src/samtools-0.1.18/Makefile | 4 2 + 2 - 0 !
1 file changed, 2 insertions(+), 2 deletions(-)

 don't overwrite cflags, add cppflags and ldflags fot the embedded
copy of samtools

src/Makefile.am | 3 0 + 3 - 0 !
1 file changed, 3 deletions(-)

 remove 3rd party embeded software from the package

configure.ac | 2 1 + 1 - 0 !
src/align_status.h | 2 1 + 1 - 0 !
src/bam2fastx.cpp | 4 2 + 2 - 0 !
src/bwt_map.h | 2 1 + 1 - 0 !
src/common.h | 4 2 + 2 - 0 !
src/map2gtf.h | 4 2 + 2 - 0 !
6 files changed, 9 insertions(+), 9 deletions(-)

 use system header files instead of exlcuded local
(removed with Files-Excluded: in d/copyright)

configure.ac | 2 1 + 1 - 0 !
1 file changed, 1 insertion(+), 1 deletion(-)

 fix building with gcc 6
 This patch forces gnu++98 standard as GCC 6 switched by default to a
 newer one.