def test_script():
Script('name', 'print(2)')
try:
Script('0name', 'print(3)')
except Exception:
info_('name not valid')
def test_read_labspec():
ramandir = Path('ramandata')
scp.info_(ramandir)
A = scp.read_labspec('Activation.txt', directory=ramandir)
A.plot()
A = scp.read_labspec('532nm-191216-Si 200mu.txt', directory=ramandir)
A.plot()
A = scp.read_labspec('serie190214-1.txt', directory=ramandir)
A.plot(colorbar=True)
A.plot_map(colorbar=True)
A = scp.read_labspec('SMC1-Initial RT.txt', directory=ramandir)
A.plot()
B = scp.read(protocol='labspec', directory=ramandir)
# this pack all spectra of the subdir directory
B = scp.read_dir(directory=ramandir / 'subdir')
B.plot()
scp.show()
def test_script():
Script("name", "print(2)")
try:
Script("0name", "print(3)")
except Exception:
info_("name not valid")
def test_NNMF():
w1 = scp.NDDataset([[1, 2, 3], [4, 5, 6]])
h1 = scp.NDDataset([[1, 2], [3, 4], [5, 6]])
w2 = scp.NDDataset([[1, 1, 1], [4, 4, 4]])
h2 = scp.NDDataset([[1, 1], [3, 3], [5, 5]])
v = scp.dot(w1, h1)
nnmf = scp.NNMF(v,
w2,
h2,
tol=0.0001,
maxtime=60,
maxiter=100,
verbose=True)
scp.info_("------")
scp.info_(nnmf.C)
scp.info_("------")
scp.info_(nnmf.St)
assert_array_almost_equal(nnmf.C.data,
np.array([[1.4, 2.1, 2.9], [4.4, 5.2, 6.0]]),
decimal=1)
assert_array_almost_equal(nnmf.St.data,
[[0.8, 1.9], [2.9, 3.9], [5.1, 5.9]],
decimal=1)
def test_read_carroucell(monkeypatch):
# Before testing we need to download the data locally if not yet done:
# because read carrousel is not designed to download itself.
# Use the read_remote for that:
NDDataset.read_remote("irdata/carroucell_samp", replace_existing=False)
nd = NDDataset.read_carroucell("irdata/carroucell_samp", spectra=(1, 2))
for x in nd:
info_(" " + x.name + ": " + str(x.shape))
assert len(nd) == 11
assert nd[3].shape == (2, 11098)
nd = NDDataset.read_carroucell("irdata/carroucell_samp", spectra=(1, 1))
assert isinstance(nd, NDDataset)
monkeypatch.setattr(spectrochempy.core, "open_dialog", dialog_carroucell)
monkeypatch.setenv("KEEP_DIALOGS", "True")
nd = NDDataset.read_carroucell(spectra=(1, 3))
assert nd[3].shape == (3, 11098)
nd = NDDataset.read_carroucell(spectra=(2, 3), discardbg=False)
assert nd[3].shape == (2, 11098)
def test_logger(caplog):
logger = logging.getLogger("SpectroChemPy")
logger.propagate = True
caplog.set_level(DEBUG)
# We can set the level using strings
set_loglevel("DEBUG")
assert logger.handlers[0].level == INFO # DEBUG only on the file
assert logger.handlers[1].level == DEBUG
set_loglevel(WARNING)
assert logger.handlers[0].level == WARNING
assert logger.handlers[1].level == WARNING
error_("\n" + "*" * 80 + "\n")
debug_("debug in WARNING level - should not appear")
info_("info in WARNING level - should not appear")
warning_("OK this is a Warning")
error_("OK This is an Error")
error_("\n" + "*" * 80 + "\n")
set_loglevel(INFO)
assert logger.handlers[0].level == INFO
assert logger.handlers[1].level == INFO
debug_("debug in INFO level - should not appear on stdout")
info_("OK - info in INFO level")
warning_("OK this is a Warning")
error_("OK This is an Error")
error_("\n" + "*" * 80 + "\n")
set_loglevel("DEBUG")
assert logger.handlers[0].level == INFO
assert logger.handlers[1].level == DEBUG
debug_("OK - debug in DEBUG level")
info_("OK - info in DEBUG level")
