def setUp(self):
super().setUp()
plugin = BleedthroughLinearPlugin()
self.op = op = plugin.get_operation()
self.cwd = os.path.dirname(os.path.abspath(__file__))
op.controls_list = [
_Control(channel="FITC-A",
file=self.cwd +
'/../../cytoflow/tests/data/tasbe/eyfp.fcs'),
_Control(channel="PE-Tx-Red-YG-A",
file=self.cwd +
'/../../cytoflow/tests/data/tasbe/mkate.fcs'),
_Control(channel="Pacific Blue-A",
file=self.cwd +
'/../../cytoflow/tests/data/tasbe/ebfp.fcs')
]
op.subset_list.append(BoolSubset(name="Morpho"))
op.subset_list[0].selected_t = True
self.wi = wi = WorkflowItem(operation=op,
status='waiting',
view_error="Not yet plotted")
wi.default_view = self.op.default_view()
wi.views.append(self.wi.default_view)
self.workflow.workflow.append(wi)
self.workflow.selected = self.wi
# run the estimate
op.do_estimate = True
self.workflow.wi_waitfor(self.wi, 'status', 'valid')
def setUp(self):
TasbeTest.setUp(self)
plugin = ThresholdPlugin()
op = plugin.get_operation()
op.name = "Morpho"
op.channel = "FSC-A"
op.threshold = 100000
wi = WorkflowItem(operation=op)
self.workflow.workflow.append(wi)
self.assertTrue(wait_for(wi, 'status', lambda v: v == 'valid', 30))
plugin = AutofluorescencePlugin()
self.op = op = plugin.get_operation()
self.cwd = os.path.dirname(os.path.abspath(__file__))
op.blank_file = self.cwd + "/../../cytoflow/tests/data/tasbe/blank.fcs"
op.channels = ["FITC-A", "Pacific Blue-A", "PE-Tx-Red-YG-A"]
op.subset_list.append(BoolSubset(name="Morpho"))
op.subset_list[0].selected_t = True
self.wi = wi = WorkflowItem(operation=op)
wi.default_view = self.op.default_view()
wi.view_error = "Not yet plotted"
wi.views.append(self.wi.default_view)
self.workflow.workflow.append(wi)
self.workflow.selected = self.wi
# run the estimate
op.do_estimate = True
self.assertTrue(wait_for(wi, 'status', lambda v: v == 'valid', 30))
def setUp(self):
super().setUp()
plugin = ColorTranslationPlugin()
self.op = op = plugin.get_operation()
self.cwd = os.path.dirname(os.path.abspath(__file__))
self.rby_file = self.cwd + "/../../cytoflow/tests/data/tasbe/rby.fcs"
op.controls_list = [
_Control(from_channel="Pacific Blue-A",
to_channel="FITC-A",
file=self.rby_file)
]
# op.channels = ["FITC-A", "Pacific Blue-A", "PE-Tx-Red-YG-A"]
op.subset_list.append(BoolSubset(name="Morpho"))
op.subset_list[0].selected_t = True
self.wi = wi = WorkflowItem(operation=op,
status='waiting',
view_error="Not yet plotted")
wi.default_view = self.op.default_view()
wi.views.append(self.wi.default_view)
self.workflow.workflow.append(wi)
self.workflow.selected = self.wi
# run the estimate
op.do_estimate = True
self.workflow.wi_waitfor(self.wi, 'status', 'valid')
def setUp(self):
TasbeTest.setUp(self)
plugin = ThresholdPlugin()
op = plugin.get_operation()
op.name = "Morpho"
op.channel = "FSC-A"
op.threshold = 100000
wi = WorkflowItem(operation=op)
self.workflow.workflow.append(wi)
self.assertTrue(wait_for(wi, 'status', lambda v: v == 'valid', 30))
plugin = TasbePlugin()
self.op = op = plugin.get_operation()
self.cwd = os.path.dirname(os.path.abspath(__file__))
self.wi = wi = WorkflowItem(operation=op)
wi.default_view = self.op.default_view()
wi.view_error = "Not yet plotted"
wi.views.append(self.wi.default_view)
self.workflow.workflow.append(wi)
self.workflow.selected = self.wi
op.channels = ["FITC-A", "Pacific Blue-A", "PE-Tx-Red-YG-A"]
op.blank_file = self.cwd + "/../../cytoflow/tests/data/tasbe/blank.fcs"
op.bleedthrough_list = [
_BleedthroughControl(channel="FITC-A",
file=self.cwd +
"/../../cytoflow/tests/data/tasbe/eyfp.fcs"),
_BleedthroughControl(channel="Pacific Blue-A",
file=self.cwd +
"/../../cytoflow/tests/data/tasbe/ebfp.fcs"),
_BleedthroughControl(channel="PE-Tx-Red-YG-A",
file=self.cwd +
"/../../cytoflow/tests/data/tasbe/mkate.fcs")
]
op.beads_name = "Spherotech RCP-30-5A Lot AG01, AF02, AD04 and AAE01"
op.beads_file = self.cwd + "/../../cytoflow/tests/data/tasbe/beads.fcs"
op.beads_unit = "MEFL"
op.to_channel = "FITC-A"
self.op.translation_list[
0].file = self.cwd + "/../../cytoflow/tests/data/tasbe/rby.fcs"
self.op.translation_list[
1].file = self.cwd + "/../../cytoflow/tests/data/tasbe/rby.fcs"
op.subset_list.append(BoolSubset(name="Morpho"))
op.subset_list[0].selected_t = True
# run the estimate
op.do_estimate = True
self.assertTrue(wait_for(wi, 'status', lambda v: v == 'valid', 30))
def setUp(self):
TasbeTest.setUp(self)
plugin = ThresholdPlugin()
op = plugin.get_operation()
op.name = "Morpho"
op.channel = "FSC-A"
op.threshold = 100000
wi = WorkflowItem(operation = op)
self.workflow.workflow.append(wi)
self.assertTrue(wait_for(wi, 'status', lambda v: v == 'valid', 5))
plugin = BleedthroughLinearPlugin()
self.op = op = plugin.get_operation()
self.cwd = os.path.dirname(os.path.abspath(__file__))
op.controls_list = [_Control(channel = "FITC-A",
file = self.cwd + '/../../cytoflow/tests/data/tasbe/eyfp.fcs'),
_Control(channel = "PE-Tx-Red-YG-A",
file = self.cwd + '/../../cytoflow/tests/data/tasbe/mkate.fcs'),
_Control(channel = "Pacific Blue-A",
file = self.cwd + '/../../cytoflow/tests/data/tasbe/ebfp.fcs')]
op.subset_list.append(BoolSubset(name = "Morpho"))
op.subset_list[0].selected_t = True
self.wi = wi = WorkflowItem(operation = op)
wi.default_view = self.op.default_view()
wi.view_error = "Not yet plotted"
wi.views.append(self.wi.default_view)
self.workflow.workflow.append(wi)
self.workflow.selected = self.wi
# run the estimate
op.do_estimate = True
self.assertTrue(wait_for(wi, 'status', lambda v: v == 'valid', 30))