def test_encdec(self):
for enc in pyon.encode, lambda x: pyon.encode(x, True):
with self.subTest(enc=enc):
self.assertEqual(pyon.decode(enc(_pyon_test_object)),
_pyon_test_object)
# NaNs don't compare equal, so test separately.
assert np.isnan(pyon.decode(enc(np.nan)))
def _action_set_dataset(remote, args):
persist = None
if args.persist:
persist = True
if args.no_persist:
persist = False
remote.set(args.name, pyon.decode(args.value), persist)
async def load_hdf5_task(self, filename=None):
if filename is None:
if self._area.dataset is None:
return
filename = self._area.dataset
try:
with h5py.File(filename, "r") as f:
expid = f["expid"][()]
expid = pyon.decode(expid)
arguments = expid["arguments"]
except:
logger.error("Could not retrieve expid from HDF5 file",
exc_info=True)
return
try:
self.log_level.setCurrentIndex(
log_levels.index(log_level_to_name(expid["log_level"])))
except:
logger.error("Could not set submission options from HDF5 expid",
exc_info=True)
return
await self._recompute_arguments(arguments)
async def _load_hdf5_task(self):
try:
filename = await get_open_file_name(
self.manager.main_window, "Load HDF5",
self.hdf5_load_directory,
"HDF5 files (*.h5 *.hdf5);;All files (*.*)")
except asyncio.CancelledError:
return
self.hdf5_load_directory = os.path.dirname(filename)
try:
with h5py.File(filename, "r") as f:
expid = f["expid"][()]
expid = pyon.decode(expid)
arguments = expid["arguments"]
except:
logger.error("Could not retrieve expid from HDF5 file",
exc_info=True)
return
try:
self.log_level.setCurrentIndex(
log_levels.index(log_level_to_name(expid["log_level"])))
if ("repo_rev" in expid and expid["repo_rev"] != "N/A"
and hasattr(self, "repo_rev")):
self.repo_rev.setText(expid["repo_rev"])
except:
logger.error("Could not set submission options from HDF5 expid",
exc_info=True)
return
await self._recompute_arguments_task(arguments)
async def _receive_cr(self):
try:
target = None
while True:
line = await self.reader.readline()
if not line:
return
mod = pyon.decode(line.decode())
if mod["action"] == "init":
target = self.target_builder(mod["struct"])
else:
process_mod(target, mod)
try:
for notify_cb in self.notify_cbs:
notify_cb(mod)
except:
logger.error("Exception in notifier callback",
exc_info=True)
break
except ConnectionError:
pass
finally:
if self.disconnect_cb is not None:
self.disconnect_cb()
def test_rpc_encode_function(self):
"""Test that `pc_rpc` can encode a function properly.
Used in `get_rpc_method_list` part of
:meth:`sipyco.pc_rpc.Server._process_action`
"""
def _annotated_function(arg1: str,
arg2: np.ndarray = np.array([
1,
])) -> np.ndarray:
"""Sample docstring."""
return arg1
argspec_documented, docstring = pc_rpc.Server._document_function(
_annotated_function)
self.assertEqual(docstring, "Sample docstring.")
