Your message dated Sun, 30 Jun 2024 19:19:13 +0000
with message-id <e1so04v-000q0a...@fasolo.debian.org>
and subject line Bug#1067282: fixed in symfit 0.5.6-3
has caused the Debian Bug report #1067282,
regarding symfit: FTBFS: dh_auto_test: error: pybuild --test --test-pytest -i
python{version} -p "3.12 3.11" returned exit code 13
to be marked as done.This means that you claim that the problem has been dealt with. If this is not the case it is now your responsibility to reopen the Bug report if necessary, and/or fix the problem forthwith. (NB: If you are a system administrator and have no idea what this message is talking about, this may indicate a serious mail system misconfiguration somewhere. Please contact ow...@bugs.debian.org immediately.) -- 1067282: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1067282 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Source: symfit Version: 0.5.6-2 Severity: serious Justification: FTBFS Tags: trixie sid ftbfs User: lu...@debian.org Usertags: ftbfs-20240319 ftbfs-trixie Hi, During a rebuild of all packages in sid, your package failed to build on amd64. Relevant part (hopefully): > make[1]: Entering directory '/<<PKGBUILDDIR>>' > dh_auto_test > I: pybuild base:305: cd /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12/build; > python3.12 -m pytest tests > ============================= test session starts > ============================== > platform linux -- Python 3.12.2, pytest-8.1.1, pluggy-1.4.0 > rootdir: /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12/build > configfile: pytest.ini > collected 123 items > > tests/test_argument.py .... [ > 3%] > tests/test_auto_fit.py ...... [ > 8%] > tests/test_constrained.py .....s............ [ > 22%] > tests/test_distributions.py .. [ > 24%] > tests/test_finite_difference.py ........ [ > 30%] > tests/test_fit_result.py .......... [ > 39%] > tests/test_general.py .........s..............s...... [ > 64%] > tests/test_global_opt.py .... [ > 67%] > tests/test_minimize.py ...... [ > 72%] > tests/test_minimizers.py F...... [ > 78%] > tests/test_model.py ............ [ > 87%] > tests/test_objectives.py ..... [ > 91%] > tests/test_ode.py ........ [ > 98%] > tests/test_support.py .. > [100%] > > =================================== FAILURES > =================================== > ____________________________ test_custom_objective > _____________________________ > > recwarn = WarningsRecorder(record=True) > > def test_custom_objective(recwarn): > """ > Compare the result of a custom objective with the symbolic result. > :return: > """ > # Create test data > xdata = np.linspace(0, 100, 25) # From 0 to 100 in 100 steps > a_vec = np.random.normal(15.0, scale=2.0, size=xdata.shape) > b_vec = np.random.normal(100, scale=2.0, size=xdata.shape) > ydata = a_vec * xdata + b_vec # Point scattered around the line 5 * > x + 105 > > # Normal symbolic fit > a = Parameter('a', value=0, min=0.0, max=1000) > b = Parameter('b', value=0, min=0.0, max=1000) > x = Variable('x') > y = Variable('y') > model = {y: a * x + b} > > fit = Fit(model, xdata, ydata, minimizer=BFGS) > fit_result = fit.execute() > > def f(x, a, b): > return a * x + b > > def chi_squared(a, b): > return np.sum((ydata - f(xdata, a, b))**2) > > # Should no longer raise warnings, because internally we practice > # what we preach. > fit_custom = BFGS(chi_squared, [a, b]) > > assert len(recwarn) == 0 > E assert 1 == 0 > E + where 1 = len(WarningsRecorder(record=True)) > > tests/test_minimizers.py:120: AssertionError > =============================== warnings summary > =============================== > symfit/core/operators.py:48 > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12/build/symfit/core/operators.py:48: > SyntaxWarning: invalid escape sequence '\*' > """ > > symfit/core/support.py:296 > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12/build/symfit/core/support.py:296: > SyntaxWarning: invalid escape sequence '\*' > """ > > symfit/core/printing.py:13 > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12/build/symfit/core/printing.py:13: > DeprecationWarning: pkg_resources is deprecated as an API. See > https://setuptools.pypa.io/en/latest/pkg_resources.html > import pkg_resources > > ../../../../../../usr/lib/python3/dist-packages/pkg_resources/__init__.py:2871 > /usr/lib/python3/dist-packages/pkg_resources/__init__.py:2871: > DeprecationWarning: Deprecated call to > `pkg_resources.declare_namespace('mpl_toolkits')`. > Implementing implicit namespace packages (as specified in PEP 420) is > preferred to `pkg_resources.declare_namespace`. See > https://setuptools.pypa.io/en/latest/references/keywords.html#keyword-namespace-packages > declare_namespace(pkg) > > symfit/core/fit.py:32 > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12/build/symfit/core/fit.py:32: > SyntaxWarning: invalid escape sequence '\_' > """ > > symfit/core/minimizers.py:211 > > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12/build/symfit/core/minimizers.py:211: > SyntaxWarning: invalid escape sequence '\*' > ''' > > symfit/core/minimizers.py:327 > > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12/build/symfit/core/minimizers.py:327: > SyntaxWarning: invalid escape sequence '\*' > """ > > symfit/core/minimizers.py:793 > > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12/build/symfit/core/minimizers.py:793: > SyntaxWarning: invalid escape sequence '\*' > """ > > symfit/core/fit_results.py:29 > > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12/build/symfit/core/fit_results.py:29: > SyntaxWarning: invalid escape sequence '\*' > """ > > symfit/core/objectives.py:389 > > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12/build/symfit/core/objectives.py:389: > SyntaxWarning: invalid escape sequence '\c' > """ > > tests/test_auto_fit.py: 3 warnings > tests/test_constrained.py: 14 warnings > tests/test_finite_difference.py: 1 warning > tests/test_fit_result.py: 5 warnings > tests/test_general.py: 16 warnings > tests/test_minimizers.py: 2 warnings > tests/test_objectives.py: 1 warning > tests/test_ode.py: 1 warning > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12/build/symfit/core/fit.py:278: > DeprecationWarning: `product` is deprecated as of NumPy 1.25.0, and will be > removed in NumPy 2.0. Please use `prod` instead. > cov_matrix = self._covariance_matrix(best_fit_params, > > tests/test_auto_fit.py: 2 warnings > tests/test_constrained.py: 13 warnings > tests/test_finite_difference.py: 2 warnings > tests/test_fit_result.py: 1 warning > tests/test_general.py: 12 warnings > tests/test_global_opt.py: 3 warnings > tests/test_ode.py: 7 warnings > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12/build/symfit/core/fit.py:301: > DeprecationWarning: `product` is deprecated as of NumPy 1.25.0, and will be > removed in NumPy 2.0. Please use `prod` instead. > cov_matrix = self._covariance_matrix(best_fit_params, > > tests/test_general.py::test_likelihood_fitting_exponential > /usr/lib/python3/dist-packages/_pytest/python.py:195: DeprecationWarning: > `product` is deprecated as of NumPy 1.25.0, and will be removed in NumPy 2.0. > Please use `prod` instead. > result = testfunction(**testargs) > > -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html > =========================== short test summary info > ============================ > FAILED tests/test_minimizers.py::test_custom_objective - assert 1 == 0 > ====== 1 failed, 119 passed, 3 skipped, 94 warnings in 102.13s (0:01:42) > ======= > E: pybuild pybuild:389: test: plugin distutils failed with: exit code=1: cd > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.12/build; python3.12 -m pytest tests > I: pybuild base:305: cd /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build; > python3.11 -m pytest tests > ============================= test session starts > ============================== > platform linux -- Python 3.11.8, pytest-8.1.1, pluggy-1.4.0 > rootdir: /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build > configfile: pytest.ini > collected 123 items > > tests/test_argument.py .... [ > 3%] > tests/test_auto_fit.py ...... [ > 8%] > tests/test_constrained.py .....s............ [ > 22%] > tests/test_distributions.py .. [ > 24%] > tests/test_finite_difference.py ........ [ > 30%] > tests/test_fit_result.py .......... [ > 39%] > tests/test_general.py .........s..............s...... [ > 64%] > tests/test_global_opt.py .... [ > 67%] > tests/test_minimize.py ...... [ > 72%] > tests/test_minimizers.py F...... [ > 78%] > tests/test_model.py ............ [ > 87%] > tests/test_objectives.py ..... [ > 91%] > tests/test_ode.py ........ [ > 98%] > tests/test_support.py .. > [100%] > > =================================== FAILURES > =================================== > ____________________________ test_custom_objective > _____________________________ > > recwarn = WarningsRecorder(record=True) > > def test_custom_objective(recwarn): > """ > Compare the result of a custom objective with the symbolic result. > :return: > """ > # Create test data > xdata = np.linspace(0, 100, 25) # From 0 to 100 in 100 steps > a_vec = np.random.normal(15.0, scale=2.0, size=xdata.shape) > b_vec = np.random.normal(100, scale=2.0, size=xdata.shape) > ydata = a_vec * xdata + b_vec # Point scattered around the line 5 * > x + 105 > > # Normal symbolic fit > a = Parameter('a', value=0, min=0.0, max=1000) > b = Parameter('b', value=0, min=0.0, max=1000) > x = Variable('x') > y = Variable('y') > model = {y: a * x + b} > > fit = Fit(model, xdata, ydata, minimizer=BFGS) > fit_result = fit.execute() > > def f(x, a, b): > return a * x + b > > def chi_squared(a, b): > return np.sum((ydata - f(xdata, a, b))**2) > > # Should no longer