s.remove_background() does not work with newest matplotlib #2195Description
I just tried a new install on Python 3.7 and matplotlib 3.1 in Anaconda on Windows, and got the following error when running through the EELS example notebook:
s.remove_background(fast=False)
C:\Users\jat\anaconda3\envs\hyperspy_tut\lib\site-packages\hyperspy\drawing\_widgets\range.py:285: MatplotlibDeprecationWarning:
The buttonDown attribute was deprecated in Matplotlib 3.1 and will be removed in 3.3.
self.buttonDown = False
---------------------------------------------------------------------------
AttributeError Traceback (most recent call last)
<ipython-input-5-bffcaf2cd58d> in <module>
----> 1 s.remove_background(fast=False)
~\anaconda3\envs\hyperspy_tut\lib\site-packages\hyperspy\_signals\signal1d.py in remove_background(self, signal_range, background_type, polynomial_order, fast, zero_fill, plot_remainder, show_progressbar, display, toolkit)
1075 plot_remainder=plot_remainder,
1076 show_progressbar=show_progressbar,
-> 1077 zero_fill=zero_fill)
1078 return br.gui(display=display, toolkit=toolkit)
1079 else:
~\anaconda3\envs\hyperspy_tut\lib\site-packages\hyperspy\signal_tools.py in __init__(self, signal, background_type, polynomial_order, fast, plot_remainder, zero_fill, show_progressbar)
672 fast=True, plot_remainder=True, zero_fill=False,
673 show_progressbar=None):
--> 674 super(BackgroundRemoval, self).__init__(signal)
675 # setting the polynomial order will change the backgroud_type to
676 # polynomial, so we set it before setting the background type
~\anaconda3\envs\hyperspy_tut\lib\site-packages\hyperspy\signal_tools.py in __init__(self, signal)
52 self.span_selector = None
53 self.signal.plot()
---> 54 self.span_selector_switch(on=True)
55
56 def on_disabling_span_selector(self):
~\anaconda3\envs\hyperspy_tut\lib\site-packages\hyperspy\signal_tools.py in span_selector_switch(self, on)
66 self.signal._plot.signal_plot.ax,
67 onselect=self.update_span_selector_traits,
---> 68 onmove_callback=self.update_span_selector_traits,)
69
70 elif self.span_selector is not None:
~\anaconda3\envs\hyperspy_tut\lib\site-packages\hyperspy\drawing\_widgets\range.py in __init__(self, ax, **kwargs)
283 self.step_ax = None
284 self.bounds_check = False
--> 285 self.buttonDown = False
286 self.snap_size = False
287 self.snap_position = False
~\anaconda3\envs\hyperspy_tut\lib\site-packages\matplotlib\cbook\deprecation.py in __set__(self, instance, value)
216 from . import _warn_external
217 _warn_external(warning)
--> 218 return super().__set__(instance, value)
219
220 def __delete__(self, instance):
AttributeError: can't set attributeI'm not sure why it is raising an error, since it says that it is supposed to be a warning until v3.3, but this makes EELS background removal currently broken with a new installation.
Installing v3.0.3 from conda-forge via conda install matplotlib=3.0 -c conda-forge appears to be a workaround.
Package list:
(hyperspy_tut) λ conda list
WARNING: The conda.compat module is deprecated and will be removed in a future release.
