def __test_arbitrary_path_rewriting( self ):
self.job.parameters = [ JobParameter( name="index_path", value="\"/old/path/human\"" ) ]
xml = XML('''<param name="index_path" type="select">
<option value="/old/path/human">Human</option>
<option value="/old/path/mouse">Mouse</option>
</param>''')
parameter = SelectToolParameter( self.tool, xml )
def get_field_by_name_for_value( name, value, trans, other_values ):
assert value == "/old/path/human"
assert name == "path"
return ["/old/path/human"]
def get_options( trans, other_values ):
return [ [ "", "/old/path/human", "" ] ]
parameter.options = Bunch(get_field_by_name_for_value=get_field_by_name_for_value, get_options=get_options)
self.tool.set_params( {
"index_path": parameter
} )
self.tool._command_line = "prog1 $index_path.fields.path"
def test_path_rewriter(v):
if v:
v = v.replace("/old", "/new")
return v
self._set_compute_environment(path_rewriter=test_path_rewriter)
command_line, extra_filenames, _ = self.evaluator.build( )
self.assertEquals(command_line, "prog1 /new/path/human")
def __test_arbitrary_path_rewriting(self):
self.job.parameters = [
JobParameter(name="index_path", value="\"/old/path/human\"")
]
xml = XML('''<param name="index_path" type="select">
<option value="/old/path/human">Human</option>
<option value="/old/path/mouse">Mouse</option>
</param>''')
parameter = SelectToolParameter(self.tool, xml)
def get_field_by_name_for_value(name, value, trans, other_values):
assert value == "/old/path/human"
assert name == "path"
return ["/old/path/human"]
parameter.options = Bunch(
get_field_by_name_for_value=get_field_by_name_for_value)
self.tool.set_params({"index_path": parameter})
self.tool._command_line = "prog1 $index_path.fields.path"
def test_path_rewriter(v):
if v:
v = v.replace("/old", "/new")
return v
self._set_compute_environment(path_rewriter=test_path_rewriter)
command_line, extra_filenames = self.evaluator.build()
self.assertEquals(command_line, "prog1 /new/path/human")
def __test_arbitrary_path_rewriting(self):
self.job.parameters = [
JobParameter(name="index_path", value="\"/old/path/human\"")
]
xml = XML('''<param name="index_path" type="select">
<option value="/old/path/human">Human</option>
<option value="/old/path/mouse">Mouse</option>
</param>''')
parameter = SelectToolParameter(self.tool, xml)
def get_field_by_name_for_value(name, value, trans, other_values):
assert value == "/old/path/human"
assert name == "path"
return ["/old/path/human"]
def get_options(trans, other_values):
return [["", "/old/path/human", ""]]
parameter.options = Bunch(
get_field_by_name_for_value=get_field_by_name_for_value,
get_options=get_options)
self.tool.set_params({"index_path": parameter})
self.tool._command_line = "prog1 $index_path.fields.path"
self._set_compute_environment(
unstructured_path_rewrites={"/old": "/new"})
command_line = self.evaluator.build()[0]
self.assertEqual(command_line, "prog1 /new/path/human")