python313Packages.llvmlite: 0.44.0 -> 0.45.0rc1; python313Packages.numba: 0.61.2 -> 0.62.0rc1 by emilazy · Pull Request #437152 · NixOS/nixpkgs

emilazy · 2025-08-26T15:28:07Z

Nearing the end of the quest to delete old compilers for 25.11.

Upstream hasn’t cut tags for these release candidates yet, but the remaining blockers on both checklists are documentation and release engineering work rather than code changes, so we can start testing this now, merge when everything looks good and the release candidate tags are cut, and bump to the final version once it’s out.

Things done

Add a 👍 reaction to pull requests you find important.

emilazy · 2025-08-27T01:24:49Z

`nixpkgs-review` result

Generated using nixpkgs-review.

Command: nixpkgs-review pr 437152
Commit: 3e756bd005e91626676728419e03111b8fc5be1d

`x86_64-linux`

❌ 120 packages failed to build:

beets (beetsPackages.beets, beetsPackages.beets-stable)
beets-unstable (beetsPackages.beets-unstable)
beets-unstable.dist (beetsPackages.beets-unstable.dist)
beets-unstable.doc (beetsPackages.beets-unstable.doc)
beets-unstable.man (beetsPackages.beets-unstable.man)
beets.dist (beetsPackages.beets-stable.dist, beetsPackages.beets.dist)
beets.doc (beetsPackages.beets-stable.doc, beetsPackages.beets.doc)
beets.man (beetsPackages.beets-stable.man, beetsPackages.beets.man)
dbx
dbx.dist
exo
exo.dist
lacus
lacus.dist
pianotrans
pianotrans.dist
pitivi
python312Packages.beetcamp
python312Packages.beetcamp.dist
python312Packages.cnvkit
python312Packages.cnvkit.dist
python312Packages.coffea
python312Packages.coffea.dist
python312Packages.dask-awkward
python312Packages.dask-awkward.dist
python312Packages.dask-histogram
python312Packages.dask-histogram.dist
python312Packages.datashader
python312Packages.datashader.dist
python312Packages.fastjet
python312Packages.fastjet.dist
python312Packages.fenics-dolfinx
python312Packages.fenics-dolfinx.dist
python312Packages.lacuscore
python312Packages.lacuscore.dist
python312Packages.librosa
python312Packages.librosa.dist
python312Packages.mmcv
python312Packages.mmcv.dist
python312Packages.mmengine
python312Packages.mmengine.dist
python312Packages.mplhep
python312Packages.mplhep.dist
python312Packages.piano-transcription-inference
python312Packages.piano-transcription-inference.dist
python312Packages.pyannote-audio
python312Packages.pyannote-audio.dist
python312Packages.pymoo
python312Packages.pymoo.dist
python312Packages.scanpy
python312Packages.scanpy.dist
python312Packages.timezonefinder
python312Packages.timezonefinder.dist
python312Packages.tinygrad
python312Packages.tinygrad.dist
python312Packages.torch-audiomentations
python312Packages.torch-audiomentations.dist
python312Packages.torchcrepe
python312Packages.torchcrepe.dist
python312Packages.torchlibrosa
python312Packages.torchlibrosa.dist
python312Packages.vector
python312Packages.vector.dist
python312Packages.whisperx
python312Packages.whisperx.dist
python312Packages.ydata-profiling
python312Packages.ydata-profiling.dist
python313Packages.beetcamp
python313Packages.beetcamp.dist
python313Packages.cnvkit
python313Packages.cnvkit.dist
python313Packages.coffea
python313Packages.coffea.dist
python313Packages.dask-awkward
python313Packages.dask-awkward.dist
python313Packages.dask-histogram
python313Packages.dask-histogram.dist
python313Packages.datashader
python313Packages.datashader.dist
python313Packages.fastjet
python313Packages.fastjet.dist
python313Packages.fenics-dolfinx
python313Packages.fenics-dolfinx.dist
python313Packages.lacuscore
python313Packages.lacuscore.dist
python313Packages.librosa
python313Packages.librosa.dist
python313Packages.mmcv
python313Packages.mmcv.dist
python313Packages.mmengine
python313Packages.mmengine.dist
python313Packages.mplhep
python313Packages.mplhep.dist
python313Packages.piano-transcription-inference
python313Packages.piano-transcription-inference.dist
python313Packages.pyannote-audio
python313Packages.pyannote-audio.dist
python313Packages.pymoo
python313Packages.pymoo.dist
python313Packages.scanpy
python313Packages.scanpy.dist
python313Packages.timezonefinder
python313Packages.timezonefinder.dist
python313Packages.tinygrad
python313Packages.tinygrad.dist
python313Packages.torch-audiomentations
python313Packages.torch-audiomentations.dist
python313Packages.torchcrepe
python313Packages.torchcrepe.dist
python313Packages.torchlibrosa
python313Packages.torchlibrosa.dist
python313Packages.vector
python313Packages.vector.dist
whisperx (python313Packages.whisperx)
whisperx.dist (python313Packages.whisperx.dist)
python313Packages.ydata-profiling
python313Packages.ydata-profiling.dist
supergee
whisper-ctranslate2
whisper-ctranslate2.dist

✅ 228 packages built:

