Bug#1071993: cppimport: test_multiple_processes sometimes fails: No such file: 'hook_test.cpython-312-x86_64-linux-gnu.so.lock'

2024-05-27 Thread Drew Parsons
Source: cppimport Followup-For: Bug #1071993 test_multiple_processes is now skipped in 22.08.02-3 and -4, but that's just a workaround to avoid having to remove the package. It shouldn't be considered a solution to the problem.

Bug#1071993: cppimport: test_multiple_processes sometimes fails: No such file: 'hook_test.cpython-312-x86_64-linux-gnu.so.lock'

2024-05-27 Thread Drew Parsons
Source: cppimport Version: 22.08.02-2 Severity: important Control: forwarded -1 https://github.com/tbenthompson/cppimport/issues/90 cppimport has started failing debci tests on most (if not all) architectures: 112s ___ test_multiple_processes

Bug#1071722: adios4dolfinx: FTBFS: failing tests

2024-05-26 Thread Drew Parsons
On 2024-05-26 12:44, Santiago Vila wrote: To track that, what does `lscpu` report on your failing system? (the thread,core,socket lines are probably the relevant ones) It's an AWS machine of type m6a.large. These are the most relevant specs. Thread(s) per core: 2 Core(s) per

Bug#1071722: adios4dolfinx: FTBFS: failing tests

2024-05-26 Thread Drew Parsons
On 2024-05-25 18:31, Santiago Vila wrote: El 25/5/24 a las 16:42, Drew Parsons escribió: adios4dolfinx is building cleanly in reproducibility builds. Perhaps the problem was a temporary glitch on your test system? No, this is unlikely to be a temporary glitch: ... My system has 2 CPUs

Bug#1061243: Bug #1061243 FTBFS: needs update for xsimd 12

2024-05-25 Thread Drew Parsons
Control: retitle 1061243 needs update for xsimd 13 Now xsimd 13 is available.

Bug#1071722: adios4dolfinx: FTBFS: failing tests

2024-05-25 Thread Drew Parsons
Source: adios4dolfinx Followup-For: Bug #1071722 Control: tags -1 ftbfs adios4dolfinx is building cleanly in reproducibility builds. Perhaps the problem was a temporary glitch on your test system?

Bug#1071752: satpy: arm64 fails netCDF4 tests with scipy 1.12

2024-05-24 Thread Drew Parsons
Source: satpy Version: 0.48.0-2 Severity: normal scipy 1.12 is triggering test failure on arm64 https://ci.debian.net/packages/s/satpy/unstable/arm64/46960923/ https://ci.debian.net/packages/s/satpy/unstable/arm64/ amd64 is passing without error. The errors seem to come from _netCDF4.pyx Does

Bug#1071738: pysatellites: segfault on arm64 with scipy 1.12

2024-05-24 Thread Drew Parsons
On 2024-05-24 15:41, Georges Khaznadar wrote: Hello Drew, I could not reproduce with my machine the issue which you are describing: - I installed python3-scipy 1.12.0-1exp3 over 1.11.4-10 - I launched the test suite : $ cd ~//pysatellites ~//pysatellites$ make pyuic5 pysat.ui -o

Bug#1071738: pysatellites: segfault on arm64 with scipy 1.12

2024-05-24 Thread Drew Parsons
Source: pysatellites Version: 2.7-2 Severity: important pysatellites is failing tests with segfault against scipy 1.12 (from experimental) and python3.11. 157s = test session starts == 157s platform linux -- Python 3.11.9, pytest-8.1.2,

Bug#1071702: scoary: tests fail with scipy 1.12

2024-05-23 Thread Drew Parsons
Error is 38s Traceback (most recent call last): 38s File "/usr/lib/python3.11/multiprocessing/pool.py", line 125, in worker 38s result = (True, func(*args, **kwds)) 38s ^^^ 38s File "/usr/lib/python3/dist-packages/scoary/methods.py", line 1267,

Bug#1071704: uc-echo: tests fail with scipy 1.12

2024-05-23 Thread Drew Parsons
Source: uc-echo Version: 1.12-18 Severity: normal uc-echo uses a deprecated scipy API that fails with scipy 1.12 24s autopkgtest [20:33:32]: test runtest: [--- 24s Test for sample data 25s Traceback (most recent call last): 25s File

Bug#1071703: gammapy: test fail with scipy 1.12

2024-05-23 Thread Drew Parsons
Source: gammapy Version: 1.1-4 Severity: normal gammpy appears to be using a deprecated RootResults API that fails with scipy 1.12 92s ERROR collecting test session _ 92s /usr/lib/python3.11/importlib/__init__.py:126: in import_module 92s

Bug#1071702: scoary: tests fail with scipy 1.12

2024-05-23 Thread Drew Parsons
Source: scoary Version: 1.6.16-6 Severity: normal scoary uses a deprecated scipy.stats API (binom_test) which causes it to fail tests with scipy 1.12. This bug will become serious when scipy 1.12 is uploaded to unstable in the near future.

