batchutils 0.1.2

Methods and functions that support the overall operations of code based on Hail Batch.

batchutils

Overview

Main Features

Installation

Usage

Use the following function as is. Replace the paths with [j1.ofile, j2.ofile, ...]

b = hb.Batch(
    default_image='hailgenetics/hail:0.2.77,
    backend=service_backend,
    name=f'combine-tsvs'
)
combined = batch_combine2(
    combine_tsvs_with_headers,
    combine_compressed_tsvs_with_headers,
    b,
    'combine-tsvs-with-headers',
    ['gs://bucket/input1.tsv', ...],
    final_location='gs://bucket/final-file.tsv.gz',
    branching_factor=25,
    suffix='.tsv.bgz')

final_location is where the output file is.

Cite

Maintainer

Tarjinder Singh @ [e-mail]

Acknowledgements

Release Notes