Accumulating computational resource usage of genomic data analysis workflow to optimize cloud computing instance selection.

ABSTRACT:

Background

Container virtualization technologies such as Docker are popular in the bioinformatics domain because they improve the portability and reproducibility of software deployment. Along with software packaged in containers, the standardized workflow descriptors Common Workflow Language (CWL) enable data to be easily analyzed on multiple computing environments. These technologies accelerate the use of on-demand cloud computing platforms, which can be scaled according to the quantity of data. However, to optimize the time and budgetary restraints of cloud usage, users must select a suitable instance type that corresponds to the resource requirements of their workflows.

Results

We developed CWL-metrics, a utility tool for cwltool (the reference implementation of CWL), to

SUBMITTER: Ohta T 

PROVIDER: S-EPMC6479428 | biostudies-literature | 2019 Apr

REPOSITORIES: biostudies-literature