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Ran 27 Apr 2018 09:25PM UTC

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Committed 27 Apr 2018 09:20PM UTC coverage: 92.251% (+0.02%) from 92.227%

Job # 716.1

Build Type

push

travis-ci

Committed by

web-flow

Commit Message

Partitioning before Merging (#195)

* Partitioning before Merging

In order to be able to process large datasets, we need to partition
input into smaller patches so that Merging would be possible to run on a
ordinary VM. Here we add the ability to partition variants based on
thier reference_name (CHROM) value.

This change enables VT to process Platinum_100 (with a caviate of some
changes needed for writing to BigQuery table).

* Separate partitioning logic from the partition_for

* Refactor variant_partition add RegionIndexer class

* Remove logic related to partition_config parsing

In order to make this PR smaller and land it faster. The removed logic
will be added in a follow up PR.

* Another round of comments

Coverage Stats

4524 of 4904 relevant lines covered (92.25%)

0.92 hits per line

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