def main(tests, root_uri, verbose):
"""Runs RV end-to-end and checks that evaluation metrics are correct."""
if len(tests) == 0:
tests = all_tests
if verbose:
rv_config.set(verbosity=Verbosity.DEBUG)
with rv_config.get_tmp_dir() as tmp_dir:
if root_uri:
tmp_dir = root_uri
errors = []
for test in tests:
if test not in all_tests:
print('{} is not a valid test.'.format(test))
return
errors.extend(run_test(test, tmp_dir))
for error in errors:
print(error)
for test in tests:
nb_test_errors = len(
list(filter(lambda error: error.test == test, errors)))
if nb_test_errors == 0:
print('{} test passed!'.format(test))
if errors:
exit(1)
def run(runner: str, cfg_module: str, commands: List[str],
arg: List[Tuple[str, str]], splits: int):
"""Run COMMANDS within pipelines in CFG_MODULE using RUNNER.
RUNNER: name of the Runner to use
CFG_MODULE: the module with `get_configs` function that returns PipelineConfigs.
This can either be a Python module path or a local path to a .py file.
COMMANDS: space separated sequence of commands to run within pipeline. The order in
which to run them is based on the Pipeline.commands attribute. If this is omitted,
all commands will be run.
"""
tmp_dir_obj = rv_config.get_tmp_dir()
tmp_dir = tmp_dir_obj.name
args = dict(arg)
args = convert_bool_args(args)
cfgs = get_configs(cfg_module, runner, args)
runner = registry.get_runner(runner)()
for cfg in cfgs:
cfg.update()
cfg.rv_config = rv_config.get_config_dict(registry.rv_config_schema)
cfg.recursive_validate_config()
cfg_dict = cfg.dict()
cfg_json_uri = cfg.get_config_uri()
json_to_file(cfg_dict, cfg_json_uri)
pipeline = cfg.build(tmp_dir)
if not commands:
commands = pipeline.commands
runner.run(cfg_json_uri, pipeline, commands, num_splits=splits)
def _run_command(cfg_json_uri,
command,
split_ind=None,
num_splits=None,
runner=None):
pipeline_cfg_dict = file_to_json(cfg_json_uri)
rv_config_dict = pipeline_cfg_dict.get('rv_config')
rv_config.reset(
config_overrides=rv_config_dict,
verbosity=rv_config.verbosity,
tmp_dir=rv_config.tmp_dir)
tmp_dir_obj = rv_config.get_tmp_dir()
tmp_dir = tmp_dir_obj.name
cfg = build_config(pipeline_cfg_dict)
pipeline = cfg.build(tmp_dir)
if num_splits is not None and split_ind is None and runner is not None:
runner = registry.get_runner(runner)()
split_ind = runner.get_split_ind()
command_fn = getattr(pipeline, command)
if num_splits is not None and num_splits > 1:
msg = 'Running {} command split {}/{}...'.format(
command, split_ind + 1, num_splits)
click.echo(click.style(msg, fg='green'))
command_fn(split_ind=split_ind, num_splits=num_splits)
else:
msg = 'Running {} command...'.format(command)
click.echo(click.style(msg, fg='green'))
command_fn()
def test_accounts_for_aoi(self):
class_config = ClassConfig(names=['car', 'building', 'background'])
label_source_uri = data_file_path('evaluator/cc-label-filtered.json')
label_source_cfg = ChipClassificationLabelSourceConfig(
vector_source=GeoJSONVectorSourceConfig(uri=label_source_uri,
default_class_id=None))
label_store_uri = data_file_path('evaluator/cc-label-full.json')
label_store_cfg = ChipClassificationGeoJSONStoreConfig(
uri=label_store_uri)
raster_source_uri = data_file_path('evaluator/cc-label-img-blank.tif')
raster_source_cfg = RasterioSourceConfig(uris=[raster_source_uri])
aoi_uri = data_file_path('evaluator/cc-label-aoi.json')
s = SceneConfig(id='test',
raster_source=raster_source_cfg,
label_source=label_source_cfg,
label_store=label_store_cfg,
aoi_uris=[aoi_uri])
with rv_config.get_tmp_dir() as tmp_dir:
scene = s.build(class_config, tmp_dir)
output_uri = os.path.join(tmp_dir, 'eval.json')
evaluator = ChipClassificationEvaluatorConfig(
output_uri=output_uri).build(class_config)
evaluator.process([scene], tmp_dir)
overall = file_to_json(output_uri)['overall']
for item in overall:
self.assertEqual(item['f1'], 1.0)
def run(runner: str, cfg_module: str, commands: List[str],
arg: List[Tuple[str, str]], splits: int):
"""Subcommand to run commands within pipelines using runner named RUNNER.
Args:
runner: name of runner to use
cfg_module: name of module with `get_configs` function that returns
PipelineConfigs
commands: names of commands to run within pipeline. The order in which
to run them is based on the Pipeline.commands attribute. If this is
omitted, all commands will be run.
