'.' missing value placeholder

[davidfstein]

This config

{"field": "AF_grpmax_exomes", alias:"gnomad_AF_grpmax_exomes", "missing_value": -2147483648, "multiplier": 2000000},

results in -2.14748e+09 for missing values instead of "." as indicated in the documentation.

[brentp]

hi, sorry for the delay, I'll look into this. that's correct for mssing value, here's the definitions from htslib:

#define bcf_int8_missing     (-128)          /* INT8_MIN  */
#define bcf_int16_missing    (-32767-1)      /* INT16_MIN */
#define bcf_int32_missing    (-2147483647-1) /* INT32_MIN */
#define bcf_int64_missing    (-9223372036854775807LL - 1LL)

but it must be getting lost during encoding.