* the code base is stablized again.
 * I will delay the vcf parser, which is quite complicated but with little value for now
 * samtools-0.1.8-11 (r672)
 * collect more stats for allele balance test in bcftools (not yet)
Fisher's exact test
 * Special functions: log(gamma()), erfc(), P(a,x) (incomplete gamma)
 * Not using Numerical Recipe due to licensing issues
 * bcftools: add HWE (no testing for now)
 * record end dist in a 2x2 table, not avg, std any more
reimplement incomplete gamma functions. no copy-paste
 * test depth, end distance and HWE
perform single-tail test for ED4
help messages
 * improved kstring (added kstrtok)
 * removed the limit on the format string length in bcftools
 * use kstrtok to parse format which fixed a bug in the old code
 * fixed a bug in kstrtok@kstring.c
 * preliminary VCF parser (not parse everything for now)
 * improved view interface
 * parse PL
 * fixed a bug in parsing VCF
do not print refname if file is converted from VCF
fixed an issue in parsing integer
 * a numerically stable method to calculate z_{jk}
 * currently slower than the old method but will be important for large sample size
 * in principle, we can speed up for large n, but have not tried
faster for large sample size (in principle)
use float for QUAL
 * write a little more VCF header
 * concatenate BCFs
allow to read the prior from the error output. EM iteration is working.
added revised MAQ error model