alpaca
backgroundremover
backgroundremover.dist
dolfinx
home-assistant-component-tests.tami4
mlflow-server
mlflow-server.dist
molbar (python313Packages.molbar)
molbar.dist (python313Packages.molbar.dist)
newelle
openai-whisper (python313Packages.openai-whisper)
openai-whisper.dist (python313Packages.openai-whisper.dist)
python312Packages.ale-py
python312Packages.ale-py.dist
python312Packages.anndata
python312Packages.anndata.dist
python312Packages.apricot-select
python312Packages.apricot-select.dist
python312Packages.array-api-compat
python312Packages.array-api-compat.dist
python312Packages.awkward
python312Packages.awkward-pandas
python312Packages.awkward-pandas.dist
python312Packages.awkward.dist
python312Packages.correctionlib
python312Packages.correctionlib.dist
python312Packages.cppe
python312Packages.cppe.dist
python312Packages.dask-glm
python312Packages.dask-glm.dist
python312Packages.dask-ml
python312Packages.dask-ml.dist
python312Packages.dscribe
python312Packages.dscribe.dist
python312Packages.fast-array-utils
python312Packages.fast-array-utils.dist
python312Packages.fenics-ffcx
python312Packages.fenics-ffcx.dist
python312Packages.galois
python312Packages.galois.dist
python312Packages.gumath
python312Packages.gumath.dist
python312Packages.gymnasium
python312Packages.gymnasium.dist
python312Packages.hyppo
python312Packages.hyppo.dist
python312Packages.llvmlite
python312Packages.llvmlite.dist
python312Packages.loompy
python312Packages.loompy.dist
python312Packages.markitdown
python312Packages.markitdown.dist
python312Packages.miasm
python312Packages.miasm.dist
python312Packages.minari
python312Packages.minari.dist
python312Packages.mlflow
python312Packages.mlflow.dist
python312Packages.molbar
python312Packages.molbar.dist
python312Packages.numba
python312Packages.numba-scipy
python312Packages.numba-scipy.dist
python312Packages.numba.dist
python312Packages.numbaWithCuda
python312Packages.numbaWithCuda.dist
python312Packages.numbagg
python312Packages.numbagg.dist
python312Packages.numpy-groupies
python312Packages.numpy-groupies.dist
python312Packages.openai-whisper
python312Packages.openai-whisper.dist
python312Packages.pettingzoo
python312Packages.pettingzoo.dist
python312Packages.plopp
python312Packages.plopp.dist
python312Packages.pomegranate
python312Packages.pomegranate.dist
python312Packages.pygmo
python312Packages.pymatgen
python312Packages.pymatgen.dist
python312Packages.pymatting
python312Packages.pymatting.dist
python312Packages.pynndescent
python312Packages.pynndescent.dist
python312Packages.pypasser
python312Packages.pypasser.dist
python312Packages.pyscf
python312Packages.pyscf.dist
python312Packages.rembg
python312Packages.rembg.dist
python312Packages.resampy
python312Packages.resampy.dist
python312Packages.sagemaker-mlflow
python312Packages.sagemaker-mlflow.dist
python312Packages.scikit-tda
python312Packages.scikit-tda.dist
python312Packages.scipp
python312Packages.scipp.dist
python312Packages.shap
python312Packages.shap.dist
python312Packages.shimmy
python312Packages.shimmy.dist
python312Packages.simple-dftd3
python312Packages.simple-dftd3.dist
python312Packages.skrl
python312Packages.skrl.dist
python312Packages.sparse
python312Packages.sparse.dist
python312Packages.speechrecognition
python312Packages.speechrecognition.dist
python312Packages.stable-baselines3
python312Packages.stable-baselines3.dist
python312Packages.stumpy
python312Packages.stumpy.dist
python312Packages.stytra
python312Packages.stytra.dist
python312Packages.sumo
python312Packages.sumo.dist
python312Packages.tami4edgeapi
python312Packages.tami4edgeapi.dist
python312Packages.tianshou
python312Packages.tianshou.dist
python312Packages.trackpy
python312Packages.trackpy.dist
python312Packages.tsfresh
python312Packages.tsfresh.dist
python312Packages.umap-learn
python312Packages.umap-learn.dist
python312Packages.uproot
python312Packages.uproot.dist
python312Packages.xarray-einstats
python312Packages.xarray-einstats.dist
python313Packages.anndata
python313Packages.anndata.dist
python313Packages.apricot-select
python313Packages.apricot-select.dist
python313Packages.array-api-compat
python313Packages.array-api-compat.dist
python313Packages.awkward
python313Packages.awkward-pandas
python313Packages.awkward-pandas.dist
python313Packages.awkward.dist
python313Packages.correctionlib
python313Packages.correctionlib.dist
python313Packages.cppe
python313Packages.cppe.dist
python313Packages.dask-glm
python313Packages.dask-glm.dist
python313Packages.dask-ml
python313Packages.dask-ml.dist
python313Packages.dscribe
python313Packages.dscribe.dist
python313Packages.fast-array-utils
python313Packages.fast-array-utils.dist
python313Packages.fenics-ffcx
python313Packages.fenics-ffcx.dist
python313Packages.galois
python313Packages.galois.dist
python313Packages.gumath
python313Packages.gumath.dist
python313Packages.llvmlite
python313Packages.llvmlite.dist
python313Packages.loompy
python313Packages.loompy.dist
python313Packages.markitdown
python313Packages.markitdown.dist
python313Packages.mlflow
python313Packages.mlflow.dist
python313Packages.numba
python313Packages.numba-scipy
python313Packages.numba-scipy.dist
python313Packages.numba.dist
python313Packages.numbaWithCuda
python313Packages.numbaWithCuda.dist
python313Packages.numbagg
python313Packages.numbagg.dist
python313Packages.numpy-groupies
python313Packages.numpy-groupies.dist
python313Packages.plopp
python313Packages.plopp.dist
python313Packages.pomegranate
python313Packages.pomegranate.dist
python313Packages.pygmo
python313Packages.pymatting
python313Packages.pymatting.dist
python313Packages.pynndescent
python313Packages.pynndescent.dist
python313Packages.pypasser
python313Packages.pypasser.dist
python313Packages.pyscf
python313Packages.pyscf.dist
python313Packages.rembg
python313Packages.rembg.dist
python313Packages.resampy
python313Packages.resampy.dist
python313Packages.sagemaker-mlflow
python313Packages.sagemaker-mlflow.dist
python313Packages.scikit-tda
python313Packages.scikit-tda.dist
python313Packages.scipp
python313Packages.scipp.dist
python313Packages.shap
python313Packages.shap.dist
python313Packages.simple-dftd3
python313Packages.simple-dftd3.dist
python313Packages.sparse
python313Packages.sparse.dist
python313Packages.speechrecognition
python313Packages.speechrecognition.dist
python313Packages.stumpy
python313Packages.stumpy.dist
python313Packages.stytra
python313Packages.stytra.dist
python313Packages.tami4edgeapi
python313Packages.tami4edgeapi.dist
python313Packages.trackpy
python313Packages.trackpy.dist
python313Packages.tsfresh
python313Packages.tsfresh.dist
python313Packages.umap-learn
python313Packages.umap-learn.dist
python313Packages.uproot
python313Packages.uproot.dist
python313Packages.xarray-einstats
python313Packages.xarray-einstats.dist
rembg
rembg.dist

