def __init__(self, vcf_shards_output_dir, number_of_variants_per_shard):
# type: (str, int) -> None
"""Initializes `_WriteVariantsToVCFShards` object.
Args:
vcf_shards_output_dir: The location for all VCF shards.
number_of_variants_per_shard: The maximum number of variants that is
written into one VCF shard.
"""
self._vcf_shards_output_dir = vcf_shards_output_dir
self._number_of_variants_per_shard = number_of_variants_per_shard
self._coder = vcfio._ToVcfRecordCoder()
self._sample_names = []
self._variant_lines = []
self._counter = 0
def __init__(self, vcf_shards_output_dir, number_of_variants_per_shard):
# type: (str, int) -> None
"""Initializes `_WriteVariantsToVCFShards` object.
Args:
vcf_shards_output_dir: The location for all VCF shards.
number_of_variants_per_shard: The maximum number of variants that is
written into one VCF shard.
"""
self._vcf_shards_output_dir = vcf_shards_output_dir
self._number_of_variants_per_shard = number_of_variants_per_shard
# Write shards as is.
# This piece of code is triggered from vcf_to_bq._shard_variants() which
# reads variants with the --use_1_based_coordinate=False option, regardless
# if the flag was passed with that value or not. Therefore, write the shards
# into BQ with 0-based coordinate assumption.
self._coder = vcfio._ToVcfRecordCoder(bq_uses_1_based_coordinate=False)
self._sample_names = []
self._variant_lines = []
self._counter = 0
def _get_coder(self):
return vcfio._ToVcfRecordCoder()
def _get_coder(self, bq_uses_1_based_coordinate=False): return vcfio._ToVcfRecordCoder(bq_uses_1_based_coordinate)