# purposefully ignore how argspec["annotations"] is treated.
# allows option to change PYON later to encode annotations.
argspec_master = dict(
inspect.getfullargspec(_annotated_function)._asdict())
argspec_without_annotation = argspec_master.copy()
del argspec_without_annotation["annotations"]
# check if all items (excluding annotations) are same in both dictionaries
self.assertLessEqual(argspec_without_annotation.items(),
argspec_documented.items())
self.assertDictEqual(argspec_documented,
pyon.decode(pyon.encode(argspec_documented)))
def __recv(self):
buf = self.__socket.recv(4096).decode()
while "\n" not in buf:
more = self.__socket.recv(4096)
if not more:
break
buf += more.decode()
return pyon.decode(buf)
def accept(self):
key = self.name_widget.text()
value = self.value_widget.text()
persist = self.box_widget.isChecked()
asyncio.ensure_future(
exc_to_warning(
self.dataset_ctl.set(key, pyon.decode(value), persist)))
QtWidgets.QDialog.accept(self)
def test_encdec_array(self):
orig = {
k: (np.array(v), np.array([v]))
for k, v in _pyon_test_object.items() if np.isscalar(v)
}
for enc in pyon.encode, lambda x: pyon.encode(x, True):
result = pyon.decode(enc(orig))
for k in orig:
with self.subTest(enc=enc, k=k, v=orig[k]):
np.testing.assert_equal(result[k], orig[k])
def extract_param_schema(arguments: Dict[str, Any]) -> Dict[str, Any]:
"""Extract ndscan parameter data from the given ARTIQ arguments directory.
:param arguments: The arguments for an ARTIQ experiment, as e.g. obtained using
``oitg.results.load_hdf5_file(…)["expid"]["arguments"]``.
"""
try:
string = arguments[PARAMS_ARG_KEY]
except KeyError:
raise KeyError(f"ndscan argument ({PARAMS_ARG_KEY}) not found")
return pyon.decode(string)
def dtype(self):
txt = self.value_widget.text()
try:
result = pyon.decode(txt)
except:
pixmap = self.style().standardPixmap(
QtWidgets.QStyle.SP_MessageBoxWarning)
self.data_type.setPixmap(pixmap)
self.ok.setEnabled(False)
else:
self.data_type.setText(type(result).__name__)
self.ok.setEnabled(True)
async def _receive_cr(self):
try:
target = None
while True:
line = await self.reader.readline()
if not line:
return
obj = pyon.decode(line.decode())
for notify_cb in self.notify_cbs:
notify_cb(obj)
finally:
if self.disconnect_cb is not None:
self.disconnect_cb()
def data(self, idx, role):
if role == QtCore.Qt.ToolTipRole:
info = self.fileInfo(idx)
h5 = open_h5(info)
if h5 is not None:
try:
expid = pyon.decode(h5["expid"][()])
start_time = datetime.fromtimestamp(h5["start_time"][()])
v = ("artiq_version: {}\nrepo_rev: {}\nfile: {}\n"
"class_name: {}\nrid: {}\nstart_time: {}").format(
h5["artiq_version"][()], expid["repo_rev"],
expid.get("file", "<none>"), expid["class_name"],
h5["rid"][()], start_time)
return v
except:
logger.warning("unable to read metadata from %s",
info.filePath(), exc_info=True)
return QtWidgets.QFileSystemModel.data(self, idx, role)
def list_current_changed(self, current, previous):
info = self.model.fileInfo(current)
f = open_h5(info)
if not f:
return
logger.debug("loading datasets from %s", info.filePath())
with f:
try:
expid = pyon.decode(f["expid"][()])
start_time = datetime.fromtimestamp(f["start_time"][()])
v = {
"artiq_version": f["artiq_version"][()],
"repo_rev": expid["repo_rev"],
"file": expid.get("file", "<none>"),
"class_name": expid["class_name"],
"rid": f["rid"][()],
"start_time": start_time,
}
self.metadata_changed.emit(v)
except:
logger.warning("unable to read metadata from %s",
info.filePath(), exc_info=True)
rd = {}
if "archive" in f:
def visitor(k, v):
if isinstance(v, h5py.Dataset):
rd[k] = (True, v[()])
f["archive"].visititems(visitor)
if "datasets" in f:
def visitor(k, v):
if isinstance(v, h5py.Dataset):
if k in rd:
logger.warning("dataset '%s' is both in archive "
"and outputs", k)
rd[k] = (True, v[()])
f["datasets"].visititems(visitor)
self.datasets.init(rd)
self.dataset_changed.emit(info.filePath())
async def _handle_connection_cr(self, reader, writer):
try:
line = await reader.readline()
if line != _init_string:
return
obj = {
"targets": sorted(self.targets.keys()),
"description": self.description
}
line = pyon.encode(obj) + "\n"
writer.write(line.encode())
line = await reader.readline()
if not line:
return
target_name = line.decode()[:-1]
try:
target = self.targets[target_name]
except KeyError:
return
if callable(target):
target = target()
valid_methods = inspect.getmembers(target, inspect.ismethod)
valid_methods = {m[0] for m in valid_methods}
if self.builtin_terminate:
valid_methods.add("terminate")
writer.write((pyon.encode(valid_methods) + "\n").encode())
while True:
line = await reader.readline()
if not line:
break
reply = await self._process_action(target,
pyon.decode(line.decode()))
writer.write((pyon.encode(reply) + "\n").encode())
except (ConnectionResetError, ConnectionAbortedError, BrokenPipeError):
# May happens on Windows when client disconnects
pass
finally:
writer.close()
def _try_extract_ndscan_params(
arguments: Dict[str, Any]) -> Tuple[Optional[Dict[str, Any]], Dict[str, Any]]:
"""From a passed dictionary of upstream ARTIQ arguments, extracts the ndscan
arguments, if there are any.
