Coverage report: 77%

Files Functions Classes

coverage.py v7.14.0, created at 2026-05-18 12:35 +0000

File class   statements missing excluded   coverage
src / bioimageio / core / __init__.py (no class)   58 0 0   100%
src / bioimageio / core / __main__.py (no class)   11 1 0   91%
src / bioimageio / core / _collection.py IndexItemVersion   0 0 0   100%
src / bioimageio / core / _collection.py IndexItem   0 0 0   100%
src / bioimageio / core / _collection.py Index   0 0 0   100%
src / bioimageio / core / _collection.py IdPartsEntry   0 0 0   100%
src / bioimageio / core / _collection.py CollectionConfig   0 0 0   100%
src / bioimageio / core / _collection.py (no class)   67 67 0   0%
src / bioimageio / core / _magic_tensor_ops.py MagicTensorOpsMixin   51 41 0   20%
src / bioimageio / core / _magic_tensor_ops.py (no class)   107 0 0   100%
src / bioimageio / core / _op_base.py Operator   0 0 2   100%
src / bioimageio / core / _op_base.py SamplewiseOperator   0 0 0   100%
src / bioimageio / core / _op_base.py BlockwiseOperator   0 0 0   100%
src / bioimageio / core / _op_base.py SimpleOperator   11 1 3   91%
src / bioimageio / core / _op_base.py (no class)   22 0 9   100%
src / bioimageio / core / _ops_cellpose.py CellposeFlowDynamics   28 8 0   71%
src / bioimageio / core / _ops_cellpose.py (no class)   29 0 0   100%
src / bioimageio / core / _ops_stardist.py _StardistPostprocessingBase   20 20 0   0%
src / bioimageio / core / _ops_stardist.py StardistPostprocessing2D   7 7 0   0%
src / bioimageio / core / _ops_stardist.py StardistPostprocessing3D   12 12 0   0%
src / bioimageio / core / _ops_stardist.py (no class)   48 0 0   100%
src / bioimageio / core / _prediction_pipeline.py PredictionPipeline   116 23 0   80%
src / bioimageio / core / _prediction_pipeline.py (no class)   55 4 0   93%
src / bioimageio / core / _resource_tests.py DeprecatedKwargs   0 0 0   100%
src / bioimageio / core / _resource_tests.py (no class)   426 109 98   74%
src / bioimageio / core / _settings.py Settings   5 3 0   40%
src / bioimageio / core / _settings.py (no class)   19 0 0   100%
src / bioimageio / core / axis.py AxisDescrLike   0 0 0   100%
src / bioimageio / core / axis.py Axis   16 3 0   81%
src / bioimageio / core / axis.py AxisSize   0 0 0   100%
src / bioimageio / core / axis.py AxisInfo   19 4 1   79%
src / bioimageio / core / axis.py (no class)   47 3 0   94%
src / bioimageio / core / backends / __init__.py (no class)   2 0 0   100%
src / bioimageio / core / backends / _model_adapter.py ModelAdapter   83 30 1   64%
src / bioimageio / core / backends / _model_adapter.py (no class)   27 0 0   100%
src / bioimageio / core / backends / keras_backend.py KerasModelAdapter   38 17 0   55%
src / bioimageio / core / backends / keras_backend.py (no class)   27 3 0   89%
src / bioimageio / core / backends / onnx_backend.py ONNXModelAdapter   56 23 0   59%
src / bioimageio / core / backends / onnx_backend.py (no class)   17 0 0   100%
src / bioimageio / core / backends / pytorch_backend.py TorchNNModuleLike   1 1 3   0%
src / bioimageio / core / backends / pytorch_backend.py PytorchModelAdapter   37 9 2   76%
src / bioimageio / core / backends / pytorch_backend.py (no class)   75 15 16   80%
src / bioimageio / core / backends / tensorflow_backend.py TensorflowModelAdapter   23 23 0   0%
src / bioimageio / core / backends / tensorflow_backend.py KerasModelAdapter   21 5 0   76%
src / bioimageio / core / backends / tensorflow_backend.py (no class)   33 4 0   88%
src / bioimageio / core / backends / torchscript_backend.py TorchscriptModelAdapter   19 1 0   95%