Bug#1071700: paraview: FTBFS 32-bit arches: xdmf3 invalid conversion ‘long unsigned int*’ to ‘const int*’

2024-05-23 Thread Drew Parsons
Package: paraview Version: 5.12.0+dfsg-4 Severity: important Tags: ftbfs paraview 5.12 has started failing to build on i386. paraview 5.11 previously built on i386. The problem appears to be an implicit conversion from ‘long unsigned int*’ to ‘const int*’ in getArrayType in XdmfArray.cpp

Bug#1071518: paraview: s390x test failure: vtkClientServerStream::Invoke stream_value invalid

2024-05-20 Thread Drew Parsons
Package: paraview Version: 5.11.2+dfsg-7 Severity: important Control: forwarded -1 https://gitlab.kitware.com/paraview/paraview/-/issues/22620 The Debian build of paraview (5.11.2) fails CI tests on the s390x architecture. Test logs can be found at

Bug#1067064: transition: petsc hypre

2024-05-20 Thread Drew Parsons
On 2024-05-15 09:20, Sebastian Ramacher wrote: I think the best way to deal with it is to pretend it never happened and move on with petsc 3.20, upgrading from petsc 3.19. We'd want to doing this upgrade anyway. Please go ahead. All uploads have been made now (including dolfin). Just

Bug#900364: paraview: Paraview viewer mishandles fractional Qt screen scaling

2024-05-19 Thread Drew Parsons
Package: paraview Followup-For: Bug #900364 Control: tags 900364 moreinfo Fractional scaling seems to be working now, at least for eDP-1 > 1. Can you confirm if the problem is fixed in paraview 5.11.2 or later?

Bug#842405: paraview: can't load hdf5 file: vtkSISourceProxy: Failed to create vtkXdmfReader

2024-05-19 Thread Drew Parsons
Package: paraview Followup-For: Bug #842405 Control: tags 842405 moreinfo HDF5 is a general data format, it has no natural viewing format. When you load a file into paraview you need to specify which reader you want to open it with. Which reader are you expecting to use with your .h5 file? Your

Bug#820453: paraview: "Help -> ParaView Guide" gives error

2024-05-19 Thread Drew Parsons
Package: paraview Followup-For: Bug #820453 "Help -> ParaView Guide" now (5.11.2) provides a (functioning) url link to https://docs.paraview.org/en/v5.11.2/ which opens normally in the web browser. Not so helpful if you don't have internet access, but at least it's not giving an error now.

Bug#982601: python3-paraview Conflicts: python3-vtk9

2024-05-19 Thread Drew Parsons
Package: paraview Version: 5.11.2+dfsg-6+b9 Followup-For: Bug #982601 X-Debbugs-Cc: Petter Reinholdtsen Petter, paraview might never be aligned with vtk. See https://gitlab.kitware.com/paraview/paraview/-/issues/18751 If facet-analyser needs to be able to work with either (both)

Bug#1070894: slepc: FTBFS: Fatal Error: Cannot open module file ‘slepcmfn.mod’ for reading at (1): No such file or directory

2024-05-17 Thread Drew Parsons
Source: slepc Followup-For: Bug #1070894 Control: tags -1 ftbfs fixed-upstream Control: forwarded -1 https://gitlab.com/slepc/slepc/-/issues/83 Fixed upstream in 3.20.2, https://gitlab.com/slepc/slepc/-/merge_requests/639

Bug#1067064: transition: petsc hypre

2024-05-15 Thread Drew Parsons
On 2024-05-15 10:00, Drew Parsons wrote: On 2024-05-15 09:20, Sebastian Ramacher wrote: While looking at the tracker, I noticed that petsc is still building manual -dbg packages. IS there a reason that those have not been converted to automatic -dbgsym packages? No, it's not about symbols

Bug#1067064: transition: petsc hypre

2024-05-15 Thread Drew Parsons
On 2024-05-15 09:20, Sebastian Ramacher wrote: Control: tags -1 confirmed The petsc patch for the 64-bit time_t transition was deeply invasive. It makes petsc (and slepc) essentially unmaintainable. I think the best way to deal with it is to pretend it never happened and move on with petsc

Bug#1069321: FTBFS: [Makefile:163: check] Error 1

2024-05-14 Thread Drew Parsons
Source: hypre Followup-For: Bug #1069321 It's passing in reproducibility rebuilds. Perhaps it was a transitory glitch.

Bug#1069321: FTBFS: [Makefile:163: check] Error 1

2024-05-13 Thread Drew Parsons
Source: hypre Followup-For: Bug #1069321 Control: tags -1 ftbfs hypre is passing debci and reproducibility tests on armhf. Looks like the error reported here was a transitory issue, possibly related to openmpi upgrades.