raise warnings, because internally we practice > # what we preach. > fit_custom = BFGS(chi_squared, [a, b]) > > assert len(recwarn) == 0 > E assert 1 == 0 > E + where 1 = len(WarningsRecorder(record=True)) > > tests/test_minimizers.py:120: AssertionError > =============================== warnings summary > =============================== > symfit/core/operators.py:48 > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/symfit/core/operators.py:48: > DeprecationWarning: invalid escape sequence '\*' > """ > > symfit/core/support.py:296 > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/symfit/core/support.py:296: > DeprecationWarning: invalid escape sequence '\*' > """ > > symfit/core/printing.py:13 > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/symfit/core/printing.py:13: > DeprecationWarning: pkg_resources is deprecated as an API. See > https://setuptools.pypa.io/en/latest/pkg_resources.html > import pkg_resources > > ../../../../../../usr/lib/python3/dist-packages/pkg_resources/__init__.py:2871 > /usr/lib/python3/dist-packages/pkg_resources/__init__.py:2871: > DeprecationWarning: Deprecated call to > `pkg_resources.declare_namespace('mpl_toolkits')`. > Implementing implicit namespace packages (as specified in PEP 420) is > preferred to `pkg_resources.declare_namespace`. See > https://setuptools.pypa.io/en/latest/references/keywords.html#keyword-namespace-packages > declare_namespace(pkg) > > symfit/core/fit.py:32 > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/symfit/core/fit.py:32: > DeprecationWarning: invalid escape sequence '\_' > """ > > symfit/core/minimizers.py:211 > > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/symfit/core/minimizers.py:211: > DeprecationWarning: invalid escape sequence '\*' > ''' > > symfit/core/minimizers.py:327 > > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/symfit/core/minimizers.py:327: > DeprecationWarning: invalid escape sequence '\*' > """ > > symfit/core/minimizers.py:793 > > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/symfit/core/minimizers.py:793: > DeprecationWarning: invalid escape sequence '\*' > """ > > symfit/core/fit_results.py:29 > > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/symfit/core/fit_results.py:29: > DeprecationWarning: invalid escape sequence '\*' > """ > > symfit/core/objectives.py:389 > > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/symfit/core/objectives.py:389: > DeprecationWarning: invalid escape sequence '\c' > """ > > tests/test_auto_fit.py: 5 warnings > tests/test_constrained.py: 27 warnings > tests/test_finite_difference.py: 3 warnings > tests/test_fit_result.py: 6 warnings > tests/test_general.py: 28 warnings > tests/test_global_opt.py: 3 warnings > tests/test_minimizers.py: 2 warnings > tests/test_objectives.py: 1 warning > tests/test_ode.py: 8 warnings > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build/symfit/core/fit.py:256: > DeprecationWarning: `product` is deprecated as of NumPy 1.25.0, and will be > removed in NumPy 2.0. Please use `prod` instead. > raw_dof = np.sum([np.product(shape) for shape in self.data_shapes[1]]) > > tests/test_general.py::test_likelihood_fitting_exponential > /usr/lib/python3/dist-packages/_pytest/python.py:195: DeprecationWarning: > `product` is deprecated as of NumPy 1.25.0, and will be removed in NumPy 2.0. > Please use `prod` instead. > result = testfunction(**testargs) > > -- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html > =========================== short test summary info > ============================ > FAILED tests/test_minimizers.py::test_custom_objective - assert 1 == 0 > ====== 1 failed, 119 passed, 3 skipped, 94 warnings in 102.07s (0:01:42) > ======= > E: pybuild pybuild:389: test: plugin distutils failed with: exit code=1: cd > /<<PKGBUILDDIR>>/.pybuild/cpython3_3.11/build; python3.11 -m pytest tests > dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p "3.12 > 3.11" returned exit code 13 The full build log is available from: http://qa-logs.debian.net/2024/03/19/symfit_0.5.6-2_unstable.log All bugs filed during this archive rebuild are listed at: https://bugs.debian.org/cgi-bin/pkgreport.cgi?tag=ftbfs-20240319;users=lu...@debian.org or: https://udd.debian.org/bugs/?release=na&merged=ign&fnewerval=7&flastmodval=7&fusertag=only&fusertagtag=ftbfs-20240319&fusertaguser=lu...@debian.org&allbugs=1&cseverity=1&ctags=1&caffected=1#results A list of current common problems and possible solutions is available at http://wiki.debian.org/qa.debian.org/FTBFS . You're welcome to contribute! If you reassign this bug to another package, please mark it as 'affects'-ing this package. See https://www.debian.org/Bugs/server-control#affects If you fail to reproduce this, please provide a build log and diff it with mine so that we can identify if something relevant changed in the meantime.
