sevenbridges (version 1.2.4)

test_tool_cwlrun: Test tools with cwl-runner

Description

Test tools locally cwl-runner (https://github.com/common-workflow-language/cwltool)

Usage

test_tool_cwlrun(rabix_tool, inputs = list())

Arguments

rabix_tool

rabix tool from Tool class

inputs

input parameters declared as json (or yaml) string

Value

cwl-runner stdout

Examples

## Not run: 
# inputs <- '{"counts_file": {"class": "File", "path": "./FPKM.txt"}, "gene_names": "BRCA1"}'
# rbx <- <define rabix tool>
# set_test_env("tengfei/testenv", "<mount_dir>")
# test_tool_cwlrun(rbx, inputs)
# ## End(Not run)