o' failed
> make[2]: *** [SimpleAligner.o] Error 1

The full build log is available from:
   http://aws-logs.debian.net/2016/12/19/pbdagcon_0~20160325+ds-1_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.