Your message dated Tue, 07 Feb 2023 07:50:11 +0000
with message-id <[email protected]>
and subject line Bug#1028548: fixed in hyperspy 1.7.3-1
has caused the Debian Bug report #1028548,
regarding New upstream version needed
to be marked as done.
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--
1028548: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1028548
Debian Bug Tracking System
Contact [email protected] with problems
--- Begin Message ---
Package: hyperspy
Version: 1.6.1-1
Severity: normal
Hello,
a new upstream version of hyperspy is needed to fix #997475 and to build
with the python/numpy/* toolchain currently in sid.
I started packaging it at https://salsa.debian.org/science-team/hyperspy/
and it's currently blocked by:
* python3-statsmodels and python3-dask not being coinstallable
(relevant issues: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1025393
and https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1027254 )
* seemingly numba-related errors in the test suite of this kind:
```
____________________________________________________________________
TestInteractive.test_lazy_interactive_snap[default]
_____________________________________________________________________
[gw1] linux -- Python 3.11.1 /usr/bin/python3.11
self = <hyperspy.tests.utils.test_roi.TestInteractive object at
0x7fb2319d5190>, snap = True
@pytest.mark.parametrize('snap', [True, False, 'default'])
def test_interactive_snap(self, snap):
kwargs = {}
if snap != 'default':
kwargs['snap'] = snap
else:
# default is True
snap = True
s = self.s
r = RectangularROI(left=3, right=7, top=2, bottom=5)
> s.plot()
hyperspy/tests/utils/test_roi.py:705:
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _
hyperspy/_signals/lazy.py:1234: in plot
super().plot(navigator=navigator, **kwargs)
hyperspy/_signals/signal1d.py:1658: in plot
super().plot(navigator=navigator,
hyperspy/signal.py:2898: in plot
self._plot.plot(**kwargs)
hyperspy/drawing/mpl_he.py:188: in plot
self.pointer.connect_navigate()
hyperspy/drawing/widget.py:225: in connect_navigate
self._on_navigate(self.axes_manager) # Update our position
hyperspy/drawing/widget.py:462: in _on_navigate
self.position = p # Use property to trigger events
hyperspy/drawing/widget.py:425: in <lambda>
lambda s, v: s._set_position(v))
hyperspy/drawing/widget.py:419: in _set_position
position = self._validate_pos(position)
hyperspy/drawing/widget.py:404: in _validate_pos
pos = self._do_snap_position(pos)
hyperspy/drawing/widget.py:434: in _do_snap_position
value[i] = ax.index2value(ax.value2index(value[i]))
hyperspy/axes.py:1214: in value2index
round_half_towards_zero(index, decimals=0),
/usr/lib/python3/dist-packages/numba/core/dispatcher.py:468: in
_compile_for_args
error_rewrite(e, 'typing')
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _
e = TypingError('Failed in nopython mode pipeline (step: nopython
frontend)\n\x1b[1m\x1b[1m\x1b[1mNo implementation of fun... pragma: no cover\n
<source elided>\n\n\x1b[1m return np.where(array >= 0,\n\x1b[0m
\x1b[1m^\x1b[0m\x1b[0m\n')
issue_type = 'typing'
def error_rewrite(e, issue_type):
"""
Rewrite and raise Exception `e` with help supplied based on the
specified issue_type.
"""
if config.SHOW_HELP:
help_msg = errors.error_extras[issue_type]
e.patch_message('\n'.join((str(e).rstrip(), help_msg)))
if config.FULL_TRACEBACKS:
raise e
else:
> raise e.with_traceback(None)
E numba.core.errors.TypingError: Failed in nopython mode pipeline
(step: nopython frontend)
E No implementation of function Function(<function where at
0x7fb280c18cc0>) found for signature:
E
E >>> where(bool, float64, float64)
E
E There are 4 candidate implementations:
E - Of which 4 did not match due to:
E Overload in function
'_OverloadWrapper._build.<locals>.ol_generated': File:
numba/core/overload_glue.py: Line 129.
E With argument(s): '(bool, float64, float64)':
E Rejected as the implementation raised a specific error:
E TypeError: code() argument 13 must be str, not int
E raised from
/usr/lib/python3/dist-packages/numba/core/overload_glue.py:64
E
E During: resolving callee type: Function(<function where at
0x7fb280c18cc0>)
E During: typing of call at
/media/hyperspy/.pybuild/cpython3_3.11_hyperspy/build/hyperspy/misc/array_tools.py
(557)
E
E
E File "hyperspy/misc/array_tools.py", line 557:
E def round_half_towards_zero(array, decimals=0): # pragma: no cover
E <source elided>
E
E return np.where(array >= 0,
E ^
/usr/lib/python3/dist-packages/numba/core/dispatcher.py:409: TypingError
```
I'm opening this issue to track progress on the situation.
Enrico
-- System Information:
Debian Release: bookworm/sid
APT prefers testing
APT policy: (500, 'testing')
Architecture: amd64 (x86_64)
Kernel: Linux 6.0.0-6-amd64 (SMP w/4 CPU threads; PREEMPT)
Locale: LANG=en_IE.UTF-8, LC_CTYPE=en_IE.UTF-8 (charmap=UTF-8),
LANGUAGE=en_IE:en
Shell: /bin/sh linked to /usr/bin/dash
Init: systemd (via /run/systemd/system)
LSM: AppArmor: enabled
--- End Message ---
--- Begin Message ---
Source: hyperspy
Source-Version: 1.7.3-1
Done: Enrico Zini <[email protected]>
We believe that the bug you reported is fixed in the latest version of
hyperspy, which is due to be installed in the Debian FTP archive.
A summary of the changes between this version and the previous one is
attached.
Thank you for reporting the bug, which will now be closed. If you
have further comments please address them to [email protected],
and the maintainer will reopen the bug report if appropriate.
Debian distribution maintenance software
pp.
Enrico Zini <[email protected]> (supplier of updated hyperspy package)
(This message was generated automatically at their request; if you
believe that there is a problem with it please contact the archive
administrators by mailing [email protected])
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 1.8
Date: Tue, 07 Feb 2023 08:20:22 +0100
Source: hyperspy
Architecture: source
Version: 1.7.3-1
Distribution: unstable
Urgency: medium
Maintainer: Debian PaN Maintainers
<[email protected]>
Changed-By: Enrico Zini <[email protected]>
Closes: 997475 1018373 1028548
Changes:
hyperspy (1.7.3-1) unstable; urgency=medium
.
* New upstream version 1.7.3. Closes: #1028548
* Updated standards-version, no changes required
* Added debian/patches/fix-typo-import-scipy-datasets.diff to import a still
unreleased fix from upstream
* Removed nose dependency, not needed since hyperspy v1.2. Closes: #1018373
* Disable tests that require downloading datasets from the internet. Closes:
#997475
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Files:
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--- End Message ---
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