[med-svn] [htslib] branch develop updated (7092725 -> 5e770b3)

[Charles Plessy]

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plessy pushed a change to branch develop
in repository htslib.

      from  7092725   Merge branch 'bcftools+calling' into develop
       new  d49f20e   faidx: Detect compressed BGZF fasta files and create .gzi index without asking to allow proper functioning of samtools faidx fasta.fa.gz
       new  0908d4c   synced_reader: Improved regions/targets to be faster with large number of sequences; More userfriendly regions_overlap() function
       new  5e770b3   vcf: bcf_update_format now sets the number of samples in VCF record which previously was responsibility of the user; Fix in bcf_itr_querys macro, non-existent bcf_name2id renamed to bcf_hdr_name2id

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Summary of changes:
 Makefile                   |   2 +-
 faidx.c                    |   2 +
 htslib/khash_str2int.h     |  98 +++++++++++++++++++
 htslib/synced_bcf_reader.h |  28 +++---
 htslib/vcf.h               |  18 ++--
 synced_bcf_reader.c        | 232 ++++++++++++++++++++++-----------------------
 test/test-vcf-api.c        |  14 ++-
 vcf.c                      |  19 ++--
 8 files changed, 256 insertions(+), 157 deletions(-)
 create mode 100644 htslib/khash_str2int.h

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