src / bioimageio / core / backends / torchscript_backend.py (no class)   12 0 0   100%
src / bioimageio / core / block.py Block   11 2 0   82%
src / bioimageio / core / block.py (no class)   25 4 0   84%
src / bioimageio / core / block_meta.py LinearAxisTransform   1 0 0   100%
src / bioimageio / core / block_meta.py BlockMeta   19 5 0   74%
src / bioimageio / core / block_meta.py (no class)   106 15 0   86%
src / bioimageio / core / cli.py CmdBase   0 0 0   100%
src / bioimageio / core / cli.py ArgMixin   0 0 0   100%
src / bioimageio / core / cli.py WithSummaryLogging   1 0 0   100%
src / bioimageio / core / cli.py WithSource   7 1 0   86%
src / bioimageio / core / cli.py ValidateFormatCmd   3 3 0   0%
src / bioimageio / core / cli.py TestCmd   1 0 0   100%
src / bioimageio / core / cli.py PackageCmd   4 2 0   50%
src / bioimageio / core / cli.py UpdateCmdBase   30 12 1   60%
src / bioimageio / core / cli.py UpdateFormatCmd   1 0 0   100%
src / bioimageio / core / cli.py UpdateHashesCmd   1 0 0   100%
src / bioimageio / core / cli.py PredictCmd   113 22 0   81%
src / bioimageio / core / cli.py PredictBlockArtifactsCmd   10 10 0   0%
src / bioimageio / core / cli.py AddWeightsCmd   5 1 0   80%
src / bioimageio / core / cli.py EmptyCache   1 1 0   0%
src / bioimageio / core / cli.py Bioimageio   8 0 0   100%
src / bioimageio / core / cli.py (no class)   233 29 0   88%
src / bioimageio / core / commands.py (no class)   31 7 0   77%
src / bioimageio / core / common.py _LeftRight   6 0 1   100%
src / bioimageio / core / common.py CropWidth   0 0 0   100%
src / bioimageio / core / common.py Halo   0 0 0   100%
src / bioimageio / core / common.py OverlapWidth   0 0 0   100%
src / bioimageio / core / common.py PadWidth   0 0 0   100%
src / bioimageio / core / common.py SliceInfo   0 0 0   100%
src / bioimageio / core / common.py (no class)   49 0 0   100%
src / bioimageio / core / dataset.py (no class)   3 3 0   0%
src / bioimageio / core / digest_spec.py IO_SampleBlockMeta   0 0 0   100%
src / bioimageio / core / digest_spec.py (no class)   230 34 4   85%
src / bioimageio / core / io.py _StatEntry   0 0 0   100%
src / bioimageio / core / io.py _StatList   0 0 0   100%
src / bioimageio / core / io.py (no class)   119 30 0   75%
src / bioimageio / core / model_adapters.py (no class)   5 1 0   80%
src / bioimageio / core / prediction.py (no class)   57 22 0   61%
src / bioimageio / core / proc_ops.py AddKnownDatasetStats   3 1 0   67%
src / bioimageio / core / proc_ops.py UpdateStats   5 2 0   60%
src / bioimageio / core / proc_ops.py Binarize   7 6 1   14%
src / bioimageio / core / proc_ops.py Clip   47 15 1   68%
src / bioimageio / core / proc_ops.py EnsureDtype   5 1 0   80%
src / bioimageio / core / proc_ops.py ScaleLinear   20 9 1   55%
src / bioimageio / core / proc_ops.py ScaleMeanVariance   21 6 0   71%
src / bioimageio / core / proc_ops.py ScaleRange   25 3 0   88%
src / bioimageio / core / proc_ops.py Sigmoid   6 1 0   83%
src / bioimageio / core / proc_ops.py Softmax   9 3 0   67%
src / bioimageio / core / proc_ops.py ZeroMeanUnitVariance   14 3 0   79%
src / bioimageio / core / proc_ops.py FixedZeroMeanUnitVariance   16 14 1   12%
src / bioimageio / core / proc_ops.py CustomProcessing   6 4 0   33%
src / bioimageio / core / proc_ops.py (no class)   232 19 3   92%
src / bioimageio / core / proc_setup.py PreAndPostprocessing   0 0 0   100%
src / bioimageio / core / proc_setup.py _ProcessingCallables   0 0 0   100%
src / bioimageio / core / proc_setup.py _ApplyProcs   4 0 0   100%
src / bioimageio / core / proc_setup.py RequiredMeasures   0 0 0   100%
src / bioimageio / core / proc_setup.py RequiredDatasetMeasures   0 0 0   100%