Error logs: `x86_64-linux`

python312Packages.datashader

        with warnings.catch_warnings(record=True) as w:
            warnings.simplefilter("always")
            result_nocopy2 = np.array(data, copy=False)
            assert len(w) <= 1
            if len(w):
                warning_raised = True
                assert msg in str(w[0].message)
    if not warning_raised:
        # If copy=False was given and did not raise, these must share the same data


      assert np.may_share_memory(result_nocopy1, result_nocopy2)


               ^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^

E           AssertionError
/nix/store/67bcp7kp7k9rmf9pcj1fvrrda3qhbplx-python3.12-pandas-2.3.1/lib/python3.12/site-packages/pandas/tests/extension/base/interface.py:107: AssertionError

=========================== short test summary info ============================

FAILED datashader/tests/test_datatypes.py::TestRaggedGetitem::test_take_pandas_style_negative_raises - pytest.PytestWarning: matching against an empty string will always pass. ...

FAILED datashader/tests/test_datatypes.py::TestRaggedMethods::test_argmax_argmin_no_skipna_notimplemented - pytest.PytestWarning: matching against an empty string will always pass. ...

FAILED datashader/tests/test_datatypes.py::TestRaggedInterface::test_array_interface_copy - AssertionError

====== 3 failed, 978 passed, 298 skipped, 11 xfailed in 314.82s (0:05:14) ======

python312Packages.librosa

FAILED tests/test_beat.py::test_plp[44100-prior1-120-80-ctx3-True-384-256] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_beat.py::test_plp[44100-prior1-120-80-ctx3-True-384-512] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_plp_multi[test1_44100.wav-None-30-300-384-512] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_plp_multi[test1_44100.wav-None-60-None-384-512] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_plp_multi[test1_44100.wav-prior1-30-300-384-512] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_plp_multi[test1_44100.wav-prior1-60-None-384-512] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_beat_track_multi[test1_44100.wav-False] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_beat_track_multi[test1_44100.wav-True] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_beat_track_multi_bpm_scalar[test1_44100.wav] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_beat_track_multi_bpm_vector[test1_44100.wav] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_beat_track_multi_sparse[test1_44100.wav] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
ERROR tests/test_display.py::test_coords - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
ERROR tests/test_segment.py::test_subsegment[1] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
ERROR tests/test_segment.py::test_subsegment[2] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
ERROR tests/test_segment.py::test_subsegment[3] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
ERROR tests/test_segment.py::test_subsegment[4] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
ERROR tests/test_segment.py::test_subsegment[100] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
ERROR tests/test_segment.py::test_subsegment_badn[-1] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
ERROR tests/test_segment.py::test_subsegment_badn[0] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
= 751 failed, 13239 passed, 2 skipped, 47 deselected, 497 xfailed, 8 errors in 1275.92s (0:21:15) =

python312Packages.scanpy

FAILED tests/test_qc_metrics.py::test_qc_metrics[scipy_csc] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics_format[scipy_csc] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics_idempotent[scipy_csc] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_results[scipy_csc] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_wilcoxon_tie_correction[True] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_results_layers[scipy_csc] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_log1p_save_restore - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_wilcoxon_huge_data - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_rank_genes_groups_use_raw - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_mask_not_equal - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_results[scipy_csr] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_mask_n_genes[equal] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_results_layers[scipy_csr] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_wilcoxon_symmetry - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_mask_n_genes[more] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_wilcoxon_tie_correction[False] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_preprocessing.py::test_scale_matrix_types[clip-no_zero_center-scipy_csc] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
= 91 failed, 773 passed, 344 skipped, 19 xfailed, 160 warnings in 352.20s (0:05:52) =
mkdir -p failed for path /homeless-shelter/.config/matplotlib: [Errno 13] Permission denied: '/homeless-shelter'
Matplotlib created a temporary cache directory at /build/matplotlib-d4l8ohv5 because there was an issue with the default path (/homeless-shelter/.config/matplotlib); it is highly recommended to set the MPLCONFIGDIR environment variable to a writable directory, in particular to speed up the import of Matplotlib and to better support multiprocessing.

python313Packages.datashader

                re_error = e
            if re_error is not None:
                fail(f"Invalid regex pattern provided to 'match': {re_error}")
            if match == "":
>               warnings.warn(
                    PytestWarning(
                        "matching against an empty string will *always* pass. If you want "
                        "to check for an empty message you need to pass '^$'. If you don't "
                        "want to match you should pass `None` or leave out the parameter."
                    ),
                    stacklevel=2,
                )
E               pytest.PytestWarning: matching against an empty string will *always* pass. If you want to check for an empty message you need to pass '^$'. If you don't want to match you should pass `None` or leave out the parameter.
/nix/store/l9wxarvas1jpan9s1l0k1a5mx05g3qj6-python3.13-pytest-8.4.1/lib/python3.13/site-packages/_pytest/raises.py:401: PytestWarning

=========================== short test summary info ============================

FAILED datashader/tests/test_datatypes.py::TestRaggedGetitem::test_take_pandas_style_negative_raises - pytest.PytestWarning: matching against an empty string will always pass. ...

FAILED datashader/tests/test_datatypes.py::TestRaggedInterface::test_array_interface_copy - AssertionError

FAILED datashader/tests/test_datatypes.py::TestRaggedMethods::test_argmax_argmin_no_skipna_notimplemented - pytest.PytestWarning: matching against an empty string will always pass. ...