# packages in environment at C:\Users\jat\anaconda3\envs\hyperspy_tut:
#
# Name Version Build Channel
asn1crypto 0.24.0 py37_1003 conda-forge
attrs 19.1.0 py_0 conda-forge
autopep8 1.4.4 py_0 conda-forge
backcall 0.1.0 py_0 conda-forge
blas 1.0 mkl
bleach 3.1.0 py_0 conda-forge
bokeh 1.2.0 py37_0 conda-forge
ca-certificates 2019.3.9 hecc5488_0 conda-forge
certifi 2019.3.9 py37_0 conda-forge
cffi 1.12.3 py37hb32ad35_0 conda-forge
chardet 3.0.4 py37_1003 conda-forge
click 7.0 py_0 conda-forge
cloudpickle 1.0.0 py_0 conda-forge
colorama 0.4.1 py_0 conda-forge
cryptography 2.6.1 py37hb32ad35_0 conda-forge
cycler 0.10.0 py_1 conda-forge
cytoolz 0.9.0.1 py37hfa6e2cd_1001 conda-forge
dask 1.2.2 py_2 conda-forge
dask-core 1.2.2 py_0 conda-forge
decorator 4.4.0 py_0 conda-forge
defusedxml 0.5.0 py_1 conda-forge
dill 0.2.9 py37_0 conda-forge
distributed 1.28.1 py37_0 conda-forge
docutils 0.14 py37_1001 conda-forge
entrypoints 0.3 py37_1000 conda-forge
fastcache 1.1.0 py37hfa6e2cd_0 conda-forge
ffmpeg 4.1.3 h6538335_0 conda-forge
freetype 2.10.0 h5db478b_0 conda-forge
future 0.17.1 py37_1000 conda-forge
h5py 2.9.0 nompi_py37h3cb27cb_1102 conda-forge
hdf5 1.10.4 nompi_hcc15c50_1106 conda-forge
heapdict 1.0.0 py37_1000 conda-forge
hyperspy 1.4.1 py37_1002 conda-forge
hyperspy-base 1.4.1 py37hfa6e2cd_1002 conda-forge
hyperspy-gui-ipywidgets 1.1.1 py_1 conda-forge
hyperspy-gui-traitsui 1.1.1 py37_1000 conda-forge
hyperspyui 1.1.0 py_0 conda-forge
icc_rt 2019.0.0 h0cc432a_1
icu 58.1 vc14_0 conda-forge
idna 2.8 py37_1000 conda-forge
imageio 2.5.0 py37_0 conda-forge
intel-openmp 2019.3 203
ipykernel 5.1.1 py37h39e3cac_0 conda-forge
ipyparallel 6.2.4 py37_0 conda-forge
ipython 7.5.0 py37h39e3cac_0 conda-forge
ipython_genutils 0.2.0 py_1 conda-forge
ipywidgets 7.4.2 py_0 conda-forge
jedi 0.13.3 py37_0 conda-forge
jinja2 2.10.1 py_0 conda-forge
joblib 0.13.2 py_0 conda-forge
jpeg 9c hfa6e2cd_1001 conda-forge
jsonschema 3.0.1 py37_0 conda-forge
jupyter 1.0.0 py_2 conda-forge
jupyter_client 5.2.4 py_3 conda-forge
jupyter_console 6.0.0 py_0 conda-forge
jupyter_core 4.4.0 py_0 conda-forge
jupyterlab 0.35.6 py37_0 conda-forge
jupyterlab_server 0.2.0 py_0 conda-forge
kiwisolver 1.1.0 py37he980bc4_0 conda-forge
libblas 3.8.0 10_mkl conda-forge
libcblas 3.8.0 10_mkl conda-forge
liblapack 3.8.0 10_mkl conda-forge
libpng 1.6.37 h7602738_0 conda-forge
libsodium 1.0.16 h2fa13f4_1001 conda-forge
libtiff 4.0.10 h6512ee2_1003 conda-forge
link-traits 1.0.2 py37_1002 conda-forge
llvmlite 0.28.0 py37_0 conda-forge
locket 0.2.0 py_2 conda-forge
lz4-c 1.8.3 he025d50_1001 conda-forge
m2w64-gcc-libgfortran 5.3.0 6
m2w64-gcc-libs 5.3.0 7
m2w64-gcc-libs-core 5.3.0 7
m2w64-gmp 6.1.0 2
m2w64-libwinpthread-git 5.0.0.4634.697f757 2
markupsafe 1.1.1 py37hfa6e2cd_0 conda-forge
matplotlib 3.1.0 py37_1 conda-forge
matplotlib-base 3.1.0 py37h2852a4a_1 conda-forge
mistune 0.8.4 py37hfa6e2cd_1000 conda-forge
mkl 2019.3 203
mpmath 1.1.0 py_0 conda-forge
msgpack-python 0.6.1 py37he980bc4_0 conda-forge
msys2-conda-epoch 20160418 1
natsort 6.0.0 py_0 conda-forge
nbconvert 5.5.0 py_0 conda-forge
