CMakeLists.txt | 1 0 + 1 - 0 !
1 file changed, 1 deletion(-)

 fsom is not used

CMakeLists.txt | 12 5 + 7 - 0 !
1 file changed, 5 insertions(+), 7 deletions(-)

 use debian packaged libsmithwaterman

CMakeLists.txt | 5 2 + 3 - 0 !
src/vcf2dag.cpp | 2 1 + 1 - 0 !
src/vcf2fasta.cpp | 2 1 + 1 - 0 !
src/vcfcheck.cpp | 2 1 + 1 - 0 !
src/vcfentropy.cpp | 2 1 + 1 - 0 !
src/vcfevenregions.cpp | 2 1 + 1 - 0 !
src/vcfgeno2haplo.cpp | 2 1 + 1 - 0 !
src/vcfinfosummarize.cpp | 2 1 + 1 - 0 !
src/vcfintersect.cpp | 2 1 + 1 - 0 !
src/vcfleftalign.cpp | 2 1 + 1 - 0 !
src/vcfnormalizesvs.cpp | 2 1 + 1 - 0 !
src/vcfprimers.cpp | 2 1 + 1 - 0 !
src/vcfremap.cpp | 2 1 + 1 - 0 !
src/vcfroc.cpp | 2 1 + 1 - 0 !
src/vcfsample2info.cpp | 2 1 + 1 - 0 !
15 files changed, 16 insertions(+), 17 deletions(-)

 use debian packaged libfastahack (and libdisorder)

src/Variant.cpp | 2 1 + 1 - 0 !
1 file changed, 1 insertion(+), 1 deletion(-)

 use debian packaged libssw (while its not clear
 why two implementations of Smith-Waterman are needed at all)

CMakeLists.txt | 16 10 + 6 - 0 !
1 file changed, 10 insertions(+), 6 deletions(-)

 create shared lib instead of static

libvcflib.pc | 12 12 + 0 - 0 !
1 file changed, 12 insertions(+)

 add pkg-config file to simplify building of freebayes

CMakeLists.txt | 1 1 + 0 - 0 !
1 file changed, 1 insertion(+)

 link against tabixpp

CMakeLists.txt | 1 1 + 0 - 0 !
1 file changed, 1 insertion(+)

 set -lwfa2 for the linker
 This works around a failure to catch the wfa2 library by the CMake files.

CMakeLists.txt | 4 2 + 2 - 0 !
1 file changed, 2 insertions(+), 2 deletions(-)

 fix a couple of issues caught while working on 1.0.11~pre2.
 There is one case of install() statement having something unexpected in its
 target, and removing the entry does not seem to cause anything obvious to be
 lost.  The other issue resolved is the proper capture of the tabix header in