[med-svn] [libvcflib] branch upstream updated (47d8807 -> d97fda1)

[Andreas Tille]

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tille pushed a change to branch upstream
in repository libvcflib.

      from  47d8807   Imported Upstream version 0.0.20141212
       new  d97fda1   Imported Upstream version 1.0.0~rc0

The 1 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 +-
 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 +-
 92 files changed, 94 insertions(+), 102 deletions(-)

-- 
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