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########################################################################################
# #
# Author: Herve Menager, #
# Organization:'Biological Software and Databases' Group, Institut Pasteur, Paris. #
# Distributed under GPLv2 Licence. Please refer to the COPYING.LIB document. #
# #
########################################################################################
from Mobyle.Workflow import Workflow, Task, Link, Parameter, Type, Datatype, Biotype, Parser, InputValue #@UnusedImport
print __file__
if __name__ == "__main__":
wf = Workflow()
wf.name = 'toto'
wf.version = '1.1'
wf.title = 'test workflow'
wf.description = 'this workflow is a test one'
t1 = Task()
t1.id = 1
t1.service = 'clustalw-multialign'
t1.suspend = False
t1.description = "Run a clustalw"
iv = InputValue()
iv.name = 'infile'
iv.value = """>A
TTTT
>B
TATA
"""
iv2 = InputValue()
iv2.name = 'outputformat'
iv2.value = 'PHYLIP'
t1.input_values = [iv,iv2]
t2 = Task()
t2.id = 2
t2.service = 'protdist'
t2.suspend = True
t2.description = "Run a protdist"
l = Link()
l.from_task = t1.id
l.to_task = t2.id
l.from_parameter = "aligfile"
l.to_parameter = "infile"
wf.tasks = [t1, t2]
wf.links = [l]
mp = Parser()
print mp.tostring(wf)
wffile = open( '/tmp/workflow2.xml', 'w' )
wffile.write( mp.tostring(wf))
wffile.close()
print mp.parse('/tmp/workflow2.xml')
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