:return: A tuple of the (decoded) ndscan parameter schema (``None`` if there
wasn't one), and the remaining dictionary with that argument (if any) removed.
"""
if not arguments:
return None, arguments
arg = arguments.get(PARAMS_ARG_KEY, None)
if not arg:
return None, arguments
if arg["desc"]["ty"] != "PYONValue":
return None, arguments
state = arg.get("state", None)
params = pyon.decode(state if state else arg["desc"]["default"])
vanilla_args = arguments.copy()
del vanilla_args[PARAMS_ARG_KEY]
return params, vanilla_args
async def _recv(self, timeout):
assert self.io_lock.locked()
fs = await asyncio_wait_or_cancel(
[self.ipc.readline(), self.closed.wait()],
timeout=timeout, return_when=asyncio.FIRST_COMPLETED)
if all(f.cancelled() for f in fs):
raise WorkerTimeout(
"Timeout receiving data from worker (RID {})".format(self.rid))
if self.closed.is_set():
raise WorkerError(
"Receiving data from worker cancelled (RID {})".format(
self.rid))
line = fs[0].result()
if not line:
raise WorkerError(
"Worker ended while attempting to receive data (RID {})".
format(self.rid))
try:
obj = pyon.decode(line.decode())
except:
raise WorkerError("Worker sent invalid PYON data (RID {})".format(
self.rid))
return obj
def list_current_changed(self, current, previous):
info = self.model.fileInfo(current)
f = open_h5(info)
if not f:
return
logger.debug("loading datasets from %s", info.filePath())
with f:
try:
expid = pyon.decode(f["expid"].value)
start_time = datetime.fromtimestamp(f["start_time"].value)
v = {
"artiq_version": f["artiq_version"].value,
"repo_rev": expid["repo_rev"],
"file": expid["file"],
"class_name": expid["class_name"],
"rid": f["rid"].value,
"start_time": start_time,
}
self.metadata_changed.emit(v)
except:
logger.warning("unable to read metadata from %s",
info.filePath(),
exc_info=True)
rd = dict()
if "archive" in f:
rd = {k: (True, v.value) for k, v in f["archive"].items()}
if "datasets" in f:
for k, v in f["datasets"].items():
if k in rd:
logger.warning(
"dataset '%s' is both in archive and "
"outputs", k)
rd[k] = (True, v.value)
if rd:
self.datasets.init(rd)
self.dataset_changed.emit(info.filePath())
async def read_pyon(self):
line = await self.readline()
return pyon.decode(line.decode())
def process(self, x):
return pyon.decode(x)
def main():
args = get_argparser().parse_args()
app = QtWidgets.QApplication(sys.argv)
loop = QEventLoop(app)
asyncio.set_event_loop(loop)
magic_spec = results.parse_magic(args.path)
if magic_spec is not None:
paths = results.find_results(day="auto", **magic_spec)
if len(paths) != 1:
QtWidgets.QMessageBox.critical(
None, "Unable to resolve experiment path",
f"Could not resolve '{args.path}: {paths}'")
sys.exit(1)
path = next(iter(paths.values())).path
else:
path = args.path
try:
file = h5py.File(path, "r")
except Exception as e:
QtWidgets.QMessageBox.critical(None, "Unable to load file", str(e))
sys.exit(1)
try:
datasets = file["datasets"]
except KeyError:
QtWidgets.QMessageBox.critical(
None, "Not an ARTIQ results file",
"No ARTIQ dataset records found in file: '{}'".format(args.path))
sys.exit(1)
prefix = fetch_explicit_prefix(args)
if prefix is not None:
try:
# 'axes' existed since the earliest schema revisions, so we can use it to
# detect whether the file/prefix the user specified vaguely looks like it
# has been generated by ndscan.
datasets[prefix + "axes"][()]
except KeyError:
QtWidgets.QMessageBox.critical(
None, "Not an ndscan file",
"Datasets '{}*' in file '{}' do not look like ndscan results.".
format(prefix, args.path))
sys.exit(1)
prefixes = [prefix]
else:
prefixes = find_ndscan_roots(datasets)
if not prefixes:
QtWidgets.QMessageBox.critical(
None, "Not an ndscan file",
"No ndscan result datasets found in file: '{}'".format(
args.path))
sys.exit(1)
try:
schema = extract_param_schema(
pyon.decode(file["expid"][()])["arguments"])
except Exception as e:
print("No ndscan parameter arguments found:", e)
schema = None
if schema is not None:
print("Scan settings")
print("=============")
print()
for s in dump_scan(schema):
print(s)
print()
print()
print("Overrides")
print("=========")
print()
for s in dump_overrides(schema):
print(s)
print()
try:
context = Context()
context.set_title(os.path.basename(args.path))
# Take source_id from first prefix. This is pretty arbitrary, but for
# experiment-generated files, they will all be the same anyway.
if (prefixes[0] + "source_id") in datasets:
source = datasets[prefixes[0] + "source_id"][()]
if isinstance(source, bytes):
# h5py 3+ – can use datasets[…].asstr() as soon as we don't support
# version 2 any longer.
source = source.decode("utf-8")
context.set_source_id(source)
else:
# Old ndscan versions had a rid dataset instead of source_id.
context.set_source_id("rid_{}".format(datasets[prefixes[0] +
"rid"][()]))
roots = [HDF5Root(datasets, p, context) for p in prefixes]
except Exception as e:
QtWidgets.QMessageBox.critical(
None, "Error parsing ndscan file",
"Error parsing datasets in '{}': {}".format(args.path, e))
sys.exit(2)
if len(roots) == 1:
widget = PlotContainerWidget(roots[0].get_model())
else:
label_map = shorten_to_unambiguous_suffixes(
prefixes, lambda fqn, n: ".".join(fqn.split(".")[-(n + 1):]))
widget = MultiRootWidget(
OrderedDict(
zip((strip_suffix(label_map[p], ".") for p in prefixes),
roots)), context)
widget.setWindowTitle(f"{context.get_title()} – ndscan.show")
widget.show()
widget.resize(800, 600)
sys.exit(app.exec_())
def parse_arguments(arguments):
d = {}
for argument in arguments:
name, eq, value = argument.partition("=")
d[name] = pyon.decode(value)
return d
def get_object():
line = ipc.readline().decode()
return pyon.decode(line)
def test_encdec_array_order(self):
"""Test encoding of non c-contiguous arrays (see #5)"""
array = np.reshape(np.arange(6), (2, 3), order='F')
np.testing.assert_array_equal(array, pyon.decode(pyon.encode(array)))
async def __recv(self):
line = await self.__reader.readline()
return pyon.decode(line.decode())
def _parse_list_pyon(values: str) -> List[float]:
return pyon.decode("[" + values + "]")
