def test_08_09_removeAll(self):
c1 = J.get_collection_wrapper(J.make_instance("java/util/HashSet", "()V"))
c1.add("Foo")
c1.add("Bar")
c2 = J.get_collection_wrapper(J.make_instance("java/util/HashSet", "()V"))
c2.add("Foo")
c1.removeAll(c2)
self.assertNotIn("Foo", c1)
def test_08_04_addAll(self):
c1 = J.get_collection_wrapper(J.make_instance("java/util/HashSet", "()V"))
c1.add("Foo")
c1.add("Bar")
c2 = J.get_collection_wrapper(J.make_instance("java/util/HashSet", "()V"))
c2.add("Baz")
c2.addAll(c1.o)
self.assertIn("Foo", c2)
def getIndex(self):
index = J.call(self.o, "getIndex", "()Limagej/module/ModuleIndex;")
index = J.get_collection_wrapper(index, wrap_module_info)
index.getC = lambda c: J.get_collection_wrapper(
J.call(index.o, "get", "(Ljava/lang/Class;)Ljava/util/List;", c), wrap_module_info
)
index.getS = lambda class_name: index.getC(J.class_for_name(class_name))
return index
def test_08_07_contains_all(self):
c1 = J.get_collection_wrapper(J.make_instance("java/util/HashSet", "()V"))
c1.add("Foo")
c1.add("Bar")
c2 = J.get_collection_wrapper(J.make_instance("java/util/HashSet", "()V"))
c2.add("Baz")
self.assertFalse(c2.containsAll(c1.o))
c2 += c1
self.assertTrue(c2.containsAll(c1.o))
def getIndex(self):
index = J.call(self.o, "getIndex", "()Limagej/module/ModuleIndex;")
index = J.get_collection_wrapper(index, wrap_module_info)
index.getC = lambda c: J.get_collection_wrapper(
J.call(index.o, "get", "(Ljava/lang/Class;)Ljava/util/List;", c
), wrap_module_info)
index.getS = lambda class_name: \
index.getC(J.class_for_name(class_name))
return index
def test_08_09_removeAll(self):
c1 = J.get_collection_wrapper(
J.make_instance("java/util/HashSet", "()V"))
c1.add("Foo")
c1.add("Bar")
c2 = J.get_collection_wrapper(
J.make_instance("java/util/HashSet", "()V"))
c2.add("Foo")
c1.removeAll(c2)
self.assertNotIn("Foo", c1)
def test_08_04_addAll(self):
c1 = J.get_collection_wrapper(
J.make_instance("java/util/HashSet", "()V"))
c1.add("Foo")
c1.add("Bar")
c2 = J.get_collection_wrapper(
J.make_instance("java/util/HashSet", "()V"))
c2.add("Baz")
c2.addAll(c1.o)
self.assertIn("Foo", c2)
def test_08_07_contains_all(self):
c1 = J.get_collection_wrapper(
J.make_instance("java/util/HashSet", "()V"))
c1.add("Foo")
c1.add("Bar")
c2 = J.get_collection_wrapper(
J.make_instance("java/util/HashSet", "()V"))
c2.add("Baz")
self.assertFalse(c2.containsAll(c1.o))
c2 += c1
self.assertTrue(c2.containsAll(c1.o))
def test_08_06__iadd__(self):
c1 = J.get_collection_wrapper(J.make_instance("java/util/HashSet", "()V"))
c1.add("Foo")
c1.add("Bar")
c2 = J.get_collection_wrapper(J.make_instance("java/util/HashSet", "()V"))
c2.add("Baz")
c2 += c1
for k in ("Foo", "Bar", "Baz"):
self.assertIn(k, c2)
c2 += ["Hello", "World"]
self.assertIn("Hello", c2)
self.assertIn("World", c2)
def test_08_05__add__(self):
c1 = J.get_collection_wrapper(J.make_instance("java/util/HashSet", "()V"))
c1.add("Foo")
c1.add("Bar")
c2 = J.get_collection_wrapper(J.make_instance("java/util/HashSet", "()V"))
c2.add("Baz")
c3 = c1 + c2
for k in ("Foo", "Bar", "Baz"):
self.assertIn(k, c3)
c4 = c3 + ["Hello", "World"]
self.assertIn("Hello", c4)
self.assertIn("World", c4)
def test_08_06__iadd__(self):
c1 = J.get_collection_wrapper(
J.make_instance("java/util/HashSet", "()V"))
c1.add("Foo")
c1.add("Bar")
c2 = J.get_collection_wrapper(
J.make_instance("java/util/HashSet", "()V"))
c2.add("Baz")
c2 += c1
for k in ("Foo", "Bar", "Baz"):
self.assertIn(k, c2)
c2 += ["Hello", "World"]