====== 3 failed, 978 passed, 298 skipped, 11 xfailed in 283.33s (0:04:43) ======

python313Packages.librosa

FAILED tests/test_beat.py::test_plp[44100-prior1-120-80-ctx3-True-384-256] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_beat.py::test_plp[44100-prior1-120-80-ctx3-True-384-512] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_plp_multi[test1_44100.wav-None-30-300-384-512] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_plp_multi[test1_44100.wav-None-60-None-384-512] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_plp_multi[test1_44100.wav-prior1-30-300-384-512] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_plp_multi[test1_44100.wav-prior1-60-None-384-512] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_beat_track_multi[test1_44100.wav-False] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_beat_track_multi[test1_44100.wav-True] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_beat_track_multi_bpm_scalar[test1_44100.wav] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_beat_track_multi_bpm_vector[test1_44100.wav] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
FAILED tests/test_multichannel.py::test_beat_track_multi_sparse[test1_44100.wav] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
ERROR tests/test_display.py::test_coords - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
ERROR tests/test_segment.py::test_subsegment[1] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
ERROR tests/test_segment.py::test_subsegment[2] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
ERROR tests/test_segment.py::test_subsegment[3] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
ERROR tests/test_segment.py::test_subsegment[4] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
ERROR tests/test_segment.py::test_subsegment[100] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
ERROR tests/test_segment.py::test_subsegment_badn[-1] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
ERROR tests/test_segment.py::test_subsegment_badn[0] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nopy...
= 751 failed, 13239 passed, 2 skipped, 47 deselected, 497 xfailed, 8 errors in 1227.88s (0:20:27) =

python313Packages.scanpy

FAILED get/get.py::scanpy.get.get.rank_genes_groups_df
FAILED tests/test_rank_genes_groups.py::test_mask_not_equal - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_results_layers[scipy_csc] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_results[scipy_csr] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_results[scipy_csc] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_wilcoxon_tie_correction[True] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_mask_n_genes[more] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_wilcoxon_tie_correction[False] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics[scipy_csr] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics[scipy_csc] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics_format[scipy_csr] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics_no_log1p[scipy_csc] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics_format[scipy_csc] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_layer_raw - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_inner_methods - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics_no_log1p[scipy_csr] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics_idempotent[scipy_csr] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
= 91 failed, 773 passed, 344 skipped, 19 xfailed, 166 warnings in 352.62s (0:05:52) =
mkdir -p failed for path /homeless-shelter/.config/matplotlib: [Errno 13] Permission denied: '/homeless-shelter'
Matplotlib created a temporary cache directory at /build/matplotlib-qnr3j9gs because there was an issue with the default path (/homeless-shelter/.config/matplotlib); it is highly recommended to set the MPLCONFIGDIR environment variable to a writable directory, in particular to speed up the import of Matplotlib and to better support multiprocessing.

emilazy · 2025-08-27T01:28:56Z

Apparent regressions, though I think many of these are just timeouts of flakiness/timeout on Python builds:

✔  beets-2.3.1  2025-08-25  https://hydra.nixos.org/build/305563412
✔  beets-2.3.1  2025-08-25  https://hydra.nixos.org/build/305563614
✔  exo-0.0.14-alpha  2025-08-26  https://hydra.nixos.org/build/306059409
✔  pianotrans-1.0.1  2025-08-24  https://hydra.nixos.org/build/305636727
✔  pitivi-2023.03  2025-08-25  https://hydra.nixos.org/build/305636740
✔  python3.12-librosa-0.11.0  2025-08-25  https://hydra.nixos.org/build/305647222
✔  python3.12-piano-transcription-inference-0.0.6  2025-08-25  https://hydra.nixos.org/build/305650491
✔  python3.12-pyannote-audio-3.3.2  2025-08-26  https://hydra.nixos.org/build/306060614
✔  python3.12-scanpy-1.11.4  2025-08-25  https://hydra.nixos.org/build/306009391
✔  python3.12-tinygrad-0.11.0  2025-08-25  https://hydra.nixos.org/build/306009493
✔  python3.12-torch-audiomentations-0.12.0  2025-08-24  https://hydra.nixos.org/build/305656500
✔  python3.12-torchcrepe-0.0.24  2025-08-25  https://hydra.nixos.org/build/305656566
✔  python3.12-torchlibrosa-0.1.0  2025-08-25  https://hydra.nixos.org/build/305656531
✔  python3.13-librosa-0.11.0  2025-08-25  https://hydra.nixos.org/build/305666472
✔  python3.13-piano-transcription-inference-0.0.6  2025-08-25  https://hydra.nixos.org/build/305669732
✔  python3.13-pyannote-audio-3.3.2  2025-08-25  https://hydra.nixos.org/build/306009992
✔  python3.13-scanpy-1.11.4  2025-08-25  https://hydra.nixos.org/build/306010085
✔  python3.13-tinygrad-0.11.0  2025-08-26  https://hydra.nixos.org/build/306061615
✔  python3.13-torch-audiomentations-0.12.0  2025-08-25  https://hydra.nixos.org/build/305675641
✔  python3.13-torchcrepe-0.0.24  2025-08-25  https://hydra.nixos.org/build/305675685
✔  python3.13-torchlibrosa-0.1.0  2025-08-25  https://hydra.nixos.org/build/305675658
✔  supergee-0-unstable-2023-11-21  2025-08-25  https://hydra.nixos.org/build/305688965
✔  whisper-ctranslate2-0.5.4  2025-08-25  https://hydra.nixos.org/build/306010620

emilazy · 2025-08-27T02:05:40Z

librosa regression is real.

emilazy · 2025-08-27T21:42:39Z

`nixpkgs-review` result

Generated using nixpkgs-review.