Bug#1066449: mpi4py: FTBFS: Segmentation fault in tests

2024-05-06 Thread Drew Parsons
Source: mpi4py Followup-For: Bug #1066449 Control: tags -1 ftbfs The bug report stopped scanning at the first "error", which is not an error (it's a check). The last error is the relevant one testIReadIWrite (test_io.TestIOSelf.testIReadIWrite) ... ok testIReadIWriteAll

Bug#1069432: mpi4py: FTBFS on armhf: ld: cannot find -llmpe: No such file or directory

2024-05-05 Thread Drew Parsons
Source: mpi4py Followup-For: Bug #1069432 There have been ongoing issues with OpenMPI on 32-bit architectures, partly related to drop of 32-bit support by pmix. This bug is likely related to that i.e. not a bug in mpi4py itself.

Bug#1069377: scipy: FTBFS on arm64: make[1]: *** [debian/rules:161: execute_after_dh_auto_install] Error 1

2024-05-04 Thread Drew Parsons
Source: scipy Followup-For: Bug #1069377 Control: tags -1 ftbfs This is an odd error. Looks as if the behaviour changed in respect to which exception gets emitted. There's a new release needing to get packaged. Likely it resolves the issue.

Bug#1070338: FTBFS: libadios2_serial_evpath.so.2.10.0: undefined reference to `cmfabric_add_static_transport'

2024-05-03 Thread Drew Parsons
Source: adios2 Version: 2.10.0+dfsg1-1 Severity: normal Tags: ftbfs Control: forwarded -1 https://github.com/ornladios/ADIOS2/issues/4156 Building the debian package for adios 2.10.0 (in experimental) fails with "libadios2_serial_evpath.so.2.10.0: undefined reference to

Bug#1069106: openmpi: 32 bit pmix_init:startup:internal-failure: help-pmix-runtime.txt: No such file

2024-04-21 Thread Drew Parsons
Source: openmpi Version: 4.1.6-12 Followup-For: Bug #1069106 Control: reopen 1069106 4.1.6-12 was intended to fix this bug, but it's still occuring e.g. https://ci.debian.net/packages/o/openmpi/unstable/i386/45630865/ https://ci.debian.net/packages/o/openmpi/unstable/armhf/45630866/

Bug#1062405: dolfin: NMU diff for 64-bit time_t transition

2024-04-20 Thread Drew Parsons
Source: dolfin Followup-For: Bug #1062405 Control: severity 1062405 testing Control: tags 1062405 moreinfo This time_t patch was never applied. Is it not needed after all? Can we close this bug now?

Bug#1069106: openmpi: 32 bit pmix_init:startup:internal-failure: help-pmix-runtime.txt: No such file

2024-04-16 Thread Drew Parsons
Source: openmpi Version: 4.1.6-9 Severity: serious Justification: ftbfs Control: affects -1 src:fenics-dolfinx src:petsc openmpi 4.1.6-9 is failing its own tests on 32-bit systems, presumeably after they were configuring to use a local copy of pmix instead of libpmix-dev. For instance on i386

Bug#1062383: dolfinx-mpc: NMU diff for 64-bit time_t transition

2024-04-12 Thread Drew Parsons
Source: dolfinx-mpc Followup-For: Bug #1062383 Control: severity 1062383 important Control: tags 1062383 moreinfo This patch was never applied. Do we not need it after all? Can we close this bug now?

Bug#1062587: fenics-dolfinx: NMU diff for 64-bit time_t transition

2024-04-12 Thread Drew Parsons
Source: fenics-dolfinx Followup-For: Bug #1062587 Control: severity 1062587 important Control: tags 1062587 moreinfo This time_t patch was never applied. I presume it's not needed after all and we can close this bug now?

Bug#1068661: python3-scikit-build-core: needs Depends: python3-pyproject-metadata

2024-04-09 Thread Drew Parsons
Source: scikit-build-core Followup-For: Bug #1068661 I think dh_python3 is not adding the dependency automatically since it's listed in pyproject.toml under pyproject (optional dependency). Hence it'd need to be added manually. pathspec is listed there too so I figure it would probably want to

Bug#1068661: python3-scikit-build-core: needs Depends: python3-pyproject-metadata

2024-04-08 Thread Drew Parsons
Package: python3-scikit-build-core Version: 0.8.2-1 Severity: normal scikit-build-core imports pyproject_metadata in /usr/lib/python3/dist-packages/scikit_build_core/settings/metadata.py but the python3-scikit-build-core does not declare the corresponding Depends: python3-pyproject-metadata So

Bug#1068319: armci-mpi: debian-...@lists.debian.org

2024-04-06 Thread Drew Parsons
Source: armci-mpi Followup-For: Bug #1068319 armci-mpi is already building for mpich so the transition should be manageable. Will just need to make sure it switches off the openmpi build cleanly.