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--- Begin Message ---Source: symfit Source-Version: 0.5.6-3 Done: Alexandre Detiste <tc...@debian.org> We believe that the bug you reported is fixed in the latest version of symfit, 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 1067...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Alexandre Detiste <tc...@debian.org> (supplier of updated symfit 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 ftpmas...@ftp-master.debian.org) -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 1.8 Date: Sun, 30 Jun 2024 19:53:58 +0200 Source: symfit Architecture: source Version: 0.5.6-3 Distribution: unstable Urgency: medium Maintainer: Debian Science Team <debian-science-maintain...@lists.alioth.debian.org> Changed-By: Alexandre Detiste <tc...@debian.org> Closes: 1064601 1067234 1067282 Changes: symfit (0.5.6-3) unstable; urgency=medium . * Team upload * Import Ubuntu 24.04 patch (Closes: #1067234, #1067282) . [ Stephan Lachnit ] * Remove python3-six dependency (Closes: #1064601) Checksums-Sha1: 8510f7226985cdc3d1fa7127276d29b0ed086b4e 2436 symfit_0.5.6-3.dsc 56ddc68cbfe8850dbda95ff0241fe8e42296c7c0 5772 symfit_0.5.6-3.debian.tar.xz 15a271916cb38da451f460813ed8c3378c4323d6 13923 symfit_0.5.6-3_source.buildinfo Checksums-Sha256: 551c94f39b01baa454c0603855a11c2d32769a9cd2434d6a6f52fcfead71878b 2436 symfit_0.5.6-3.dsc 7aa188c58dc27831a33ddf9fd6497f6e317e337c03b9e6069262bd5a5555c212 5772 symfit_0.5.6-3.debian.tar.xz 239bea4d9c756746cbf5fe402a08f42734c7e83a70f45537692c9ca370dd1c05 13923 symfit_0.5.6-3_source.buildinfo Files: 1253b64d4a040ad9060d35c1c99f4919 2436 python optional symfit_0.5.6-3.dsc 6c6fc4fc8b81dc7cfc81139bf4524bda 5772 python optional symfit_0.5.6-3.debian.tar.xz 2100c5f13dc6d1d6b4da2ee47322513b 13923 python optional symfit_0.5.6-3_source.buildinfo -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEEj23hBDd/OxHnQXSHMfMURUShdBoFAmaBqSIRHHRjaGV0QGRl Ymlhbi5vcmcACgkQMfMURUShdBrLuhAAo8bi7VgsveJkk9u4ImmP0aYk8gEPbgNN gaCCaISFqZEoEI1ym35R7JfX5ZrNykO9ZsxHsZuEU/QE/AVt0qSopW8HCsaFkoiT H3RpY9z9rIQszSuUAHZgiUVFi7Gp4x53vq9cZwevQIbbfs7hawbid3VYNQohwOkY 16bJBX2u1lAvElxrqk25CLfw3NU4BfbY8rL/OuHAr8crm6l0JwizZ5wVNlTN2Ou3 hqkrsXoN4cUARCjEAapQiH5LbkN7IK8TMl2Iy3PI3KZkPqHUgnr0FoxshXk7KiNs h9NGXr4rD+srEycOuTyfV48kKiJUP9hNowck0R7Kja3DITz9WzXhLogKPEFJCWlb Fx2jYiVFA3ehaO5TS7EbxRfnSlNr+aWHhmHxDsTr62mVmjYG7oTYUa/vL7rYQfiT 8OQ8kfeeCAR4G9wy2TT1zbykqOwWgeOm3Gup6EMydoQIIQfRLrwBJEu9ucWGQI6X gRnj6oQXZLnoqBiPdJz9xHL/8giw6lKd097G8SMaKGZgghxF/mEnCxM2/U1slt+t B0MB9p1BDAMYbVP5ZzUl4TciO+yS6ZCwAfOtx9fyz/s4Hax+/SUM2IGjeGAqYrWs bAABx8X9WufspBM8NPtePsWciseAxIqel1g81H0cZAkBQpcSn5Y3+NbZ0jelOy+F 9jyMAZqjnL8= =/WFb -----END PGP SIGNATURE-----
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