Command: nixpkgs-review pr 437152
Commit: 13ba5881731d8ac403fc08f4072a9c0d0cb64216

`x86_64-linux`

❌ 80 packages failed to build:

dbx
dbx.dist
lacus
lacus.dist
python312Packages.beetcamp
python312Packages.beetcamp.dist
python312Packages.cnvkit
python312Packages.cnvkit.dist
python312Packages.coffea
python312Packages.coffea.dist
python312Packages.dask-awkward
python312Packages.dask-awkward.dist
python312Packages.dask-histogram
python312Packages.dask-histogram.dist
python312Packages.datashader
python312Packages.datashader.dist
python312Packages.fastjet
python312Packages.fastjet.dist
python312Packages.fenics-dolfinx
python312Packages.fenics-dolfinx.dist
python312Packages.lacuscore
python312Packages.lacuscore.dist
python312Packages.mmcv
python312Packages.mmcv.dist
python312Packages.mmengine
python312Packages.mmengine.dist
python312Packages.mplhep
python312Packages.mplhep.dist
python312Packages.pymatgen
python312Packages.pymatgen.dist
python312Packages.pymoo
python312Packages.pymoo.dist
python312Packages.scanpy
python312Packages.scanpy.dist
python312Packages.sumo
python312Packages.sumo.dist
python312Packages.timezonefinder
python312Packages.timezonefinder.dist
python312Packages.vector
python312Packages.vector.dist
python312Packages.whisperx
python312Packages.whisperx.dist
python312Packages.ydata-profiling
python312Packages.ydata-profiling.dist
python313Packages.beetcamp
python313Packages.beetcamp.dist
python313Packages.cnvkit
python313Packages.cnvkit.dist
python313Packages.coffea
python313Packages.coffea.dist
python313Packages.dask-awkward
python313Packages.dask-awkward.dist
python313Packages.dask-histogram
python313Packages.dask-histogram.dist
python313Packages.datashader
python313Packages.datashader.dist
python313Packages.fastjet
python313Packages.fastjet.dist
python313Packages.fenics-dolfinx
python313Packages.fenics-dolfinx.dist
python313Packages.lacuscore
python313Packages.lacuscore.dist
python313Packages.mmcv
python313Packages.mmcv.dist
python313Packages.mmengine
python313Packages.mmengine.dist
python313Packages.mplhep
python313Packages.mplhep.dist
python313Packages.pymoo
python313Packages.pymoo.dist
python313Packages.scanpy
python313Packages.scanpy.dist
python313Packages.timezonefinder
python313Packages.timezonefinder.dist
python313Packages.vector
python313Packages.vector.dist
whisperx (python313Packages.whisperx)
whisperx.dist (python313Packages.whisperx.dist)
python313Packages.ydata-profiling
python313Packages.ydata-profiling.dist

✅ 268 packages built:

alpaca
backgroundremover
backgroundremover.dist
beets (beetsPackages.beets, beetsPackages.beets-stable)
beets-unstable (beetsPackages.beets-unstable)
beets-unstable.dist (beetsPackages.beets-unstable.dist)
beets-unstable.doc (beetsPackages.beets-unstable.doc)
beets-unstable.man (beetsPackages.beets-unstable.man)
beets.dist (beetsPackages.beets-stable.dist, beetsPackages.beets.dist)
beets.doc (beetsPackages.beets-stable.doc, beetsPackages.beets.doc)
beets.man (beetsPackages.beets-stable.man, beetsPackages.beets.man)
dolfinx
exo
exo.dist
home-assistant-component-tests.tami4
mlflow-server
mlflow-server.dist
molbar (python313Packages.molbar)
molbar.dist (python313Packages.molbar.dist)
newelle
openai-whisper (python313Packages.openai-whisper)
openai-whisper.dist (python313Packages.openai-whisper.dist)
pianotrans
pianotrans.dist
pitivi
python312Packages.ale-py
python312Packages.ale-py.dist
python312Packages.anndata
python312Packages.anndata.dist
python312Packages.apricot-select
python312Packages.apricot-select.dist
python312Packages.array-api-compat
python312Packages.array-api-compat.dist
python312Packages.awkward
python312Packages.awkward-pandas
python312Packages.awkward-pandas.dist
python312Packages.awkward.dist
python312Packages.correctionlib
python312Packages.correctionlib.dist
python312Packages.cppe
python312Packages.cppe.dist
python312Packages.dask-glm
python312Packages.dask-glm.dist
python312Packages.dask-ml
python312Packages.dask-ml.dist
python312Packages.dscribe
python312Packages.dscribe.dist
python312Packages.fast-array-utils
python312Packages.fast-array-utils.dist
python312Packages.fenics-ffcx
python312Packages.fenics-ffcx.dist
python312Packages.galois
python312Packages.galois.dist
python312Packages.gumath
python312Packages.gumath.dist
python312Packages.gymnasium
python312Packages.gymnasium.dist
python312Packages.hyppo
python312Packages.hyppo.dist
python312Packages.librosa
python312Packages.librosa.dist
python312Packages.llvmlite
python312Packages.llvmlite.dist
python312Packages.loompy
python312Packages.loompy.dist
python312Packages.markitdown
python312Packages.markitdown.dist
python312Packages.miasm
python312Packages.miasm.dist
python312Packages.minari
python312Packages.minari.dist
python312Packages.mlflow
python312Packages.mlflow.dist
python312Packages.molbar
python312Packages.molbar.dist
python312Packages.numba
python312Packages.numba-scipy
python312Packages.numba-scipy.dist
python312Packages.numba.dist
python312Packages.numbaWithCuda
python312Packages.numbaWithCuda.dist
python312Packages.numbagg
python312Packages.numbagg.dist
python312Packages.numpy-groupies
python312Packages.numpy-groupies.dist
python312Packages.openai-whisper
python312Packages.openai-whisper.dist
python312Packages.pettingzoo
python312Packages.pettingzoo.dist
python312Packages.piano-transcription-inference
python312Packages.piano-transcription-inference.dist
python312Packages.plopp
python312Packages.plopp.dist
python312Packages.pomegranate
python312Packages.pomegranate.dist
python312Packages.pyannote-audio
python312Packages.pyannote-audio.dist
python312Packages.pygmo
python312Packages.pymatting
python312Packages.pymatting.dist
python312Packages.pynndescent
python312Packages.pynndescent.dist
python312Packages.pypasser
python312Packages.pypasser.dist
python312Packages.pyscf
python312Packages.pyscf.dist
python312Packages.rembg
python312Packages.rembg.dist
python312Packages.resampy
python312Packages.resampy.dist
python312Packages.sagemaker-mlflow
python312Packages.sagemaker-mlflow.dist
python312Packages.scikit-tda
python312Packages.scikit-tda.dist
python312Packages.scipp
python312Packages.scipp.dist
python312Packages.shap
python312Packages.shap.dist
python312Packages.shimmy
python312Packages.shimmy.dist
python312Packages.simple-dftd3
python312Packages.simple-dftd3.dist
python312Packages.skrl
python312Packages.skrl.dist
python312Packages.sparse
python312Packages.sparse.dist
python312Packages.speechrecognition
python312Packages.speechrecognition.dist
python312Packages.stable-baselines3
python312Packages.stable-baselines3.dist
python312Packages.stumpy
python312Packages.stumpy.dist
python312Packages.stytra
python312Packages.stytra.dist
python312Packages.tami4edgeapi
python312Packages.tami4edgeapi.dist
python312Packages.tianshou
python312Packages.tianshou.dist
python312Packages.tinygrad
python312Packages.tinygrad.dist
python312Packages.torch-audiomentations
python312Packages.torch-audiomentations.dist
python312Packages.torchcrepe
python312Packages.torchcrepe.dist
python312Packages.torchlibrosa
python312Packages.torchlibrosa.dist
python312Packages.trackpy
python312Packages.trackpy.dist
python312Packages.tsfresh
python312Packages.tsfresh.dist
python312Packages.umap-learn
python312Packages.umap-learn.dist
python312Packages.uproot
python312Packages.uproot.dist
python312Packages.xarray-einstats
python312Packages.xarray-einstats.dist
python313Packages.anndata
python313Packages.anndata.dist
python313Packages.apricot-select
python313Packages.apricot-select.dist
python313Packages.array-api-compat
python313Packages.array-api-compat.dist
python313Packages.awkward
python313Packages.awkward-pandas
python313Packages.awkward-pandas.dist
python313Packages.awkward.dist
python313Packages.correctionlib
python313Packages.correctionlib.dist
python313Packages.cppe
python313Packages.cppe.dist
python313Packages.dask-glm
python313Packages.dask-glm.dist
python313Packages.dask-ml
python313Packages.dask-ml.dist
python313Packages.dscribe
python313Packages.dscribe.dist
python313Packages.fast-array-utils
python313Packages.fast-array-utils.dist
python313Packages.fenics-ffcx
python313Packages.fenics-ffcx.dist
python313Packages.galois
python313Packages.galois.dist
python313Packages.gumath
python313Packages.gumath.dist
python313Packages.librosa
python313Packages.librosa.dist
python313Packages.llvmlite
python313Packages.llvmlite.dist
python313Packages.loompy
python313Packages.loompy.dist
python313Packages.markitdown
python313Packages.markitdown.dist
python313Packages.mlflow
python313Packages.mlflow.dist
python313Packages.numba
python313Packages.numba-scipy
python313Packages.numba-scipy.dist
python313Packages.numba.dist
python313Packages.numbaWithCuda
python313Packages.numbaWithCuda.dist
python313Packages.numbagg
python313Packages.numbagg.dist
python313Packages.numpy-groupies
python313Packages.numpy-groupies.dist
python313Packages.piano-transcription-inference
python313Packages.piano-transcription-inference.dist
python313Packages.plopp
python313Packages.plopp.dist
python313Packages.pomegranate
python313Packages.pomegranate.dist
python313Packages.pyannote-audio
python313Packages.pyannote-audio.dist
python313Packages.pygmo
python313Packages.pymatting
python313Packages.pymatting.dist
python313Packages.pynndescent
python313Packages.pynndescent.dist
python313Packages.pypasser
python313Packages.pypasser.dist
python313Packages.pyscf
python313Packages.pyscf.dist
python313Packages.rembg
python313Packages.rembg.dist
python313Packages.resampy
python313Packages.resampy.dist
python313Packages.sagemaker-mlflow
python313Packages.sagemaker-mlflow.dist
python313Packages.scikit-tda
python313Packages.scikit-tda.dist
python313Packages.scipp
python313Packages.scipp.dist
python313Packages.shap
python313Packages.shap.dist
python313Packages.simple-dftd3
python313Packages.simple-dftd3.dist
python313Packages.sparse
python313Packages.sparse.dist
python313Packages.speechrecognition
python313Packages.speechrecognition.dist
python313Packages.stumpy
python313Packages.stumpy.dist
python313Packages.stytra
python313Packages.stytra.dist
python313Packages.tami4edgeapi
python313Packages.tami4edgeapi.dist
python313Packages.tinygrad
python313Packages.tinygrad.dist
python313Packages.torch-audiomentations
python313Packages.torch-audiomentations.dist
python313Packages.torchcrepe
python313Packages.torchcrepe.dist
python313Packages.torchlibrosa
python313Packages.torchlibrosa.dist
python313Packages.trackpy
python313Packages.trackpy.dist
python313Packages.tsfresh
python313Packages.tsfresh.dist
python313Packages.umap-learn
python313Packages.umap-learn.dist
python313Packages.uproot
python313Packages.uproot.dist
python313Packages.xarray-einstats
python313Packages.xarray-einstats.dist
rembg
rembg.dist
supergee
whisper-ctranslate2
whisper-ctranslate2.dist

Error logs: `x86_64-linux`

python312Packages.beetcamp

Running phase: updateAutotoolsGnuConfigScriptsPhase
@nix { "action": "setPhase", "phase": "updateAutotoolsGnuConfigScriptsPhase" }
Running phase: configurePhase
@nix { "action": "setPhase", "phase": "configurePhase" }
no configure script, doing nothing
Running phase: buildPhase
@nix { "action": "setPhase", "phase": "buildPhase" }
Executing pypaBuildPhase
Creating a wheel...
pypa build flags: --no-isolation --outdir dist/ --wheel
* Getting build dependencies for wheel...
* Building wheel...
Successfully built beetcamp-0.22.0-py3-none-any.whl
Finished creating a wheel...
Finished executing pypaBuildPhase
Running phase: pythonRuntimeDepsCheckHook
@nix { "action": "setPhase", "phase": "pythonRuntimeDepsCheckHook" }
Executing pythonRuntimeDepsCheck
Checking runtime dependencies for beetcamp-0.22.0-py3-none-any.whl
  - beets not installed

