[Debian-med-packaging] Bug#688661: ncbi-blast+: FTBFS on arm* or mips*: no NCBI_INT8_TYPE

Aaron M. Ucko ucko at debian.org
Mon Sep 24 15:56:33 UTC 2012

BTW, ncbi-blast+ is also failing on SPARC, albeit with internal compiler errors:

/usr/bin/g++  -c -Wall -Wno-format-y2k  -pthread -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat -Werror=format-security -fPIC    -DNDEBUG -D_LARGEFILE_SOURCE -D_LARGEFILE64_SOURCE -D_FILE_OFFSET_BITS=64  -D_FORTIFY_SOURCE=2 -D_MT -D_REENTRANT -D_THREAD_SAFE -I/.../ncbi-blast+-2.2.27/c++/BUILD/inc -I/.../ncbi-blast+-2.2.27/c++/include  /.../ncbi-blast+-2.2.27/c++/src/objects/genomecoll/genome_collection___.cpp -o genome_collection___.o 
In file included from /.../ncbi-blast+-2.2.27/c++/src/objects/genomecoll/genome_collection___.cpp:21:0:
/.../ncbi-blast+-2.2.27/c++/src/objects/genomecoll/NCBI_GenomeCollection_module.cpp:87:1: internal compiler error: Segmentation fault
Please submit a full bug report,
with preprocessed source if appropriate.
See <file:///usr/share/doc/gcc-4.6/README.Bugs> for instructions.
The bug is not reproducible, so it is likely a hardware or OS problem.
make[5]: *** [genome_collection___.o] Error 1

Workarounds are likely possible, but we should still also make sure that
the GCC maintainers are aware of the compiler bug.

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