"""
tmp_dir_obj = rv_config.get_tmp_dir()
tmp_dir = tmp_dir_obj.name
cfg_module = importlib.import_module(cfg_module)
args = dict(arg)
args = convert_bool_args(args)
cfgs = get_configs(cfg_module, runner, args)
runner = registry.get_runner(runner)()
for cfg in cfgs:
cfg.update()
cfg.rv_config = rv_config.get_config_dict(registry.rv_config_schema)
cfg.recursive_validate_config()
cfg_dict = cfg.dict()
cfg_json_uri = cfg.get_config_uri()
json_to_file(cfg_dict, cfg_json_uri)
pipeline = cfg.build(tmp_dir)
if not commands:
commands = pipeline.commands
runner.run(cfg_json_uri, pipeline, commands, num_splits=splits)
def run(runner, cfg_path, commands, arg, splits):
"""Run commands within pipelines using runner named RUNNER."""
tmp_dir_obj = rv_config.get_tmp_dir()
tmp_dir = tmp_dir_obj.name
cfg_module = importlib.import_module(cfg_path)
args = dict(arg)
args = convert_bool_args(args)
cfgs = get_configs(cfg_module, runner, args)
runner = registry.get_runner(runner)()
for cfg in cfgs:
cfg.update()
cfg.rv_config = rv_config.get_config_dict(registry.rv_config_schema)
cfg.recursive_validate_config()
cfg_dict = cfg.dict()
cfg_json_uri = cfg.get_config_uri()
json_to_file(cfg_dict, cfg_json_uri)
pipeline = cfg.build(tmp_dir)
if not commands:
commands = pipeline.commands
runner.run(cfg_json_uri, pipeline, commands, num_splits=splits)
def setUp(self):
self.crs_transformer = IdentityCRSTransformer()
self.extent = Box.make_square(0, 0, 10)
self.tmp_dir_obj = rv_config.get_tmp_dir()
self.tmp_dir = self.tmp_dir_obj.name
self.class_id = 0
self.background_class_id = 1
self.line_buffer = 1
self.class_config = ClassConfig(names=['a'])
self.uri = join(self.tmp_dir, 'tmp.json')
def setUp(self):
self.crs_transformer = DoubleCRSTransformer()
self.geojson = {
'type':
'FeatureCollection',
'features': [{
'type': 'Feature',
'geometry': {
'type':
'MultiPolygon',
'coordinates': [[[[0., 0.], [0., 2.], [2., 2.], [2., 0.],
[0., 0.]]]]
},
'properties': {
'class_name': 'car',
'class_id': 0,
'score': 0.0
}
}, {
'type': 'Feature',
'geometry': {
'type':
'Polygon',
'coordinates': [[[2., 2.], [2., 4.], [4., 4.], [4., 2.],
[2., 2.]]]
},
'properties': {
'score': 0.0,
'class_name': 'house',
'class_id': 1
}
}]
}
self.class_config = ClassConfig(names=['car', 'house'])
self.box1 = Box.make_square(0, 0, 4)
self.box2 = Box.make_square(4, 4, 4)
self.class_id1 = 0
self.class_id2 = 1
self.background_class_id = 2
geoms = []
for f in self.geojson['features']:
g = shape(f['geometry'])
g.class_id = f['properties']['class_id']
geoms.append(g)
self.str_tree = STRtree(geoms)
self.file_name = 'labels.json'
self.tmp_dir = rv_config.get_tmp_dir()
self.uri = os.path.join(self.tmp_dir.name, self.file_name)
json_to_file(self.geojson, self.uri)
def setUp(self):
self.lorem = LOREM
# Mock S3 bucket
self.mock_s3 = mock_s3()
self.mock_s3.start()
self.s3 = boto3.client('s3')
self.bucket_name = 'mock_bucket'
self.s3.create_bucket(Bucket=self.bucket_name)
# temporary directory
self.tmp_dir = rv_config.get_tmp_dir()
def setUp(self):
# Setup mock S3 bucket.
self.mock_s3 = mock_s3()
self.mock_s3.start()
self.s3 = boto3.client('s3')
self.bucket_name = 'mock_bucket'
self.s3.create_bucket(Bucket=self.bucket_name)
self.content_str = 'hello'
self.file_name = 'hello.txt'
self.tmp_dir = rv_config.get_tmp_dir()
self.cache_dir = os.path.join(self.tmp_dir.name, 'cache')
def predict(model_bundle, image_uri, output_uri, update_stats, channel_order):
"""Make predictions on the images at IMAGE_URI
using MODEL_BUNDLE and store the prediction output at OUTPUT_URI.
