Compile cleanly without warnings with gcc 4.6.3
Fixed return status checks of fread calls
Merge branch 'develop' into bcftools+calling
vcf: Support for regions in the form chr|chr:pos|chr:from-to|chr:from-
tbx: Sanity check if the file type meets the expectation, detect non-numeric fields
hts_idx: check return status of bgzf_read
bcf reader: Fix in chr:pos type of regions
synced reader: Support for BED regions/target files
synced reader: regions and targets now support VCF; Fix for match_alleles by reverting 0-terminating chr modification
synced reader: Give a hint when tabix was used with wrong column indexes for regions/targets
pileup: Detect non-recoverable errors and exit with proper status
vcf: new APIs bcf_alleles2gt and bcf_gt2alleles; bcf_synced_reader: recognise compressed BED files
Resolved merge conflicts
Merge branch 'bcftools+calling' into develop
Merge branch 'develop' into debian/unstable
Changelog for work in progress.