Bug#1068464: deal.ii: FTBFS: libgmp not linked, libdeal.ii.g.so.9.5.1: error: undefined reference to '__gmpn_neg'

2024-04-05 Thread Drew Parsons
Source: deal.ii Version: 9.5.1-2 Severity: normal Tags: ftbfs I'm getting an error running deal.ii tests building against petsc 3.20 (from experimental) [100%] Built target dealii_release make -f tests/CMakeFiles/test.dir/build.make tests/CMakeFiles/test.dir/depend make[5]: Entering directory

Bug#1067784: Doesn't contain libpmix.so.2

2024-04-05 Thread Drew Parsons
Package: libpmix2t64 Version: 5.0.2-2 Followup-For: Bug #1067784 Control: affects 1067784 nwchem nwchem-openmpi Control: reopen 1067784 Looks like 5.0.2-2 annihilated the symlink fix made in 5.0.2-1.1 See nwchem tests, https://ci.debian.net/packages/n/nwchem/unstable/amd64/44696719/ 90s

Bug#1067085: nanobind-dev not in python path and without distribution info

2024-04-03 Thread Drew Parsons
Package: nanobind-dev Version: 1.9.2-1 Followup-For: Bug #1067085 The path discrepancy comes from the cmake build, with CMakeLists.txt defining installation path NB_INSTALL_DATADIR via CMAKE_INSTALL_DATADIR (which is /usr/share). The upstream installation instructions don't mention cmake (they

Bug#1067308: python-meshplex: FTBFS: dh_auto_test: error: pybuild --test --test-pytest -i python{version} -p "3.12 3.11" --test-args=--ignore-glob=\*test_io\* returned exit code 13

2024-04-02 Thread Drew Parsons
Source: python-meshplex Followup-For: Bug #1067308 Control: tags -1 ftbfs I can't reproduce this error now. It must have been resolved by a separate library transition, or possibly a numpy update. If 0.17.1-3 passes tests successfully then we can close this bug.

Bug#1067064: transition: petsc hypre

2024-03-17 Thread Drew Parsons
Package: release.debian.org Severity: normal X-Debbugs-Cc: pe...@packages.debian.org, francesco.balla...@unicatt.it Control: affects -1 + src:petsc User: release.debian@packages.debian.org Usertags: transition The petsc patch for the 64-bit time_t transition was deeply invasive. It makes

Bug#1064749: pymatgen: FTBFS: make[1]: *** [debian/rules:104: override_dh_auto_test] Error 1

2024-03-16 Thread Drew Parsons
Source: pymatgen Followup-For: Bug #1064749 Control: tags -1 ftbfs I can't reproduce this error. See also https://buildd.debian.org/status/fetch.php?pkg=pymatgen=amd64=2024.1.27%2Bdfsg1-7=1708967242=0

Bug#1066973: RM: pymatgen [mips64el] -- ROM; FTBFS on mips64el

2024-03-16 Thread Drew Parsons
Package: ftp.debian.org Severity: normal Tags: ftbfs X-Debbugs-Cc: pymat...@packages.debian.org Control: affects -1 + src:pymatgen User: ftp.debian@packages.debian.org Usertags: remove A FTBFS problem with rust-python-pkginfo on mips64el (Bug#1066972) is resulting in a long chain of packages

Bug#1066972: rust-python-pkginfo: FTBFS on mips64el: missing librust-rfc2047-decoder-0.2+default-dev

2024-03-16 Thread Drew Parsons
Source: rust-python-pkginfo Version: 0.5.5-1 Severity: serious Tags: ftbfs Justification: FTBFS rust-python-pkginfo is failing to build on mips64el due to a missing librust-rfc2047-decoder-0.2+default-dev Indeed, there is no librust-rfc2047-decoder-0.2+default-dev package. Should the Build

Bug#1066890: rdma-core: don't build docs on minor arches (-DNO_MAN_PAGES=1)

2024-03-14 Thread Drew Parsons
Source: rdma-core Version: 50.0-2 Severity: normal rdma-core does not build on minor architectures, since pandoc is not available. pandoc is only needed for documentation (man pages). It might be possible to only build docs for arch-indepdent builds, then using Build-Depends-Indep: pandoc In

Bug#1065323: petsc: bad Provides in libpetsc64-real3.19t64, libpetsc64-complex3.19t64 and libpetsc-real3.19t64

2024-03-04 Thread Drew Parsons
Source: petsc Followup-For: Bug #1065323 petsc has a complex set of symlink farms since it needs to enable multiple alternative build profiles. I'll implement the patch in a way that doesn't let t64 get in the way of updating subsequently (to 3.20 in the near future). Drew

Bug#1064810: transition: mpi-defaults

2024-02-26 Thread Drew Parsons
On 2024-02-26 07:40, Alastair McKinstry wrote: Package: release.debian.org Severity: normal User: release.debian@packages.debian.org Usertags: transition X-Debbugs-Cc: mpi-defau...@packages.debian.org, debian-scie...@lists.debian.org Control: affects -1 + src:mpi-defaults OpenMPI 5.0

Bug#894462: paraview: edges are blotted [regression]

2024-02-24 Thread Drew Parsons
On 2024-02-24 12:40, Francesco Poli wrote: On Thu, 04 Jan 2024 12:18:21 +0100 Drew Parsons Can you confirm paraview 5.11 is meeting your image quality expectations? Only if I disable FXAA (which, by the way, is enabled by default, but can luckily be disabled in the settings!). ... Could