"""
if channel_order is not None:
channel_order = [
int(channel_ind) for channel_ind in channel_order.split(' ')
]
with rv_config.get_tmp_dir() as tmp_dir:
predictor = Predictor(model_bundle, tmp_dir, update_stats,
channel_order)
predictor.predict([image_uri], output_uri)
def setUp(self):
# Setup mock S3 bucket.
self.mock_s3 = mock_s3()
self.mock_s3.start()
self.s3 = boto3.client('s3')
self.bucket_name = 'mock_bucket'
self.s3.create_bucket(Bucket=self.bucket_name)
self.content_str = 'hello'
self.file_name = 'hello.txt'
self.s3_path = 's3://{}/{}'.format(self.bucket_name, self.file_name)
self.tmp_dir = rv_config.get_tmp_dir()
self.local_path = os.path.join(self.tmp_dir.name, self.file_name)
def test_stats_transformer(self):
raster_stats = RasterStats()
raster_stats.means = list(np.ones((4, )))
raster_stats.stds = list(np.ones((4, )) * 2)
with rv_config.get_tmp_dir() as tmp_dir:
stats_uri = os.path.join(tmp_dir, 'stats.json')
raster_stats.save(stats_uri)
# All values have z-score of 1, which translates to
# uint8 value of 170.
transformer = StatsTransformerConfig(stats_uri=stats_uri).build()
chip = np.ones((2, 2, 4)) * 3
out_chip = transformer.transform(chip)
expected_out_chip = np.ones((2, 2, 4)) * 170
np.testing.assert_equal(out_chip, expected_out_chip)
def _run_command(cfg_json_uri: str,
command: str,
split_ind: Optional[int] = None,
num_splits: Optional[int] = None,
runner: Optional[str] = None):
"""Run a single command using a serialized PipelineConfig.
Args:
cfg_json_uri: URI of a JSON file with a serialized PipelineConfig
command: name of command to run
split_ind: the index that a split command should assume
num_splits: the total number of splits to use
runner: the name of the runner to use
"""
pipeline_cfg_dict = file_to_json(cfg_json_uri)
rv_config_dict = pipeline_cfg_dict.get('rv_config')
rv_config.set_everett_config(profile=rv_config.profile,
config_overrides=rv_config_dict)
tmp_dir_obj = rv_config.get_tmp_dir()
tmp_dir = tmp_dir_obj.name
cfg = build_config(pipeline_cfg_dict)
pipeline = cfg.build(tmp_dir)
if num_splits is not None and split_ind is None and runner is not None:
runner = registry.get_runner(runner)()
split_ind = runner.get_split_ind()
command_fn = getattr(pipeline, command)
if num_splits is not None and num_splits > 1:
msg = 'Running {} command split {}/{}...'.format(
command, split_ind + 1, num_splits)
click.echo(click.style(msg, fg='green'))
command_fn(split_ind=split_ind, num_splits=num_splits)
else:
msg = 'Running {} command...'.format(command)
click.echo(click.style(msg, fg='green'))
command_fn()
def setUp(self):
self.file_name = 'labels.json'
self.tmp_dir = rv_config.get_tmp_dir()
self.file_path = os.path.join(self.tmp_dir.name, self.file_name)
self.crs_transformer = DoubleCRSTransformer()
self.geojson = {
'type':
'FeatureCollection',
'features': [{
'type': 'Feature',
'geometry': {
'type':
'Polygon',
'coordinates': [[[0., 0.], [0., 1.], [1., 1.], [1., 0.],
[0., 0.]]]
},
'properties': {
'class_id': 0,
'score': 0.9
}
}, {
'type': 'Feature',
'geometry': {
'type':
'Polygon',
'coordinates': [[[1., 1.], [1., 2.], [2., 2.], [2., 1.],
[1., 1.]]]
},
'properties': {
'score': 0.9,
'class_id': 1
}
}]
}
self.extent = Box.make_square(0, 0, 10)
self.class_config = ClassConfig(names=['car', 'house'])
json_to_file(self.geojson, self.file_path)
def run(runner: str, cfg_module: str, commands: List[str],
arg: List[Tuple[str, str]], splits: int):
"""Run COMMANDS within pipelines in CFG_MODULE using RUNNER.
RUNNER: name of the Runner to use
CFG_MODULE: the module with `get_configs` function that returns PipelineConfigs.
This can either be a Python module path or a local path to a .py file.
COMMANDS: space separated sequence of commands to run within pipeline. The order in
which to run them is based on the Pipeline.commands attribute. If this is omitted,
all commands will be run.
"""
tmp_dir_obj = rv_config.get_tmp_dir()
tmp_dir = tmp_dir_obj.name
args = dict(arg)
args = convert_bool_args(args)
cfgs = get_configs(cfg_module, runner, args)
runner = registry.get_runner(runner)()
for cfg in cfgs:
_run_pipeline(cfg, runner, tmp_dir, splits, commands)
def setUp(self):
self.tmp_dir = rv_config.get_tmp_dir()
self.uri = os.path.join(self.tmp_dir.name, 'vectors.json')
def setUp(self):
self.tmp_dir_obj = rv_config.get_tmp_dir()
self.tmp_dir = self.tmp_dir_obj.name
def setUp(self):
self.lorem = LOREM
self.tmp_dir = rv_config.get_tmp_dir()
def setUp(self):
self.tmp_dir = rv_config.get_tmp_dir()
self.class_config = ClassConfig(names=['one', 'two'])
self.class_config.update()
self.class_config.ensure_null_class()
def setUp(self):
self.tmp_dir = rv_config.get_tmp_dir()