nbformat 4.4.0 py_1 conda-forge
networkx 2.3 py_0 conda-forge
nodejs 11.14.0 1 conda-forge
notebook 5.7.8 py37_1 conda-forge
numba 0.43.1 py37hf9181ef_0
numexpr 2.6.9 py37h6538335_1000 conda-forge
numpy 1.16.3 py37h873a0b8_0 conda-forge
olefile 0.46 py_0 conda-forge
openssl 1.1.1b hfa6e2cd_2 conda-forge
packaging 19.0 py_0 conda-forge
pandas 0.24.2 py37he350917_0 conda-forge
pandoc 2.7.2 0 conda-forge
pandocfilters 1.4.2 py_1 conda-forge
parso 0.4.0 py_0 conda-forge
partd 0.3.9 py_0 conda-forge
patsy 0.5.1 py_0 conda-forge
pep8 1.7.1 py_0 conda-forge
pickleshare 0.7.5 py37_1000 conda-forge
pillow 6.0.0 py37h9a613e6_0 conda-forge
pint 0.9 py37_2 conda-forge
pip 19.1.1 py37_0 conda-forge
prometheus_client 0.6.0 py_0 conda-forge
prompt_toolkit 2.0.9 py_0 conda-forge
psutil 5.6.2 py37hfa6e2cd_0 conda-forge
pycodestyle 2.5.0 py_0 conda-forge
pycparser 2.19 py37_1 conda-forge
pyface 6.1.0 py_1 conda-forge
pyflakes 2.1.1 py_0 conda-forge
pygments 2.4.2 py_0 conda-forge
pyopenssl 19.0.0 py37_0 conda-forge
pyparsing 2.4.0 py_0 conda-forge
pyqode.core 2.12.0 pyh8a2030e_0 conda-forge
pyqode.python 2.12.0 pyh8a2030e_0 conda-forge
pyqode.qt 2.10.0 pyh8a2030e_0 conda-forge
pyqt 5.9.2 py37h6538335_0 conda-forge
pyreadline 2.1 py37_1000 conda-forge
pyrsistent 0.15.2 py37hfa6e2cd_0 conda-forge
pysocks 1.7.0 py37_0 conda-forge
python 3.7.3 hb12ca83_0 conda-forge
python-dateutil 2.8.0 py_0 conda-forge
pytz 2019.1 py_0 conda-forge
pywavelets 1.0.3 py37h452e1ab_1 conda-forge
pywinpty 0.5.5 py37_1000 conda-forge
pyyaml 5.1 py37hfa6e2cd_0 conda-forge
pyzmq 18.0.1 py37he7828b0_1 conda-forge
qt 5.9.7 hc6833c9_1 conda-forge
qtconsole 4.5.1 py_0 conda-forge
qtpy 1.7.1 pyhde82777_0 conda-forge
requests 2.22.0 py37_0 conda-forge
scikit-image 0.15.0 py37h6538335_0 conda-forge
scikit-learn 0.21.2 py37h0ff8352_0 conda-forge
scipy 1.2.1 py37h29ff71c_0
send2trash 1.5.0 py_0 conda-forge
setuptools 41.0.1 py37_0 conda-forge
sip 4.19.8 py37h6538335_1000 conda-forge
six 1.12.0 py37_1000 conda-forge
sortedcontainers 2.1.0 py_0 conda-forge
sparse 0.7.0 py_0 conda-forge
sqlite 3.28.0 hfa6e2cd_0 conda-forge
statsmodels 0.9.0 py37hfa6e2cd_1000 conda-forge
sympy 1.4 py37_0 conda-forge
tblib 1.4.0 py_0 conda-forge
terminado 0.8.2 py37_0 conda-forge
testpath 0.4.2 py_1001 conda-forge
tk 8.6.9 hfa6e2cd_1001 conda-forge
toolz 0.9.0 py_1 conda-forge
tornado 6.0.2 py37hfa6e2cd_0 conda-forge
tqdm 4.32.1 py_0 conda-forge
traitlets 4.3.2 py37_1000 conda-forge
traits 5.1.1 py37hfa6e2cd_0 conda-forge
traitsui 6.1.0 py_0 conda-forge
urllib3 1.24.3 py37_0 conda-forge
vc 14.1 h0510ff6_4
vs2015_runtime 14.15.26706 h3a45250_4
wcwidth 0.1.7 py_1 conda-forge
webencodings 0.5.1 py_1 conda-forge
wheel 0.33.4 py37_0 conda-forge
widgetsnbextension 3.4.2 py37_1000 conda-forge
win_inet_pton 1.1.0 py37_0 conda-forge
wincertstore 0.2 py37_1002 conda-forge
winpty 0.4.3 4 conda-forge
xz 5.2.4 h2fa13f4_1001 conda-forge
yaml 0.1.7 hfa6e2cd_1001 conda-forge
zeromq 4.3.1 he025d50_1000 conda-forge
zict 0.1.4 py_0 conda-forge
zlib 1.2.11 h2fa13f4_1004 conda-forge
zstd 1.4.0 hd8a0e53_0 conda-forge