def test_outputs_removal():
def test_function(arg1):
import os
file1 = os.path.join(os.getcwd(), 'file1.txt')
file2 = os.path.join(os.getcwd(), 'file2.txt')
fp = open(file1, 'wt')
fp.write('%d' % arg1)
fp.close()
fp = open(file2, 'wt')
fp.write('%d' % arg1)
fp.close()
return file1, file2
out_dir = mkdtemp()
n1 = pe.Node(niu.Function(input_names=['arg1'],
output_names=['file1', 'file2'],
function=test_function),
base_dir=out_dir,
name='testoutputs')
n1.inputs.arg1 = 1
n1.config = {'execution': {'remove_unnecessary_outputs': True}}
n1.config = merge_dict(deepcopy(config._sections), n1.config)
n1.run()
yield assert_true, os.path.exists(os.path.join(out_dir,
n1.name,
'file1.txt'))
yield assert_true, os.path.exists(os.path.join(out_dir,
n1.name,
'file2.txt'))
n1.needed_outputs = ['file2']
n1.run()
yield assert_false, os.path.exists(os.path.join(out_dir,
n1.name,
'file1.txt'))
yield assert_true, os.path.exists(os.path.join(out_dir,
n1.name,
'file2.txt'))
rmtree(out_dir)
def run(self, plugin_args=None, updatehash=False):
""" Execute the workflow
XNAT-modified Linear runner only
plugin_args : dictionary containing arguments to be sent to plugin
constructor. see individual plugin doc strings for details.
"""
runner = LinearPlugin(plugin_args=plugin_args)
flatgraph = self._create_flat_graph()
self.config = merge_dict(deepcopy(config._sections), self.config)
logger.info(str(sorted(self.config)))
self._set_needed_outputs(flatgraph)
execgraph = generate_expanded_graph(deepcopy(flatgraph))
for index, node in enumerate(execgraph.nodes()):
node.config = self.config
node.base_dir = self.base_dir
node.index = index
if isinstance(node, MapNode):
node.use_plugin = (plugin, plugin_args)
self._configure_exec_nodes(execgraph)
self._write_report_info(self.base_dir, self.name, execgraph)
runner.run(execgraph, updatehash=updatehash, config=self.config)
return execgraph
