from galaxy.util import bunch
from galaxy import model
from galaxy.tools.parameters import basic
from .test_parameter_parsing import BaseParameterTestCase
class SelectToolParameterTestCase( BaseParameterTestCase ):
def test_dep_dummy_datasets_need_late_validation( self ):
self.options_xml = ''''''
assert self.param.need_late_validation( self.trans, { "input_bam": basic.DummyDataset() } )
def test_dep_runtime_values_need_late_validation( self ):
self.options_xml = ''''''
assert self.param.need_late_validation( self.trans, { "input_bam": basic.RuntimeValue() } )
def test_dep_unvalidated_values_need_late_validation( self ):
self.options_xml = ''''''
assert self.param.need_late_validation( self.trans, { "input_bam": basic.UnvalidatedValue( "42" ) } )
def test_dep_real_datasets_no_late_validation( self ):
self.options_xml = ''''''
assert not self.param.need_late_validation( self.trans, { "input_bam": model.HistoryDatasetAssociation() } )
def test_nested_context_validation_needed( self ):
self.options_xml = ''''''
# Data ref currently must be same level, if not at top level.
assert self.param.need_late_validation( self.trans, { "reference_source": { "my_name": "42", "input_bam": basic.RuntimeValue() } } )
def test_nested_context_validation_not_needed( self ):
self.options_xml = ''''''
# Data ref currently must be same level, if not at top level.
assert not self.param.need_late_validation( self.trans, { "reference_source": { "my_name": "42", "input_bam": model.HistoryDatasetAssociation() } } )
def test_filter_param_value( self ):
self.options_xml = ''''''
assert ("testname1", "testpath1", False) in self.param.get_options( self.trans, { "input_bam": "testname1" } )
assert ("testname2", "testpath2", False) in self.param.get_options( self.trans, { "input_bam": "testname2" } )
assert len( self.param.get_options( self.trans, { "input_bam": "testname3" } ) ) == 0
def test_filter_param_value2( self ):
# Same test as above, but filtering on a different column.
self.options_xml = ''''''
assert ("testname1", "testpath1", False) in self.param.get_options( self.trans, { "input_bam": "testpath1" } )
assert ("testname2", "testpath2", False) in self.param.get_options( self.trans, { "input_bam": "testpath2" } )
assert len( self.param.get_options( self.trans, { "input_bam": "testpath3" } ) ) == 0
# TODO: Good deal of overlap here with DataToolParameterTestCase,
# refactor.
def setUp( self ):
super(SelectToolParameterTestCase, self).setUp()
self.test_history = model.History()
self.app.model.context.add( self.test_history )
self.app.model.context.flush()
self.app.tool_data_tables[ "test_table" ] = MockToolDataTable()
self.trans = bunch.Bunch(
app=self.app,
get_history=lambda: self.test_history,
get_current_user_roles=lambda: [],
workflow_building_mode=False,
webapp=bunch.Bunch( name="galaxy" ),
)
self.type = "select"
self.set_data_ref = False
self.multiple = False
self.optional = False
self.options_xml = ""
self._param = None
@property
def param( self ):
if not self._param:
multi_text = ""
if self.multiple:
multi_text = 'multiple="True"'
optional_text = ""
if self.optional:
optional_text = 'optional="True"'
options_text = self.options_xml
data_ref_text = ""
if self.set_data_ref:
data_ref_text = 'data_ref="input_bam"'
template_xml = '''%s'''
param_str = template_xml % ( self.type, data_ref_text, multi_text, optional_text, options_text )
self._param = self._parameter_for( xml=param_str )
return self._param
class MockToolDataTable( object ):
def __init__( self ):
self.columns = dict(
name=0,
value=1,
)
self.missing_index_file = None
def get_fields( self ):
return [ [ "testname1", "testpath1" ], [ "testname2", "testpath2" ] ]