Bug#1064367: gnome-core: demote gnome-software to Recommends

2024-02-20 Thread Drew Parsons
Package: gnome-core Version: 1:44+1 Severity: normal gnome-core is generally useful for maintaining a Gnome desktop environment. gnome-software is not. Some people find gnome-software useful, but it is certainly not core for a Gnome environment when apt is used for package installation. On the

Bug#1064364: gnome-software: causes packagekit to spam syslog

2024-02-20 Thread Drew Parsons
Package: gnome-software Version: 46~beta-1 Severity: important gnome-software is causing packagekit to spam the syslog (and resources generally). Even if I stop packagekit with sudo systemctl stop packagekit gnome-software causes it to immediately restart. The only workaround is to mask it

Bug#1064280: scikit-learn: armhf tests failing: not giving expected divide-by-zero warning

2024-02-19 Thread Drew Parsons
Source: scikit-learn Version: 1.4.1.post1+dfsg-1 Severity: normal sklearn 1.4 is passing most tests but two remain "failing" on armhf. test_tfidf_no_smoothing and test_qda_regularization are "expected to fail" by emitting a divide-by-zero warning, but they emit no such exception. I guess it's a

Bug#1064224: python-hmmlearn: fails variational gaussian tests with sklearn 1.4

2024-02-18 Thread Drew Parsons
Source: python-hmmlearn Version: 0.3.0-3 Severity: serious Justification: debci python-hmmlearn is failing variational_gaussian tests (test_fit_mcgrory_titterington1d) with sklearn 1.4. This comment upstream is relevant: https://github.com/hmmlearn/hmmlearn/issues/539#issuecomment-1871436258

Bug#1064223: imbalanced-learn: fails tests with sklearn 1.4: needs new versions

2024-02-18 Thread Drew Parsons
Source: imbalanced-learn Version: 0.10.0-2 Severity: serious Justification: debci imbalanced-learn 0.10 fails tests with sklearn 1.4. The problem is fixed upstrema with v0.12.

Bug#896017: "/usr/bin/ld: cannot find -lstdc++" when building with clang

2024-02-18 Thread Drew Parsons
Package: clang Version: 1:16.0-57 Followup-For: Bug #896017 This bug is live again. Tests of xtensor-blas report: -- Check for working CXX compiler: /usr/bin/clang++ -- Check for working CXX compiler: /usr/bin/clang++ - broken CMake Error at

Bug#1064038: masakari: fails TestObjectVersions.test_versions

2024-02-16 Thread Drew Parsons
Source: masakari Version: 16.0.0-2 Severity: serious Justification: debci Control: affects -1 src:sphinx src:python-skbio src:scipy masakari has started failing tests: 229s FAIL: masakari.tests.unit.objects.test_objects.TestObjectVersions.test_versions 229s

Bug#1029701: scikit-learn: tests fail with scipy 1.10

2024-02-15 Thread Drew Parsons
Source: scikit-learn Version: 1.2.1+dfsg-1 Followup-For: Bug #1029701 Control: severity 1029701 serious scipy 1.11 is now uploaded to unstable, so bumping this bug severity to serious.

Bug#1063527: einsteinpy: test_plotting fails to converge with scipy 1.11

2024-02-15 Thread Drew Parsons
Control: severity 1063527 serious scipy 1.11 is now uploaded to unstable, so bumping this bug severity to serious

Bug#1063881: nvidia-graphics-drivers: provide dependency package to catch all packages of given version

2024-02-15 Thread Drew Parsons
On 2024-02-15 14:20, Andreas Beckmann wrote: On 14/02/2024 00.37, Drew Parsons wrote: It would be much easier to switch between versions in unstable and experimental, or upgrade from experimental, if there were a dummy dependency package that depends on all the manifold nvidia component

Bug#1063881: nvidia-graphics-drivers: provide dependency package to catch all packages of given version

2024-02-13 Thread Drew Parsons
Source: nvidia-graphics-drivers Version: 525.147.05-6 Severity: normal >From time to time the version of nvidia-driver in experimental is far ahead of the current version in unstable. It's often desirable to install it to see if the new version fixes particular problems. The problem is that

Bug#1063856: hdf5: new upstream release

2024-02-13 Thread Drew Parsons
Source: hdf5 Followup-For: Bug #1063856 For further context, HDF upstream no longer supports hdf5 1.10, nor hdf5 1.12 (i.e. no more releases will be made in these series) see https://github.com/HDFGroup/hdf5#release-schedule https://github.com/h5py/h5py/issues/2312

Bug#1063856: hdf5: new upstream release

2024-02-13 Thread Drew Parsons
Source: hdf5 Version: 1.10.10+repack-3 Severity: normal X-Debbugs-Cc: debian-scie...@lists.debian.org What our situation with our hdf5 package version? We're currently using hdf5 1.10.10, but 1.12.2 has been available in experimental for some time, and upsteam has released 1.14.3. Should we be

Bug#1063752: custodian: Inappriate maintainer address

2024-02-13 Thread Drew Parsons
Source: custodian Followup-For: Bug #1063752 X-Debbugs-Cc: Debichem Team Control: reassign 1063752 lists.debian.org Control: affects 1063752 src:custodian Scott Kitterman reported that lists.alioth.debian.org is bouncing emails from debian official addresses (ftpmas...@ftp-master.debian.org in

Bug#1063752: custodian: Inappriate maintainer address

2024-02-12 Thread Drew Parsons
Source: custodian Followup-For: Bug #1063752 I am confused by this bug report. The debichem Maintainer address used for custodian is the same as that used for any other debichem package. No problems were reported for the other packages.