assert caplog.records[-1].levelname == "INFO"
assert caplog.records[-1].message.endswith("OK - info in DEBUG level")
warning_("OK this is a Warning")
assert caplog.records[-1].levelname == "WARNING"
assert caplog.records[-1].message.endswith("OK this is a Warning")
error_("OK This is an Error")
assert caplog.records[-1].levelname == "ERROR"
assert caplog.records[-1].message.endswith("OK This is an Error")
def test_logger(caplog):
logger = logging.getLogger('SpectroChemPy')
logger.propagate = True
caplog.set_level(logging.DEBUG)
# We can set the level using strings
set_loglevel("DEBUG")
assert logger.level == logging.DEBUG
set_loglevel(WARNING)
assert logger.level == logging.WARNING
error_('\n' + '*' * 80 + '\n')
debug_('debug in WARNING level - should not appear')
info_('info in WARNING level - should not appear')
warning_('OK this is a Warning')
error_('OK This is an Error')
error_('\n' + '*' * 80 + '\n')
set_loglevel(INFO)
assert logger.level == logging.INFO
debug_('debug in INFO level - should not appear')
info_('OK - info in INFO level')
warning_('OK this is a Warning')
error_('OK This is an Error')
error_('\n' + '*' * 80 + '\n')
set_loglevel('DEBUG')
assert logger.level == logging.DEBUG
debug_('OK - debug in DEBUG level')
info_('OK - info in DEBUG level')
assert caplog.records[-1].levelname == 'INFO'
assert caplog.records[-1].message == 'OK - info in DEBUG level'
warning_('OK this is a Warning')
assert caplog.records[-1].levelname == 'WARNING'
assert caplog.records[-1].message == 'OK this is a Warning'
error_('OK This is an Error')
assert caplog.records[-1].levelname == 'ERROR'
assert caplog.records[-1].message == 'OK This is an Error'
except Exception:
pass
# %% [markdown]
# ## API Configuration
#
# Many options of the API can be set up
# %%
scp.set_loglevel(scp.INFO)
# %% [markdown]
# In the above cell, we have set the **log** level to display ``info`` messages, such as this one:
# %%
scp.info_('this is an info message!')
scp.debug_('this is a debug message!')
# %% [markdown]
# Only the info message is displayed, as expected.
#
# If we change it to ``DEBUG``, we should get the two messages
# %%
scp.set_loglevel(scp.DEBUG)
scp.info_('this is an info message!')
scp.debug_('this is a debug message!')
# %% [markdown]
# Let's now come back to a standard level of message for the rest of the Tutorial.
# %% [markdown]
# And finally, the next instructions reset the loglevel to `WARNING` level (default), and print it.
# As seen below, no message `changed default log_level to ...` is delivered
# %%
scp.set_loglevel("WARNING") # reset to default
print(f"New loglevel: {scp.get_loglevel()}")
# %% [markdown]
# It is also possible to issue such messages in scripts. In the cell below, we set the loglevel to `INFO` and try to
# print two types of messages:
# %%
scp.set_loglevel("INFO")
scp.info_("this is an info message!")
scp.debug_("this is a debug message!")
# %% [markdown]
# As expected, only the info message was displayed.
#
# If we change the loglevel to ``DEBUG``, then the two messages will be printed:
# %%
scp.set_loglevel(scp.DEBUG)
scp.info_("this is an info message!")
scp.debug_("this is a debug message!")
# %% [markdown]
# Finally, we come back to the standard level of message for the rest of the Tutorial -- in this case neither `DEBUG`
# nor `INFO` messages will be printed.