Update output format

[Redmar-van-den-Berg]

Checklist

• Pull request details were added to HISTORY.rst

The current output is quite hard to read when you have many tests, since the full output for each test is written to a single line. This branch changes that to a more structured format, which is easier to read.

Before

plugins: workflow-1.5.0.dev0
collecting ... 
collected 20 items                                                                                                                                                                                                                                      
start 'test-cromwell' with command 'cromwell --version
' in '/tmp/pytest_workflow_79ovc__9/test-cromwell'. stdout: '/tmp/pytest_workflow_79ovc__9/test-cromwell/log.out'. stderr: '/tmp/pytest_workflow_79ovc__9/test-cromwell/log.err'.
'test-cromwell' done.
start 'test-womtool' with command 'womtool --version
' in '/tmp/pytest_workflow_79ovc__9/test-womtool'. stdout: '/tmp/pytest_workflow_79ovc__9/test-womtool/log.out'. stderr: '/tmp/pytest_workflow_79ovc__9/test-womtool/log.err'.
'test-womtool' done.
start 'validate-workflow-wdl' with command 'womtool validate PacBio-variantcalling.wdl
' in '/tmp/pytest_workflow_79ovc__9/validate-workflow-wdl'. stdout: '/tmp/pytest_workflow_79ovc__9/validate-workflow-wdl/log.out'. stderr: '/tmp/pytest_workflow_79ovc__9/validate-workflow-wdl/log.err'.
'validate-workflow-wdl' done.
start 'validate-workflow-settings' with command 'womtool validate --inputs tests/data/config/variant_calling.json PacBio-variantcalling.wdl
' in '/tmp/pytest_workflow_79ovc__9/validate-workflow-settings'. stdout: '/tmp/pytest_workflow_79ovc__9/validate-workflow-settings/log.out'. stderr: '/tmp/pytest_workflow_79ovc__9/validate-workflow-settings/log.err'.
'validate-workflow-settings' done.

After

plugins: workflow-1.5.0.dev0
collecting ... 
collected 20 items                                                                                                                                                                                                                                      

test-cromwell:
	command:   cromwell --version
	directory: /tmp/pytest_workflow_3xgo95y7/test-cromwell
	stdout:    /tmp/pytest_workflow_3xgo95y7/test-cromwell/log.out
	stderr:    /tmp/pytest_workflow_3xgo95y7/test-cromwell/log.err
'test-cromwell' done.

test-womtool:
	command:   womtool --version
	directory: /tmp/pytest_workflow_3xgo95y7/test-womtool
	stdout:    /tmp/pytest_workflow_3xgo95y7/test-womtool/log.out
	stderr:    /tmp/pytest_workflow_3xgo95y7/test-womtool/log.err
'test-womtool' done.

validate-workflow-wdl:
	command:   womtool validate PacBio-variantcalling.wdl
	directory: /tmp/pytest_workflow_3xgo95y7/validate-workflow-wdl
	stdout:    /tmp/pytest_workflow_3xgo95y7/validate-workflow-wdl/log.out
	stderr:    /tmp/pytest_workflow_3xgo95y7/validate-workflow-wdl/log.err
'validate-workflow-wdl' done.

validate-workflow-settings:
	command:   womtool validate --inputs tests/data/config/variant_calling.json PacBio-variantcalling.wdl
	directory: /tmp/pytest_workflow_3xgo95y7/validate-workflow-settings
	stdout:    /tmp/pytest_workflow_3xgo95y7/validate-workflow-settings/log.out
	stderr:    /tmp/pytest_workflow_3xgo95y7/validate-workflow-settings/log.err
'validate-workflow-settings' done.

[rhpvorderman]

Looks good. I always found this one of the "room for improvement" things!

[rhpvorderman]

It will need some changes to the tests though, as the output is also tested.