def test_save_layer_multiple_no_named_plugin(tmpdir, layer_data_and_types):
"""Test saving multiple layers without naming a plugin."""
# make writer builtin plugins get called first
from napari.plugins import plugin_manager
plugin_manager.hooks.napari_get_writer.bring_to_front(['builtins'])
layers, _, _, filenames = layer_data_and_types
path = os.path.join(tmpdir, 'layers_folder')
# Check file does not exist
assert not os.path.isdir(path)
# Write data
save_layers(path, layers, plugin='builtins')
# Check folder now exists
assert os.path.isdir(path)
# Check individual files now exist
for f in filenames:
assert os.path.isfile(os.path.join(path, f))
# Check no additional files exist
assert set(os.listdir(path)) == set(filenames)
assert set(os.listdir(tmpdir)) == {'layers_folder'}
def test_save_layer_single_named_plugin(tmpdir, layer_data_and_types):
"""Test saving a single layer with a named plugin."""
layers, _, _, filenames = layer_data_and_types
for layer, fn in zip(layers, filenames):
path = os.path.join(tmpdir, fn)
# Check file does not exist
assert not os.path.isfile(path)
# Write data
save_layers(path, [layer], plugin='builtins')
# Check file now exists
assert os.path.isfile(path)
def test_save_layer_single_no_named_plugin(builtins, tmpdir,
layer_data_and_types):
"""Test saving a single layer without naming plugin."""
# make writer builtin plugins get called first
layers, _, _, filenames = layer_data_and_types
for layer, fn in zip(layers, filenames):
path = os.path.join(tmpdir, fn)
# Check file does not exist
assert not os.path.isfile(path)
# Write data
save_layers(path, [layer])
# Check file now exists
assert os.path.isfile(path)
def test_save_layer_single_no_named_plugin(tmpdir, layer_data_and_types):
"""Test saving a single layer without naming plugin."""
# make writer builtin plugins get called first
from napari.plugins import plugin_manager
plugin_manager.hooks.napari_write_image.bring_to_front(['builtins'])
plugin_manager.hooks.napari_write_points.bring_to_front(['builtins'])
layers, _, _, filenames = layer_data_and_types
for layer, fn in zip(layers, filenames):
path = os.path.join(tmpdir, fn)
# Check file does not exist
assert not os.path.isfile(path)
# Write data
save_layers(path, [layer])
# Check file now exists
assert os.path.isfile(path)
def test_save_layer_multiple_named_plugin(tmpdir, layer_data_and_types):
"""Test saving multiple layers with a named plugin."""
layers, _, _, filenames = layer_data_and_types
path = os.path.join(tmpdir, 'layers_folder')
# Check file does not exist
assert not os.path.isdir(path)
# Write data
save_layers(path, layers, plugin='builtins')
# Check folder now exists
assert os.path.isdir(path)
# Check individual files now exist
for f in filenames:
assert os.path.isfile(os.path.join(path, f))
# Check no additional files exist
assert set(os.listdir(path)) == set(filenames)
assert set(os.listdir(tmpdir)) == {'layers_folder'}
def test_write_and_read(make_napari_viewer):
with tempfile.TemporaryDirectory() as tmpdir:
ds_path = os.path.join(tmpdir, 'tmp.zarr')
dataset = ZDataset(ds_path, mode='w')
dataset.add_channel('Image', shape=(5, 25, 25, 25), dtype=int, value=0)
dataset.append_metadata({
'Image': {
'dz': 2, 'dt': 20,
'tx': 1.5, 'tz': 3.5,
}
})
dataset.close()
viewer: napari.Viewer = make_napari_viewer()
layer = viewer.open(ds_path)[0]
assert np.all(layer.scale == (20, 2, 1, 1))
assert np.all(layer.translate == (0, 3.5, 0, 1.5))
saved_path = os.path.join(tmpdir, 'saved.zarr')
save_layers(saved_path, [layer])
saved_layer = viewer.open(saved_path)[0]
assert np.all(np.asarray(saved_layer.data) == np.asarray(layer.data))
def test_save_layer_no_results():
"""Test no layers is not an error, and warns on no results."""
with pytest.warns(UserWarning):
result = save_layers('no_layers', [])
assert result == []
def test_save_layer_no_results(tmpdir):
"""Test no layers is not an error, and warns on no results."""
with pytest.warns(UserWarning):
result = save_layers('no_layers', [], plugin='builtins')
assert result == []