self.assertIn("Hello", c2)
self.assertIn("World", c2)
def test_08_05__add__(self):
c1 = J.get_collection_wrapper(
J.make_instance("java/util/HashSet", "()V"))
c1.add("Foo")
c1.add("Bar")
c2 = J.get_collection_wrapper(
J.make_instance("java/util/HashSet", "()V"))
c2.add("Baz")
c3 = c1 + c2
for k in ("Foo", "Bar", "Baz"):
self.assertIn(k, c3)
c4 = c3 + ["Hello", "World"]
self.assertIn("Hello", c4)
self.assertIn("World", c4)
def test_08_11_toArray(self):
c1 = J.get_collection_wrapper(J.make_instance("java/util/HashSet", "()V"))
c1.add("Foo")
c1.add("Bar")
result = [J.to_string(x) for x in c1.toArray()]
self.assertIn("Foo", result)
self.assertIn("Bar", result)
def test_08_01_wrap_collection(self):
c = J.make_instance("java/util/HashSet", "()V")
w = J.get_collection_wrapper(c)
self.assertFalse(hasattr(w, "addI"))
self.assertEqual(w.size(), 0)
self.assertEqual(len(w), 0)
self.assertTrue(w.isEmpty())
def test_08_03_contains(self):
c = J.get_collection_wrapper(J.make_instance("java/util/HashSet", "()V"))
c.add("Foo")
self.assertTrue(c.contains("Foo"))
self.assertFalse(c.contains("Bar"))
self.assertIn("Foo", c)
self.assertNotIn("Bar", c)
def test_08_01_wrap_collection(self):
c = J.make_instance("java/util/HashSet", "()V")
w = J.get_collection_wrapper(c)
self.assertFalse(hasattr(w, "addI"))
self.assertEqual(w.size(), 0)
self.assertEqual(len(w), 0)
self.assertTrue(w.isEmpty())
def test_08_03_contains(self):
c = J.get_collection_wrapper(
J.make_instance("java/util/HashSet", "()V"))
c.add("Foo")
self.assertTrue(c.contains("Foo"))
self.assertFalse(c.contains("Bar"))
self.assertIn("Foo", c)
self.assertNotIn("Bar", c)
def test_08_11_toArray(self):
c1 = J.get_collection_wrapper(
J.make_instance("java/util/HashSet", "()V"))
c1.add("Foo")
c1.add("Bar")
result = [J.to_string(x) for x in c1.toArray()]
self.assertIn("Foo", result)
self.assertIn("Bar", result)
def select_overlay(display, overlay, select=True):
'''Select or deselect an overlay
display - the overlay's display
overlay - the overlay to select
'''
for view in J.get_collection_wrapper(display, fn_wrapper=wrap_data_view):
if J.call(overlay, "equals", "(Ljava/lang/Object;)Z", view.getData()):
view.setSelected(select)
break
else:
logger.info("Failed to select overlay")
def select_overlay(display, overlay, select=True):
'''Select or deselect an overlay
display - the overlay's display
overlay - the overlay to select
'''
for view in J.get_collection_wrapper(display, fn_wrapper = wrap_data_view):
if J.call(overlay, "equals", "(Ljava/lang/Object;)Z", view.getData()):
view.setSelected(select)
break
else:
logger.info("Failed to select overlay")
def select_overlay(display, overlay, select=True):
'''Select or deselect an overlay
display - the overlay's display
overlay - the overlay to select
'''
for view in J.get_collection_wrapper(display, fn_wrapper = wrap_data_view):
if J.call(overlay, "equals", "(Ljava/lang/Object;)Z", view.getData()):
J.execute_runnable_in_main_thread(J.run_script(
"""new java.lang.Runnable() {
run: function() { view.setSelected(select);}
}""", dict(view = view.o, select=select)), synchronous=True)
break
else:
logger.info("Failed to select overlay")
def select_overlay(display, overlay, select=True):
'''Select or deselect an overlay
display - the overlay's display
overlay - the overlay to select
'''
for view in J.get_collection_wrapper(display, fn_wrapper=wrap_data_view):
if J.call(overlay, "equals", "(Ljava/lang/Object;)Z", view.getData()):
J.execute_runnable_in_main_thread(J.run_script(