Bug#1063636: python-pynndescent: test_distances fails with scipy 1.11: Unknown Distance Metric: kulsinski

2024-02-10 Thread Drew Parsons
Source: python-pynndescent Version: 0.5.8-2 Severity: normal Control: block 1061605 by -1 python-pynndescent is failing test_distances with scipy 1.11 from experimental 103s else: 103s > raise ValueError('Unknown Distance Metric: %s' % mstr) 103s E

Bug#1063584: python-skbio: tests fail with scipy 1.11

2024-02-09 Thread Drew Parsons
Evidently fixed upstream with https://github.com/scikit-bio/scikit-bio/pull/1887 see also https://github.com/scikit-bio/scikit-bio/pull/1930 (for python 3.12)

Bug#1029701: scikit-learn: tests fail with scipy 1.10

2024-02-09 Thread Drew Parsons
Source: scikit-learn Version: 1.2.1+dfsg-1 Followup-For: Bug #1029701 scikit-learn continues to fail with scipy 1.11 from experimental 648s FAILED ../../../../usr/lib/python3/dist-packages/sklearn/linear_model/tests/test_quantile.py::test_incompatible_solver_for_sparse_input[interior-point]

Bug#1063584: python-skbio: tests fail with scipy 1.11

2024-02-09 Thread Drew Parsons
Source: python-skbio Version: 0.5.9-3 Severity: normal Control: block 1061605 by -1 python-skbio is failing various tests with scipy 1.11 from experimental 150s FAILED skbio/diversity/alpha/tests/test_base.py::BaseTests::test_fisher_alpha 150s FAILED

Bug#1063567: dh-python: documentation is unclear for setting env variables to control python version

2024-02-09 Thread Drew Parsons
Package: dh-python Version: 6.20231223 Severity: normal pybuild operations can be controlled to some extent with environment variables. which is often more tidy than using override_dh_auto_... in debian/rules. The control I want to apply is run the build only for the default python (adios2, for

Bug#1063527: einsteinpy: test_plotting fails to converge with scipy 1.11

2024-02-09 Thread Drew Parsons
Source: einsteinpy Version: 0.4.0-3 Severity: important Control: block 1061605 by -1 einsteinpy is failing test_plotting with scipy 1.11 from experimental 143s if disp: 143s msg = ("Failed to converge after %d iterations, value is %s." 143s% (itr + 1, p))

Bug#1063526: astroml: test_iterative_PCA fails with scipy 1.11: unexpected keyword argument 'sym_pos'

2024-02-09 Thread Drew Parsons
Source: astroml Version: 1.0.2-2 Severity: important Control: block 1061605 by -1 astroml is failing test_iterative_PCA with scipy 1.11 from experimental 82s for i in range(n_samples): 82s VWV = np.dot(VT[:n_ev], (notM[i] * VT[:n_ev]).T) 82s >

Bug#1060971: mdtraj: FTBFS: dpkg-buildpackage: error: dpkg-source -b . subprocess returned exit status 2

2024-02-08 Thread Drew Parsons
Source: mdtraj Followup-For: Bug #1060971 X-Debbugs-Cc: 1060971-d...@bugs.debian.org Control: fixed 1060971 1.9.9-1 Fixed with cython3-legacy at the same time the bug was filed.

Bug#1024276: ITP: golang-github-googleapis-enterprise-certificate-proxy -- Google Proxies for Enterprise Certificates

2024-02-08 Thread Drew Parsons
Hi Maytham, golang-github-googleapis-enterprise-certificate-proxy is now built on the main architectures. https://buildd.debian.org/status/package.php?p=golang-github-googleapis-enterprise-certificate-proxy It's still not building on the auxiliary architectures. Can you see a way of extending

Bug#1063352: ITP: ngspetsc -- a PETSc interface for NGSolve

2024-02-06 Thread Drew Parsons
Package: wnpp Severity: wishlist Owner: Drew Parsons X-Debbugs-Cc: debian-de...@lists.debian.org, debian-scie...@lists.debian.org, francesco.balla...@unicatt.it * Package name: ngspetsc Version : git HEAD Upstream Contact: Umberto Zerbinati * URL : https

Bug#1062356: adios2: flaky autopkgtest (host dependent): times out on big host

2024-02-06 Thread Drew Parsons
Source: adios2 Followup-For: Bug #1062356 The flakey test is adios2-mpi-examples. debian/tests is building and running them manually, and running on only 3 processors (mpirun -n 3) So the problem can't be overload of the machine. I'll just skip insituGlobalArraysReaderNxN_mpi. For reference,

