def test_06_params(instance_path):
"""Test referencing input parameters in other fields."""
hello = Path(instance_path) / 'hello.tar'
hello.touch()
argv = ['tar', 'xf', 'hello.tar', 'goodbye.txt']
factory = CommandLineToolFactory(
argv,
directory=instance_path,
)
assert factory.inputs[1].default == 'goodbye.txt'
assert factory.inputs[1].type == 'string'
assert factory.inputs[1].inputBinding.position == 2
goodbye_id = factory.inputs[1].id
# simulate run
output = Path(instance_path) / 'goodbye.txt'
output.touch()
parameters = list(factory.guess_outputs([output]))
assert parameters[0][0].type == 'File'
assert parameters[0][0].outputBinding.glob == \
'$(inputs.{0})'.format(goodbye_id)
tool = factory.generate_tool()
assert tool.to_argv() == argv
def test_04_output(instance_path):
"""Test describtion of outputs from a command."""
hello = Path(instance_path) / 'hello.tar'
hello.touch()
argv = ['tar', 'xf', 'hello.tar']
factory = CommandLineToolFactory(argv, directory=instance_path)
# simulate run
output = Path(instance_path) / 'hello.txt'
output.touch()
parameters = list(factory.guess_outputs([output]))
assert parameters[0][0].type == 'File'
assert parameters[0][0].outputBinding.glob == 'hello.txt'
tool = factory.generate_tool()
assert tool.to_argv() == argv