"""new java.lang.Runnable() {
run: function() { view.setSelected(select);}
}""", dict(view=view.o, select=select)),
synchronous=True)
break
else:
logger.info("Failed to select overlay")
def get_command_settings(self, command, d):
'''Get the settings associated with the current command
d - the dictionary that persists the setting. None = regular
'''
key = command.get_unicode_value()
if not d.has_key(key):
try:
module_info = command.get_selected_leaf()[2]
except cps.ValidationError:
logger.info("Could not find command %s" % key)
return []
result = []
inputs = module_info.getInputs()
for module_item in inputs:
field_type = module_item.getType()
label = module_item.getLabel()
if label is None:
label = module_item.getName()
if module_item.isOutput():
# if both, qualify which is for input and which for output
label = "%s (Input)" % label
minimum = module_item.getMinimumValue()
maximum = module_item.getMaximumValue()
default = module_item.loadValue()
description = module_item.getDescription()
if field_type == ij2.FT_BOOL:
value = (J.is_instance_of(default, 'java/lang/Boolean') and
J.call(default, "booleanValue", "()Z"))
setting = cps.Binary(
label,
value = value,
doc = description)
elif field_type == ij2.FT_INTEGER:
if J.is_instance_of(default, 'java/lang/Number'):
value = J.call(default, "intValue", "()I")
elif minimum is not None:
value = minimum
elif maximum is not None:
value = maximum
else:
value = 0
setting = cps.Integer(
label,
value = value,
doc = description)
elif field_type == ij2.FT_FLOAT:
if J.is_instance_of(default, 'java/lang/Number'):
value = J.call(default, "doubleValue", "()D")
elif minimum is not None:
value = minimum
elif maximum is not None:
value = maximum
else:
value = 0
setting = cps.Float(
label,
value=value,
doc = description)
elif field_type == ij2.FT_STRING:
choices = module_item.getChoices()
value = J.to_string(default)
if choices is not None:
choices = J.get_collection_wrapper(choices)
setting = cps.Choice(
label, choices, value, doc = description)
else:
setting = cps.Text(
label, value, doc = description)
elif field_type == ij2.FT_COLOR:
value = "#ffffff"
setting = cps.Color(label, value, doc = description)
elif field_type == ij2.FT_IMAGE:
setting = cps.ImageNameSubscriber(
label, "InputImage",
doc = description)
elif field_type == ij2.FT_TABLE:
setting = IJTableSubscriber(label, "InputTable",
doc=description)
elif field_type == ij2.FT_FILE:
setting = cps.FilenameText(
label, None, doc = description)
else:
continue
result.append((setting, module_item))
for output in module_info.getOutputs():
field_type = output.getType()
label = output.getLabel()
if label is None:
label = output.getName()
if output.isInput():
# if both, qualify which is for input and which for output
label = "%s (Output)" % label
if field_type == ij2.FT_IMAGE:
result.append((cps.ImageNameProvider(
label, "ImageJImage",
doc = description), output))
elif field_type == ij2.FT_TABLE:
result.append((IJTableProvider(
label, "ImageJTable", doc=description), output))
d[key] = result
else:
result = d[key]
return [setting for setting, module_info in result]
def test_08_02_add(self):
c = J.get_collection_wrapper(J.make_instance("java/util/HashSet", "()V"))
self.assertTrue(c.add("Foo"))
self.assertEqual(len(c), 1)
self.assertFalse(c.isEmpty())
def test_08_02_add(self):
c = J.get_collection_wrapper(
J.make_instance("java/util/HashSet", "()V"))
self.assertTrue(c.add("Foo"))
self.assertEqual(len(c), 1)
self.assertFalse(c.isEmpty())