Bug#1062356: adios2: flaky autopkgtest (host dependent): times out on big host

2024-02-06 Thread Drew Parsons
Source: adios2 Followup-For: Bug #1062356 Can't be quite as simple as just the host machine. https://ci.debian.net/data/autopkgtest/unstable/amd64/a/adios2/41403641/log.gz completed in 9 minutes, while https://ci.debian.net/data/autopkgtest/unstable/amd64/a/adios2/41496866/log.gz failed with

Bug#1061605: scipy: tests skipped during build and autopkgtest not in sync

2024-02-05 Thread Drew Parsons
Source: scipy Followup-For: Bug #1061605 Note that debci tests are passing on all arches (where built) for scipy 11. I'm inclined to accept this as a solution. i.e. update the list of builds tests to skip for scipy 11 rather than reorganise debian/tests skips for scipy 10.

Bug#1061386: libxtensor-dev: Fails to install for arm64 arch on amd64

2024-02-05 Thread Drew Parsons
Package: libxtensor-dev Followup-For: Bug #1061386 Control: fixed 1061386 0.24.7-1 I'm a bit confused why you're installing libxtensor-dev:arm64 on amd64. Wouldn't it make more sense to install libxtensor-dev:amd64? In any case this was fixed in libxtensor-dev 0.24.7 (actually in 0.24.4-1exp1),

Bug#1062827: RFP: pydevtool -- CLI dev tools powered by pydoit

2024-02-05 Thread Drew Parsons
On 2024-02-05 18:44, Drew Parsons wrote: building and testing. The scipy team have created pybuild, which uses That should read "The scipy team have created dev.py" of course. (debian created pybuild)

Bug#1062827: RFP: pydevtool -- CLI dev tools powered by pydoit

2024-02-05 Thread Drew Parsons
On 2024-02-03 21:07, c.bu...@posteo.jp wrote: I checked upstream README.md. I have no clue what this is. Can someone explain please? Am 03.02.2024 18:05 schrieb dpars...@debian.org: Package: wnpp * Package name: pydevtool * URL : https://github.com/pydoit/pydevtool

Bug#1053939: pymatgen: test failure with pandas 2.1

2024-02-01 Thread Drew Parsons
Source: pymatgen Followup-For: Bug #1053939 [apologies for the spam. testing mail server configuration now]

Bug#1053939: pymatgen: test failure with pandas 2.1

2024-02-01 Thread Drew Parsons
Source: pymatgen Followup-For: Bug #1053939 Looks like the latest release should be fine with pandas 2. Currently building in experimental.

Bug#1052028: pydantic

2024-01-30 Thread Drew Parsons
block 1061609 by 1052028 1052619 affects 1061609 python3-emmet-core thanks The latest version of python-emmet-core (used by pymatgen) requires pydantic2.

Bug#1061605: scipy: tests skipped during build and autopkgtest not in sync

2024-01-27 Thread Drew Parsons
Source: scipy Followup-For: Bug #1061605 Easy enough to relax tolerances or skip tests if we needed to. test_maxiter_worsening was giving problems on other arches. But strange the test only started failing when pythran was deactivated. I've reactivated it in 1.10.1-8, we'll see if it restores

Bug#1020561: python3-scipy: Scipy upgrade requires c++ compiler

2024-01-27 Thread Drew Parsons
Package: python3-scipy Followup-For: Bug #1020561 Confirmed that tests still pass (amd64) if python3-pythran is forcibly not installed. Making an audit of where pythran is actually used (in v.10), at runtime that is: scipy/interpolate _rbfinterp_pythran.py see also setup.py, meson.build

Bug#1001105: can I help with pyvista packaging?

2024-01-27 Thread Drew Parsons
On 2024-01-27 18:28, Francesco Ballarin wrote: OK Andreas, I'll push to master. Let me take the lead on that, and I'll come back to you and Drew with progress and questions. I think I have some ideas on how to get started on the basic package. Thanks Francesco and Andreas. Will be

Bug#1061609: ITP: pydantic-settings -- settings management using pydantic

2024-01-27 Thread Drew Parsons
Package: wnpp Severity: wishlist Owner: Drew Parsons X-Debbugs-Cc: debian-de...@lists.debian.org, debian-pyt...@lists.debian.org * Package name: pydantic-settings Version : 2.1.0 Upstream Contact: Samuel Colvin * URL : https://github.com/pydantic/pydantic-settings

Bug#1020561: python3-scipy: Scipy upgrade requires c++ compiler

2024-01-27 Thread Drew Parsons
On 2024-01-27 09:30, Graham Inggs wrote: Hi It seems (at least in scipy/1.10.1-6), that python3-pythran was a build-dependency for all architectures [1], yet, on armhf, python3-scipy did not have a runtime dependency on python3-pythran [2]. The build log of scipy/1.10.1-6 on armhf [3],

Bug#1024276: ITP: golang-github-googleapis-enterprise-certificate-proxy -- Google Proxies for Enterprise Certificates

