def get_chip_region(fname):
"""Get the chip region of a data set
Parameters
----------
fname: str
Path to an experimental data file. The file format is
determined from the file extenssion (tdms or rtdc).
Returns
-------
chip_region: str
The chip region ("channel" or "reservoir")
"""
fname = pathlib.Path(fname).resolve()
ext = fname.suffix
if ext == ".rtdc":
with h5py.File(path_to_str(fname), mode="r") as h5:
chip_region = h5.attrs["setup:chip region"]
elif ext == ".tdms":
name = fname.name
path = fname.parent
mx = name.split("_")[0]
para = path / (mx + "_para.ini")
if para.exists():
camcfg = rt_config.load_from_file(path_to_str(para))
chip_region = camcfg["General"]["Region"].lower()
return chip_region
def get_chip_region(fname):
"""Get the chip region of a data set
Parameters
----------
fname: str
Path to an experimental data file. The file format is
determined from the file extenssion (tdms or rtdc).
Returns
-------
chip_region: str
The chip region ("channel" or "reservoir")
"""
fname = pathlib.Path(fname).resolve()
ext = fname.suffix
if ext == ".rtdc":
with h5py.File(str(fname), mode="r") as h5:
chip_region = h5.attrs["setup:chip region"]
elif ext == ".tdms":
name = fname.name
path = fname.parent
mx = name.split("_")[0]
para = path / (mx + "_para.ini")
if para.exists():
camcfg = rt_config.load_from_file(str(para))
chip_region = camcfg["General"]["Region"].lower()
return chip_region
def get_chip_region(path):
fname = pathlib.Path(path).resolve()
ext = fname.suffix
if ext == ".rtdc":
with h5py.File(fname, mode="r") as h5:
chip_region = h5.attrs["setup:chip region"]
elif ext == ".tdms":
name = fname.name
path = fname.parent
mx = name.split("_")[0]
para = path / (mx + "_para.ini")
if para.exists():
camcfg = rt_config.load_from_file(para)
chip_region = camcfg["general"]["region"].lower()
else:
config = get_rtdc_config(path)
chip_region = config["setup"]["chip region"]
return chip_region
def get_flow_rate(fname):
"""Get the flow rate of a data set
Parameters
----------
fname: str
Path to an experimental data file. The file format is
determined from the file extenssion (tdms or rtdc).
Returns
-------
flow_rate: float
The flow rate [µL/s] of the data set
"""
fname = pathlib.Path(fname).resolve()
ext = fname.suffix
if ext == ".rtdc":
with h5py.File(str(fname), mode="r") as h5:
flow_rate = h5.attrs["setup:flow rate"]
elif ext == ".tdms":
name = fname.name
path = fname.parent
mx = name.split("_")[0]
para = path / (mx + "_para.ini")
if para.exists():
camcfg = rt_config.load_from_file(str(para))
flow_rate = camcfg["general"]["flow rate [ul/s]"]
else:
# analyze the filename
warnings.warn(
"{}: trying to manually find flow rate.".format(fname))
flow_rate = float(fname.split("ul_s")[0].split("_")[-1])
else:
raise ValueError("`fname` must be an .rtdc or .tdms file!")
return flow_rate
def get_flow_rate(fname):
"""Get the flow rate of a data set
Parameters
----------
fname: str
Path to an experimental data file. The file format is
determined from the file extenssion (tdms or rtdc).
Returns
-------
flow_rate: float
The flow rate [µL/s] of the data set
"""
fname = pathlib.Path(fname).resolve()
ext = fname.suffix
if ext == ".rtdc":
with h5py.File(path_to_str(fname), mode="r") as h5:
flow_rate = h5.attrs["setup:flow rate"]
elif ext == ".tdms":
name = fname.name
path = fname.parent
mx = name.split("_")[0]
para = path / (mx + "_para.ini")
if para.exists():
camcfg = rt_config.load_from_file(path_to_str(para))
flow_rate = camcfg["general"]["flow rate [ul/s]"]
else:
# analyze the filename
warnings.warn("{}: trying to manually find flow rate.".
format(fname))
flow_rate = float(fname.split("ul_s")[0].split("_")[-1])
else:
raise ValueError("`fname` must be an .rtdc or .tdms file!")
return flow_rate
def GetDefaultConfiguration(key=None):
cfg = rt_config.load_from_file(cfg_file)
if key is not None:
return cfg[key]
else:
return cfg
def compare(x, y):
"""
Compare keys for sorting.
"""
if isinstance(x, (list, tuple)):
x = x[0]
if isinstance(y, (list, tuple)):
y = y[0]
if x in orderlist:
rx = orderlist.index(x)
else:
rx = len(orderlist) + 1
if y in orderlist:
ry = orderlist.index(y)
else:
ry = len(orderlist) + 1
if rx == ry:
if x<y:
ry += 1
else:
rx += 1
return rx-ry
return sorted(cfgkeys, cmp=compare)
cfg_dir = pkg_resources.resource_filename("shapeout", "cfg")
cfg_file = os.path.join(cfg_dir, "default.cfg")
cfg = rt_config.load_from_file(cfg_file)
cfg_ordered_list = GetConfigurationKeys(cfg_file)
def GetDefaultConfiguration(key=None):
cfg = rt_config.load_from_file(cfg_file)
if key is not None:
return cfg[key]
else:
return cfg
"""
Compare keys for sorting.
"""
if isinstance(x, (list, tuple)):
x = x[0]
if isinstance(y, (list, tuple)):
y = y[0]
if x in orderlist:
rx = orderlist.index(x)
else:
rx = len(orderlist) + 1
if y in orderlist:
ry = orderlist.index(y)
else:
ry = len(orderlist) + 1
if rx == ry:
if x < y:
ry += 1
else:
rx += 1
return rx - ry
return sorted(cfgkeys, cmp=compare)
cfg_dir = pkg_resources.resource_filename("shapeout", "cfg")
cfg_file = os.path.join(cfg_dir, "default.cfg")
cfg = rt_config.load_from_file(cfg_file)
cfg_ordered_list = GetConfigurationKeys(cfg_file)
def get_default_config():
cfg_dir = pkg_resources.resource_filename("shapeout", "cfg")
cfg_file = pathlib.Path(cfg_dir) / "default.cfg"
cfg = dclab_config.load_from_file(cfg_file)
return cfg
def get_default_config():
cfg_dir = pkg_resources.resource_filename("shapeout", "cfg")
cfg_file = pathlib.Path(cfg_dir) / "default.cfg"
cfg = dclab_config.load_from_file(cfg_file)
return cfg