def is_image_extension(suffix):
'''Return True if the extension is one of those recongized by bioformats'''
extensions = J.get_collection_wrapper(
J.static_call("org/cellprofiler/imageset/filter/IsImagePredicate",
"getImageSuffixes", "()Ljava/util/Set;"))
return extensions.contains(suffix.lower())
def is_image_extension(suffix):
'''Return True if the extension is one of those recongized by bioformats'''
extensions = J.get_collection_wrapper(
J.static_call("org/cellprofiler/imageset/filter/IsImagePredicate",
"getImageSuffixes", "()Ljava/util/Set;"))
return extensions.contains(suffix.lower())
def get_command_settings(self, command, d):
'''Get the settings associated with the current command
d - the dictionary that persists the setting. None = regular
'''
key = command.get_unicode_value()
if not d.has_key(key):
try:
module_info = command.get_selected_leaf()[2]
except cps.ValidationError:
logger.info("Could not find command %s" % key)
return []
result = []
inputs = module_info.getInputs()
for module_item in inputs:
field_type = module_item.getType()
label = module_item.getLabel()
if label is None:
label = module_item.getName()
if module_item.isOutput():
# if both, qualify which is for input and which for output
label = "%s (Input)" % label
minimum = module_item.getMinimumValue()
maximum = module_item.getMaximumValue()
default = module_item.loadValue()
description = module_item.getDescription()
if field_type == ij2.FT_BOOL:
value = (J.is_instance_of(default, 'java/lang/Boolean')
and J.call(default, "booleanValue", "()Z"))
setting = cps.Binary(label, value=value, doc=description)
elif field_type == ij2.FT_INTEGER:
if J.is_instance_of(default, 'java/lang/Number'):
value = J.call(default, "intValue", "()I")
elif minimum is not None:
value = minimum
elif maximum is not None:
value = maximum
else:
value = 0
setting = cps.Integer(label, value=value, doc=description)
elif field_type == ij2.FT_FLOAT:
if J.is_instance_of(default, 'java/lang/Number'):
value = J.call(default, "doubleValue", "()D")
elif minimum is not None:
value = minimum
elif maximum is not None:
value = maximum
else:
value = 0
setting = cps.Float(label, value=value, doc=description)
elif field_type == ij2.FT_STRING:
choices = module_item.getChoices()
value = J.to_string(default)
if choices is not None:
choices = J.get_collection_wrapper(choices)
setting = cps.Choice(label,
choices,
value,
doc=description)
else:
setting = cps.Text(label, value, doc=description)
elif field_type == ij2.FT_COLOR:
value = "#ffffff"
setting = cps.Color(label, value, doc=description)
elif field_type == ij2.FT_IMAGE:
setting = cps.ImageNameSubscriber(label,
"InputImage",
doc=description)
elif field_type == ij2.FT_TABLE:
setting = IJTableSubscriber(label,
"InputTable",
doc=description)
elif field_type == ij2.FT_FILE:
setting = cps.FilenameText(label, None, doc=description)
else:
continue
result.append((setting, module_item))
for output in module_info.getOutputs():
field_type = output.getType()
label = output.getLabel()
if label is None:
label = output.getName()
if output.isInput():
# if both, qualify which is for input and which for output
label = "%s (Output)" % label
if field_type == ij2.FT_IMAGE:
result.append(
(cps.ImageNameProvider(label,
"ImageJImage",
doc=description), output))
elif field_type == ij2.FT_TABLE:
result.append((IJTableProvider(label,
"ImageJTable",
doc=description), output))
d[key] = result
else:
result = d[key]
return [setting for setting, module_info in result]