src / bioimageio / core / proc_setup.py RequiredSampleMeasures   0 0 0   100%
src / bioimageio / core / proc_setup.py (no class)   75 2 1   97%
src / bioimageio / core / sample.py Sample   30 7 0   77%
src / bioimageio / core / sample.py SampleBlockBase   2 2 0   0%
src / bioimageio / core / sample.py LinearSampleAxisTransform   0 0 0   100%
src / bioimageio / core / sample.py SampleBlockMeta   11 1 0   91%
src / bioimageio / core / sample.py SampleBlock   2 0 0   100%
src / bioimageio / core / sample.py SampleBlockWithOrigin   0 0 0   100%
src / bioimageio / core / sample.py _ConsolidatedMemberBlocks   7 0 0   100%
src / bioimageio / core / sample.py (no class)   77 0 0   100%
src / bioimageio / core / stat_calculators.py MeanCalculator   30 30 0   0%
src / bioimageio / core / stat_calculators.py MeanVarStdCalculator   50 4 0   92%
src / bioimageio / core / stat_calculators.py SampleQuantilesCalculator   9 0 0   100%
src / bioimageio / core / stat_calculators.py MeanQuantilesCalculator   20 3 0   85%
src / bioimageio / core / stat_calculators.py CrickQuantilesCalculator   37 0 0   100%
src / bioimageio / core / stat_calculators.py NaiveSampleMeasureCalculator   4 4 0   0%
src / bioimageio / core / stat_calculators.py StatsCalculator   37 7 0   81%
src / bioimageio / core / stat_calculators.py (no class)   141 26 1   82%
src / bioimageio / core / stat_measures.py SampleLike   0 0 1   100%
src / bioimageio / core / stat_measures.py MeasureBase   0 0 0   100%
src / bioimageio / core / stat_measures.py SampleMeasureBase   0 0 1   100%
src / bioimageio / core / stat_measures.py DatasetMeasureBase   0 0 0   100%
src / bioimageio / core / stat_measures.py _Mean   0 0 0   100%
src / bioimageio / core / stat_measures.py SampleMean   3 0 0   100%
src / bioimageio / core / stat_measures.py DatasetMean   1 0 0   100%
src / bioimageio / core / stat_measures.py _Std   0 0 0   100%
src / bioimageio / core / stat_measures.py SampleStd   3 0 0   100%
src / bioimageio / core / stat_measures.py DatasetStd   1 0 0   100%
src / bioimageio / core / stat_measures.py _Var   0 0 0   100%
src / bioimageio / core / stat_measures.py SampleVar   3 0 0   100%
src / bioimageio / core / stat_measures.py DatasetVar   1 0 0   100%
src / bioimageio / core / stat_measures.py _Quantile   2 0 0   100%
src / bioimageio / core / stat_measures.py SampleQuantile   4 0 0   100%
src / bioimageio / core / stat_measures.py DatasetQuantile   2 0 0   100%
src / bioimageio / core / stat_measures.py (no class)   77 4 5   95%
src / bioimageio / core / tensor.py Tensor   155 34 2   78%
src / bioimageio / core / tensor.py (no class)   102 10 3   90%
src / bioimageio / core / utils / __init__.py (no class)   1 0 0   100%
src / bioimageio / core / utils / _compare.py (no class)   19 3 1   84%
src / bioimageio / core / utils / _type_guards.py (no class)   4 0 0   100%
src / bioimageio / core / weight_converters / __init__.py (no class)   2 0 0   100%
src / bioimageio / core / weight_converters / _add_weights.py (no class)   80 27 0   66%
src / bioimageio / core / weight_converters / _utils_torch_onnx.py (no class)   92 26 3   72%
src / bioimageio / core / weight_converters / keras_to_tensorflow.py (no class)   72 72 0   0%
src / bioimageio / core / weight_converters / pytorch_to_onnx.py (no class)   11 1 0   91%
src / bioimageio / core / weight_converters / pytorch_to_torchscript.py (no class)   21 1 0   95%
src / bioimageio / core / weight_converters / torchscript_to_onnx.py (no class)   19 1 0   95%
Total     4352 993 166   77%

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