[med-svn] [libvcflib] branch master updated (2816f5f -> 9fe1415)

[Andreas Tille]

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tille pushed a change to branch master
in repository libvcflib.

      from  2816f5f   Some skeleton for libtabixpp is now in Git
       new  d3440a1   Upstream started using release tags
       new  d97fda1   Imported Upstream version 1.0.0~rc0
       new  9fe1415   Merge tag 'upstream/1.0.0_rc0'

The 3 revisions listed above as "new" are entirely new to this
repository and will be described in separate emails.  The revisions
listed as "adds" were already present in the repository and have only
been added to this reference.


Summary of changes:
 Makefile                           | 14 +++-----------
 bin/bed2region                     |  2 +-
 bin/plot_roc.r                     |  2 +-
 bin/vcf2bed.py                     |  2 +-
 bin/vcf2sqlite.py                  |  2 +-
 bin/vcf_strip_extra_headers        |  2 +-
 bin/vcfbiallelic                   |  2 +-
 bin/vcfclearid                     |  2 +-
 bin/vcfclearinfo                   |  2 +-
 bin/vcfcomplex                     |  2 +-
 bin/vcffirstheader                 |  2 +-
 bin/vcfindelproximity              |  2 +-
 bin/vcfindels                      |  2 +-
 bin/vcfmultiallelic                |  2 +-
 bin/vcfnobiallelicsnps             |  2 +-
 bin/vcfnoindels                    |  2 +-
 bin/vcfnosnps                      |  2 +-
 bin/vcfnulldotslashdot             |  2 +-
 bin/vcfplotaltdiscrepancy.r        |  2 +-
 bin/vcfplotsitediscrepancy.r       |  2 +-
 bin/vcfprintaltdiscrepancy.r       |  2 +-
 bin/vcfqualfilter                  |  2 +-
 bin/vcfremovenonATGC               |  2 +-
 bin/vcfsnps                        |  2 +-
 bin/vcfvarstats                    |  2 +-
 debian/changelog                   |  2 +-
 debian/watch                       | 15 ++-------------
 src/Variant.cpp                    |  2 +-
 src/Variant.h                      |  2 +-
 src/vcf2dag.cpp                    |  2 +-
 src/vcf2fasta.cpp                  |  2 +-
 src/vcf2tsv.cpp                    |  2 +-
 src/vcfaddinfo.cpp                 |  2 +-
 src/vcfafpath.cpp                  |  2 +-
 src/vcfallelicprimitives.cpp       |  2 +-
 src/vcfaltcount.cpp                |  2 +-
 src/vcfannotate.cpp                |  2 +-
 src/vcfannotategenotypes.cpp       |  2 +-
 src/vcfbreakmulti.cpp              |  2 +-
 src/vcfcat.cpp                     |  2 +-
 src/vcfcheck.cpp                   |  2 +-
 src/vcfclassify.cpp                |  2 +-
 src/vcfcleancomplex.cpp            |  2 +-
 src/vcfcombine.cpp                 |  2 +-
 src/vcfcommonsamples.cpp           |  2 +-
 src/vcfcountalleles.cpp            |  2 +-
 src/vcfcreatemulti.cpp             |  2 +-
 src/vcfdistance.cpp                |  2 +-
 src/vcfecho.cpp                    |  2 +-
 src/vcfentropy.cpp                 |  2 +-
 src/vcfevenregions.cpp             |  2 +-
 src/vcffilter.cpp                  |  2 +-
 src/vcffixup.cpp                   |  2 +-
 src/vcfflatten.cpp                 |  2 +-
 src/vcfgeno2alleles.cpp            |  2 +-
 src/vcfgeno2haplo.cpp              |  2 +-
 src/vcfgenosamplenames.cpp         |  2 +-
 src/vcfgenosummarize.cpp           |  2 +-
 src/vcfgenotypecompare.cpp         |  2 +-
 src/vcfgenotypes.cpp               |  2 +-
 src/vcfglbound.cpp                 |  2 +-
 src/vcfglxgt.cpp                   |  2 +-
 src/vcfhetcount.cpp                |  2 +-
 src/vcfhethomratio.cpp             |  2 +-
 src/vcfindex.cpp                   |  2 +-
 src/vcfinfo2qual.cpp               |  2 +-
 src/vcfinfosummarize.cpp           |  2 +-
 src/vcfintersect.cpp               |  2 +-
 src/vcfkeepgeno.cpp                |  2 +-
 src/vcfkeepinfo.cpp                |  2 +-
 src/vcfkeepsamples.cpp             |  2 +-
 src/vcfleftalign.cpp               |  2 +-
 src/vcflength.cpp                  |  2 +-
 src/vcfnumalt.cpp                  |  2 +-
 src/vcfoverlay.cpp                 |  2 +-
 src/vcfparsealts.cpp               |  2 +-
 src/vcfprimers.cpp                 |  2 +-
 src/vcfqual2info.cpp               |  2 +-
 src/vcfrandom.cpp                  |  2 +-
 src/vcfrandomsample.cpp            |  2 +-
 src/vcfremap.cpp                   |  2 +-
 src/vcfremoveaberrantgenotypes.cpp |  2 +-
 src/vcfremovesamples.cpp           |  2 +-
 src/vcfroc.cpp                     |  2 +-
 src/vcfsample2info.cpp             |  2 +-
 src/vcfsamplediff.cpp              |  2 +-
 src/vcfsamplenames.cpp             |  2 +-
 src/vcfsamplestats.cpp             |  2 +-
 src/vcfsitesummarize.cpp           |  2 +-
 src/vcfsom.cpp                     |  2 +-
 src/vcfstats.cpp                   |  2 +-
 src/vcfstreamsort.cpp              |  2 +-
 src/vcfuniq.cpp                    |  2 +-
 src/vcfuniqalleles.cpp             |  2 +-
 94 files changed, 97 insertions(+), 116 deletions(-)

-- 
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