Package: python3-seaborn
Version: 0.10.0-1
Severity: important
Tags: patch upstream
Dear Maintainers,
With certain datasets having a particular distribution, the
seaborn library crashes with a runtime error, issued first by
the python3-statsmodels library. statsmodels seems to expect
the caller to trap the error and adapt its logic, but seaborn
as available currently in Sid does not do so.
There is a patch upstream that fixes this issue, available at
the following location:
https://github.com/mwaskom/seaborn/commit/09fef026ad89a299e13db44fa5b92885fb5b2823
This patch is part of seaborn 0.10.1, so getting this fix
brought to Sid will just be a matter of upgrading to that
version or later, hopefuly.
This issue is preventing the autopkgtest base of NanoPlot, which
is currently being packaged by the Debian Med Team, to run
properly, hence the severity set to "important":
https://salsa.debian.org/med-team/nanoplot
The issue can be reproduced with building the nanoplot package,
building the package python3-nanoget-examples which stores the
test data, installing both on the system, and running the test.
Here is the relevant part of the test output for reference:
Traceback (most recent call last):
File
"/usr/lib/python3/dist-packages/statsmodels/nonparametric/kde.py", line 451, in
kdensityfft
bw = float(bw)
ValueError: could not convert string to float: 'scott'
During handling of the above exception, another exception occurred:
Traceback (most recent call last):
File "/usr/bin/NanoPlot", line 11, in <module>
load_entry_point('NanoPlot==1.29.0', 'console_scripts',
'NanoPlot')()
File "/usr/lib/python3/dist-packages/nanoplot/NanoPlot.py", line 96,
in main
plots = make_plots(datadf, settings)
File "/usr/lib/python3/dist-packages/nanoplot/NanoPlot.py", line 227,
in make_plots
nanoplotter.scatter(
File
"/usr/lib/python3/dist-packages/nanoplotter/nanoplotter_main.py", line 193, in
scatter
plot = sns.jointplot(
File "/usr/lib/python3/dist-packages/seaborn/axisgrid.py", line 2338,
in jointplot
grid.plot_marginals(kdeplot, **marginal_kws)
File "/usr/lib/python3/dist-packages/seaborn/axisgrid.py", line 1823,
in plot_marginals
func(self.x, **kwargs)
File "/usr/lib/python3/dist-packages/seaborn/distributions.py", line
703, in kdeplot
ax = _univariate_kdeplot(data, shade, vertical, kernel, bw,
File "/usr/lib/python3/dist-packages/seaborn/distributions.py", line
293, in _univariate_kdeplot
x, y = _statsmodels_univariate_kde(data, kernel, bw,
File "/usr/lib/python3/dist-packages/seaborn/distributions.py", line
367, in _statsmodels_univariate_kde
kde.fit(kernel, bw, fft, gridsize=gridsize, cut=cut, clip=clip)
File
"/usr/lib/python3/dist-packages/statsmodels/nonparametric/kde.py", line 138, in
fit
density, grid, bw = kdensityfft(endog, kernel=kernel, bw=bw,
File
"/usr/lib/python3/dist-packages/statsmodels/nonparametric/kde.py", line 453, in
kdensityfft
bw = bandwidths.select_bandwidth(X, bw, kern) # will cross-val fit
this pattern?
File
"/usr/lib/python3/dist-packages/statsmodels/nonparametric/bandwidths.py", line
174, in select_bandwidth
raise RuntimeError(err)
RuntimeError: Selected KDE bandwidth is 0. Cannot estimate density.
Manually patching the file seaborn/distributions.py with
upstream's approach to solving the problem allowed me to go
through the autopkgtest suite of NanoPlot.
Kind Regards,
Étienne.
-- System Information:
Debian Release: bullseye/sid
APT prefers unstable
APT policy: (500, 'unstable'), (1, 'experimental')
Architecture: amd64 (x86_64)
Foreign Architectures: i386, riscv64
Kernel: Linux 5.5.6 (SMP w/4 CPU cores; PREEMPT)
Locale: LANG=C.UTF-8, LC_CTYPE=C.UTF-8 (charmap=UTF-8), LANGUAGE=C.UTF-8
(charmap=UTF-8)
Shell: /bin/sh linked to /usr/bin/dash
Init: systemd (via /run/systemd/system)
LSM: AppArmor: enabled
Versions of packages python3-seaborn depends on:
ii python3 3.8.2-3
ii python3-matplotlib 3.2.1-1+b1
ii python3-numpy 1:1.18.3-1
ii python3-pandas 0.25.3+dfsg-9
ii python3-scipy 1.4.1-2
ii python3-tk 3.8.2-2
Versions of packages python3-seaborn recommends:
ii python3-bs4 4.9.0-2
ii python3-patsy 0.5.1-1
python3-seaborn suggests no packages.
Edited to add the package affecting the behavior of
python3-seaborn, while not being referenced in its metadata:
ii python3-statsmodels 0.11.1-2
-- no debconf information