2024-01-23 Thread Drew Parsons
On 2024-01-23 14:39, Maytham Alsudany wrote: Hi Drew, On Tue, 2024-01-23 at 11:24 +0100, Drew Parsons wrote: > > Hi Maytham, I can upload it. But note how pkcs11 is failing on 32 bit > > arches. That needs to be sorted out. I had been waiting for that > > before up

Bug#1061385: golang-github-google-go-pkcs11: tests fail on 32 bit architectures

2024-01-23 Thread Drew Parsons
Source: golang-github-google-go-pkcs11 Version: 0.3.0+dfsg-1 Severity: serious Justification: debci Control: block 1024276 by -1 go-pkcs11 tests are failing on 32-bit architectures (armel, armhf, i386), see https://ci.debian.net/packages/g/golang-github-google-go-pkcs11/ This is preventing

Bug#1060401: ITP: python-scooby -- A lightweight tool for easily reporting your Python environment's package versions and hardware resources

2024-01-23 Thread Drew Parsons
On 2024-01-23 12:20, Andreas Tille wrote: Hi, I've seen your commits to DPT on salsa. Do you need any help to create a debian/ dir which does not exist yet? Kind regards Andreas. Hi Andreas, Francesco has prepared a debian dir in an MR on salsa. Would be great if you could review the MR

Bug#1024276: ITP: golang-github-googleapis-enterprise-certificate-proxy -- Google Proxies for Enterprise Certificates

2024-01-23 Thread Drew Parsons
On 2024-01-23 11:08, Maytham Alsudany wrote: Hi Drew, On Tue, 2024-01-23 at 09:12 +0100, Drew Parsons wrote: On 2024-01-23 07:51, Maytham Alsudany wrote: > Hi Drew, > > Now that golang-github-google-go-pkcs11 has been uploaded and accepted, > is it > possible for you to now

Bug#1024276: ITP: golang-github-googleapis-enterprise-certificate-proxy -- Google Proxies for Enterprise Certificates

2024-01-23 Thread Drew Parsons
On 2024-01-23 07:51, Maytham Alsudany wrote: Hi Drew, Now that golang-github-google-go-pkcs11 has been uploaded and accepted, is it possible for you to now upload golang-github-googleapis-enterprise-certificate- proxy? Hi Maytham, I can upload it. But note how pkcs11 is failing on 32 bit

Bug#1061357: python3-spglib: spglib python package not identified by dh_python3

2024-01-22 Thread Drew Parsons
Package: python3-spglib Version: 2.2.0-2 Severity: normal We have dh_python3 to help automatically identify python package dependencies when building a package. It's unable to identify spglib, however. For instance a pymatgen build log shows dh_python3 -a -O--buildsystem=pybuild I: dh_python3

Bug#1061263: python3-spglib: fails with python3.12 (extension not built)

2024-01-22 Thread Drew Parsons
On 2024-01-22 09:28, Andrius Merkys wrote: Hi Drew, spglib should be configured to build for all available python versions. In other libraries (e.g. fenics-basix) this is done by building the C library separately from the the python module. Thanks for a pointer, I will give fenics-basix a

Bug#1061263: python3-spglib: fails with python3.12 (extension not built)

2024-01-21 Thread Drew Parsons
Package: python3-spglib Version: 2.2.0-2 Severity: normal python3-spglib fails with python3.12, since the python extension is built only for python3.11. spglib should be configured to build for all available python versions. In other libraries (e.g. fenics-basix) this is done by building the C

Bug#1061255: ITP: custodian -- flexible just-in-time job management framework in Python

2024-01-21 Thread Drew Parsons
Package: wnpp Severity: wishlist Owner: Drew Parsons X-Debbugs-Cc: debian-de...@lists.debian.org, debian-pyt...@lists.debian.org, debian-scie...@lists.debian.org, debichem-de...@lists.alioth.debian.org * Package name: custodian Version : 2024.1.9 Upstream Contact: Shyue Ping Ong

Bug#1061243: FTBFS: needs update for xsimd 12

2024-01-21 Thread Drew Parsons
Package: libxtensor-dev Version: 0.24.7-4 Severity: important Tags: upstream Control: forwarded -1 https://github.com/xtensor-stack/xtensor/issues/2769 xtensor 0.24.7 is configured to use xsimd 10. xtensor upstream head supports xsimd 11. But xsimd 12 has been recently released and is required to

Bug#1056841: pymatgen: ftbfs with cython 3.0.x

2024-01-19 Thread Drew Parsons
On 2024-01-19 18:52, Drew Parsons wrote: Hi Andreas, could you push your upstream and pristine-tar branches? Otherwise we can't use your 2023.12.18 branch. I see what you mean. The tag is there, the orig tarball can be regenerated with gbp export-orig.

Bug#1058040: pymatgen: FTBFS with Python 3.12

2024-01-19 Thread Drew Parsons
Source: pymatgen Followup-For: Bug #1058040 No, other way around. The new monty is causing the problem. Will need to patch or upgrade pymatgen.

  1   2   3   4   5   6   7   8   9   10   >