python312Packages.datashader

                re_error = e
            if re_error is not None:
                fail(f"Invalid regex pattern provided to 'match': {re_error}")
            if match == "":
>               warnings.warn(
                    PytestWarning(
                        "matching against an empty string will *always* pass. If you want "
                        "to check for an empty message you need to pass '^$'. If you don't "
                        "want to match you should pass `None` or leave out the parameter."
                    ),
                    stacklevel=2,
                )
E               pytest.PytestWarning: matching against an empty string will *always* pass. If you want to check for an empty message you need to pass '^$'. If you don't want to match you should pass `None` or leave out the parameter.
/nix/store/ggk45c8i53zyrs8w9vy7l4bqmmsjjjlc-python3.12-pytest-8.4.1/lib/python3.12/site-packages/_pytest/raises.py:401: PytestWarning

=========================== short test summary info ============================

FAILED datashader/tests/test_datatypes.py::TestRaggedGetitem::test_take_pandas_style_negative_raises - pytest.PytestWarning: matching against an empty string will always pass. ...

FAILED datashader/tests/test_datatypes.py::TestRaggedInterface::test_array_interface_copy - AssertionError

FAILED datashader/tests/test_datatypes.py::TestRaggedMethods::test_argmax_argmin_no_skipna_notimplemented - pytest.PytestWarning: matching against an empty string will always pass. ...

====== 3 failed, 978 passed, 298 skipped, 11 xfailed in 239.63s (0:03:59) ======

python312Packages.scanpy

FAILED tests/test_qc_metrics.py::test_qc_metrics[scipy_csr] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics_format[scipy_csc] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics[scipy_csc] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics_no_log1p[scipy_csr] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_layer_raw - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics_format[scipy_csr] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_scaling.py::test_scale_sparse[no_clip-mask] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_scaling.py::test_scale[mask-no_center-int64-anndata-csr_matrix] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_scaling.py::test_scale[no_mask-no_center-int64-anndata-csr_matrix] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_scaling.py::test_scale[no_mask-no_center-float32-array-csc_matrix] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_scaling.py::test_scale[no_mask-no_center-int64-array-csc_matrix] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_scaling.py::test_scale[no_mask-center-float32-anndata-csr_matrix] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_scaling.py::test_scale[mask-center-int64-anndata-csr_matrix] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_scaling.py::test_scale[mask-no_center-int64-anndata-csc_matrix] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_scaling.py::test_scale[mask-center-float32-anndata-csc_matrix] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_scaling.py::test_scale[no_mask-center-float32-array-csr_matrix] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_preprocessing.py::test_scale_matrix_types[clip-no_zero_center-numpy_ndarray] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
= 91 failed, 773 passed, 344 skipped, 19 xfailed, 168 warnings in 139.72s (0:02:19) =
mkdir -p failed for path /homeless-shelter/.config/matplotlib: [Errno 13] Permission denied: '/homeless-shelter'
Matplotlib created a temporary cache directory at /build/matplotlib-sw6kpgsy because there was an issue with the default path (/homeless-shelter/.config/matplotlib); it is highly recommended to set the MPLCONFIGDIR environment variable to a writable directory, in particular to speed up the import of Matplotlib and to better support multiprocessing.

python312Packages.whisperx

adding 'whisperx/vads/vad.py'
adding 'whisperx-3.4.2.dist-info/licenses/LICENSE'
adding 'whisperx-3.4.2.dist-info/METADATA'
adding 'whisperx-3.4.2.dist-info/WHEEL'
adding 'whisperx-3.4.2.dist-info/entry_points.txt'
adding 'whisperx-3.4.2.dist-info/top_level.txt'
adding 'whisperx-3.4.2.dist-info/RECORD'
removing build/bdist.linux-x86_64/wheel
Successfully built whisperx-3.4.2-py3-none-any.whl
Finished creating a wheel...
/build/source/dist /build/source
Unpacking to: unpacked/whisperx-3.4.2...OK
Repacking wheel as ./whisperx-3.4.2-py3-none-any.whl...OK
/build/source
Finished executing pypaBuildPhase
Running phase: pythonRuntimeDepsCheckHook
@nix { "action": "setPhase", "phase": "pythonRuntimeDepsCheckHook" }
Executing pythonRuntimeDepsCheck
Checking runtime dependencies for whisperx-3.4.2-py3-none-any.whl
  - ctranslate2<4.5.0 not satisfied by version 4.6.0

python313Packages.beetcamp

tests/test_real_queries.py F.                                            [ 78%]
tests/test_search.py ..........                                          [ 81%]
tests/test_track.py .................................................... [ 95%]
..................                                                       [100%]
=================================== FAILURES ===================================

________________________________ test_get_html _________________________________

tests/test_real_queries.py:18: in test_get_html

assert html

E   AssertionError: assert ''

=============================== warnings summary ===============================

../../nix/store/cjjgrdb4nfqgxhi6ppi94l08cv812afy-python3.13-confuse-1.7.0/lib/python3.13/site-packages/confuse/util.py:126

/nix/store/cjjgrdb4nfqgxhi6ppi94l08cv812afy-python3.13-confuse-1.7.0/lib/python3.13/site-packages/confuse/util.py:126: DeprecationWarning: 'pkgutil.get_loader' is deprecated and slated for removal in Python 3.14; use importlib.util.find_spec() instead

loader = pkgutil.get_loader(name)
-- Docs: https://docs.pytest.org/en/stable/how-to/capture-warnings.html

---------- generated xml file: /build/source/.reports/test-report.xml ----------

=========================== short test summary info ============================

FAILED tests/test_real_queries.py::test_get_html - AssertionError: assert ''

============ 1 failed, 372 passed, 1 deselected, 1 warning in 1.00s ============

python313Packages.datashader

                re_error = e
            if re_error is not None:
                fail(f"Invalid regex pattern provided to 'match': {re_error}")
            if match == "":
>               warnings.warn(
                    PytestWarning(
                        "matching against an empty string will *always* pass. If you want "
                        "to check for an empty message you need to pass '^$'. If you don't "
                        "want to match you should pass `None` or leave out the parameter."
                    ),
                    stacklevel=2,
                )
E               pytest.PytestWarning: matching against an empty string will *always* pass. If you want to check for an empty message you need to pass '^$'. If you don't want to match you should pass `None` or leave out the parameter.
/nix/store/l9wxarvas1jpan9s1l0k1a5mx05g3qj6-python3.13-pytest-8.4.1/lib/python3.13/site-packages/_pytest/raises.py:401: PytestWarning

=========================== short test summary info ============================

FAILED datashader/tests/test_datatypes.py::TestRaggedGetitem::test_take_pandas_style_negative_raises - pytest.PytestWarning: matching against an empty string will always pass. ...

