VCF v4.1 fully supported: Breakends added to khash inside the vcf_file_t structure
VCF filter by variant type (SNV, indel or structural variant)
Fixed bug in individual->var_index initialization (was 0 instead of -1)
Fixed bug when no variants are queried
Using logging system from common-libs in PED reader
Using logging system from common-libs in VCF reader when inserting new text batch
Initial version of the support for multigenerational families
Memory leaks removed
Writing of an individual condition and sex corrected according to the PED specification
PED file integrity checks
Function for checking whether a chromosome is valid for a certain species
Added set_field_value_in_sample

Signed-off-by: Alejandro Alemán <aaleman@cipf.es>