def make_tool(conda_meta, plugin, action):
signature = action.signature
inputs = XMLNode('inputs')
advanced = []
for case in signature_to_galaxy(signature):
xml = case.inputs_xml()
if case.is_advanced():
if type(xml) is list:
advanced.extend(xml)
else:
advanced.append(xml)
else:
if type(xml) is list:
inputs.extend(xml)
else:
inputs.append(xml)
if case.is_advanced():
if type(xml) is list:
advanced.extend(xml)
else:
advanced.append(xml)
else:
if type(xml) is list:
inputs.extend(xml)
else:
inputs.append(xml)
if advanced:
section = XMLNode('section',
name=galaxy_ui_var(tag='section', name='extra_opts'),
title='Click here for additional options')
section.extend(advanced)
inputs.append(section)
outputs = XMLNode('outputs')
for name, spec in signature.outputs.items():
output = make_output(name, spec)
outputs.append(output)
tool = XMLNode('tool',
id=make_tool_id(plugin.id, action.id),
name=make_tool_name(plugin.name, action.id),
version=f'{plugin.version}+q2galaxy.{q2galaxy.__version__}')
tool.append(XMLNode('description', action.name))
tool.append(make_command(plugin, action))
tool.append(make_version_command(plugin))
tool.append(make_config())