FAILED datashader/tests/test_datatypes.py::TestRaggedInterface::test_array_interface_copy - AssertionError

FAILED datashader/tests/test_datatypes.py::TestRaggedMethods::test_argmax_argmin_no_skipna_notimplemented - pytest.PytestWarning: matching against an empty string will always pass. ...

====== 3 failed, 978 passed, 298 skipped, 11 xfailed in 227.19s (0:03:47) ======

python313Packages.scanpy

FAILED tests/test_rank_genes_groups.py::test_results_layers[scipy_csr] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_results_layers[scipy_csc] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_mask_not_equal - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics_no_log1p[scipy_csc] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_results[scipy_csr] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_results[scipy_csc] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_wilcoxon_symmetry - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_wilcoxon_tie_correction[True] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_wilcoxon_huge_data - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_wilcoxon_tie_correction[False] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_rank_genes_groups.py::test_mask_n_genes[equal] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics_idempotent[scipy_csr] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics_format[scipy_csr] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics_no_log1p[scipy_csr] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_inner_methods - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics_format[scipy_csc] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
FAILED tests/test_qc_metrics.py::test_qc_metrics[scipy_csr] - numba.core.errors.TypingError: Failed in nopython mode pipeline (step: nati...
= 91 failed, 773 passed, 344 skipped, 19 xfailed, 156 warnings in 71.46s (0:01:11) =
mkdir -p failed for path /homeless-shelter/.config/matplotlib: [Errno 13] Permission denied: '/homeless-shelter'
Matplotlib created a temporary cache directory at /build/matplotlib-9nla7_r1 because there was an issue with the default path (/homeless-shelter/.config/matplotlib); it is highly recommended to set the MPLCONFIGDIR environment variable to a writable directory, in particular to speed up the import of Matplotlib and to better support multiprocessing.

emilazy · 2025-08-27T21:43:37Z

Sent a PR upstream to librosa and patched here for now.

Remaining regressions:

✔  python3.12-pymatgen-2025.6.14  2025-08-27  https://hydra.nixos.org/build/306078269
✔  python3.12-scanpy-1.11.4  2025-08-25  https://hydra.nixos.org/build/306009391
✔  python3.12-sumo-2.3.12  2025-08-27  https://hydra.nixos.org/build/306078407
✔  python3.13-scanpy-1.11.4  2025-08-25  https://hydra.nixos.org/build/306010085

These are all downstream of scanpy.

emilazy · 2025-08-27T21:50:44Z

Not sure whether the scanpy issue is a Numba regression or not; asked in numba/numba#9909 (comment). I think four packages with one root cause is an acceptable scope of regression, so I won’t immediately investigate a patch.

emilazy · 2025-08-27T22:02:00Z

Notified the other upstream at scverse/scanpy#3778 for good measure.

emilazy · 2025-09-03T00:19:21Z

Updated to use the actual release candidate tags, now that they exist, and to update the python3Packages.librosa patch in response to upstream feedback. The python3Packages.scanpy issue has been determined to be a Numba bug and should be fixed by the time of the final release. Given the scope of the regression, I think this should be okay to merge into unstable for now to drop the old LLVM, and so I consider this PR ready now. cc @mweinelt

mweinelt · 2025-09-03T01:02:07Z

Built librosa with and without cuda support on x86_64-linux.

ofborg bot added the ofborg-internal-error Ofborg encountered an error label Aug 26, 2025

emilazy force-pushed the push-puwvturskusq branch from 3e756bd to 13ba588 Compare August 27, 2025 18:33

ofborg bot removed the ofborg-internal-error Ofborg encountered an error label Aug 27, 2025

emilazy added 3 commits September 3, 2025 01:11

librosa: add patch for Numba 0.62.0

120356f

python313Packages.llvmlite: 0.44.0 -> 0.45.0rc1

4fdeae9

python313Packages.numba: 0.61.2 -> 0.62.0rc1

6de6b5a

emilazy force-pushed the push-puwvturskusq branch from 13ba588 to 6de6b5a Compare September 3, 2025 00:13

emilazy changed the title ~~python313Packages.llvmlite: 0.44.0 -> 0.45.0-rc1; python313Packages.numba: 0.61.2 -> 0.62.0-rc1~~ python313Packages.llvmlite: 0.44.0 -> 0.45.0rc1; python313Packages.numba: 0.61.2 -> 0.62.0rc1 Sep 3, 2025

emilazy marked this pull request as ready for review September 3, 2025 00:13

nix-owners bot requested a review from natsukium September 3, 2025 00:15

mweinelt approved these changes Sep 3, 2025

View reviewed changes

mweinelt merged commit 4418b62 into NixOS:master Sep 3, 2025
30 of 33 checks passed

emilazy deleted the push-puwvturskusq branch September 3, 2025 16:02

emilazy mentioned this pull request Sep 4, 2025

llvmPackages_{12,13,14,15,16,17}: drop #440273

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python313Packages.llvmlite: 0.44.0 -> 0.45.0rc1; python313Packages.numba: 0.61.2 -> 0.62.0rc1#437152

python313Packages.llvmlite: 0.44.0 -> 0.45.0rc1; python313Packages.numba: 0.61.2 -> 0.62.0rc1#437152
mweinelt merged 3 commits intoNixOS:masterfrom
emilazy:push-puwvturskusq

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