def test_newstyle_ruffus(self):
test_pipeline = Pipeline("test")
test_pipeline.originate(task_func=task1,
output=[tempdir + 'a.1'] + runtime_files)
test_pipeline.transform(task2, task1, suffix(".1"), ".2")
test_pipeline.transform(task_func=task3,
input=task2,
filter=suffix(".2"),
output=".3")
test_pipeline.transform(task_func=task4,
input=runtime_parameter("a"),
filter=suffix(".3"),
output=".4").follows(task3)
test_pipeline.run(verbose=0, runtime_data={"a": runtime_files})
def test_newstyle_ruffus(self):
test_pipeline = Pipeline("test")
test_pipeline.originate(task_func=task1,
output=[tempdir + 'a.1'] + runtime_files)
test_pipeline.transform(task2, task1, suffix(".1"), ".2")
test_pipeline.transform(task_func=task3,
input=task2,
filter=suffix(".2"),
output=".3")
test_pipeline.transform(task_func=task4,
input=runtime_parameter("a"),
filter=suffix(".3"),
output=".4").follows(task3)
test_pipeline.run(verbose=0, runtime_data={"a": runtime_files})
"""
if infile:
with open(infile) as ii:
output_text = ii.read()
else:
output_text = ""
output_text += json.dumps(infile) + " -> " + json.dumps(outfile) + "\n"
with open(outfile, "w") as oo:
oo.write(output_text)
#
# task4
#
@follows(task3)
@transform(runtime_parameter("a"), suffix(".3"), ".4")
def task4(infile, outfile):
"""
Fourth task
"""
if infile:
with open(infile) as ii:
output_text = ii.read()
else:
output_text = ""
output_text += json.dumps(infile) + " -> " + json.dumps(outfile) + "\n"
with open(outfile, "w") as oo:
oo.write(output_text)
class Test_ruffus(unittest.TestCase):
if infile:
with open(infile) as ii:
output_text = ii.read()
else:
output_text = ""
output_text += json.dumps(infile) + " -> " + json.dumps(outfile) + "\n"
with open(outfile, "w") as oo:
oo.write(output_text)
#
# task4
#
@follows(task3)
@transform(runtime_parameter("a"), suffix(".3"), ".4")
def task4(infile, outfile):
"""
Fourth task
"""
if infile:
with open(infile) as ii:
output_text = ii.read()
else:
output_text = ""
output_text += json.dumps(infile) + " -> " + json.dumps(outfile) + "\n"
with open(outfile, "w") as oo:
oo.write(output_text)
