Bio Partitioner

Install

For User

1. pip install biopartitioner
2. Demo Code:

from biopartitioner.factory import PartitionerFactory
partitioner_caller = PartitionerFactory.create_partitioner("vcf")
dataset = "fixtures/scaffold.vcf"
vcf_partioner = partitioner_caller(dataset=dataset, partition_num=8)
vcf_partioner.partition()

3. You'll see vcf partition files at current folder.

For Developer

1. Python dependencies:
   1. virtualenv venv; . venv/bin/activate
   2. pip install poetry
   3. poetry install
2. Npm dependencies, for linter, formatter and commit linter (optional):
   1. brew install npm
   2. npm ci

Run

1. npm run test
2. You'll see 10 vcf partition files at your folder

Test

1. test: npm run test
2. Run all linter before commitment would save some effort: npm run check