Coverage report: 67%

Files Functions Classes

coverage.py v7.14.2, created at 2026-06-22 16:54 +0000

File class   statements missing excluded   coverage
src/bioimageio/core/__init__.py (no class)   64 0 0   100%
src/bioimageio/core/__main__.py (no class)   11 1 0   91%
src/bioimageio/core/_axis_annotations.py (no class)   6 0 0   100%
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/_common_annotations.py PydanticMappingProxyAnnotation   3 0 0   100%
src/bioimageio/core/_common_annotations.py (no class)   16 0 0   100%
src/bioimageio/core/_description_serializer.py DescriptionSerializer   23 23 0   0%
src/bioimageio/core/_description_serializer.py (no class)   21 21 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/_model_adapter.py ModelAdapter   15 2 1   87%
src/bioimageio/core/_model_adapter.py LocalModelAdapter   50 12 1   76%
src/bioimageio/core/_model_adapter.py RemoteModelAdapter   7 1 1   86%
src/bioimageio/core/_model_adapter.py (no class)   46 0 10   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 IntermediatePrediction   0 0 0   100%
src/bioimageio/core/_prediction_pipeline.py _PredictionPipelineBase   31 5 1   84%
src/bioimageio/core/_prediction_pipeline.py PredictionPipeline   101 18 0   82%
src/bioimageio/core/_prediction_pipeline.py RemotePredictionPipeline   3 3 0   0%
src/bioimageio/core/_prediction_pipeline.py (no class)   91 12 11   87%
src/bioimageio/core/_resource_tests.py DeprecatedKwargs   0 0 0   100%
src/bioimageio/core/_resource_tests.py (no class)   439 187 98   57%
src/bioimageio/core/_sample_serializer.py SampleSerializer   8 6 1   25%
src/bioimageio/core/_sample_serializer.py (no class)   19 0 5   100%
src/bioimageio/core/_settings.py Settings   5 3 0   40%
src/bioimageio/core/_settings.py (no class)   25 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)   68 28 1   59%
src/bioimageio/core/backends/keras_backend.py KerasModelAdapter   38 38 0   0%
src/bioimageio/core/backends/keras_backend.py (no class)   28 28 0   0%
src/bioimageio/core/backends/onnx_backend.py ONNXModelAdapter   67 34 0   49%
src/bioimageio/core/backends/onnx_backend.py (no class)   18 0 0   100%
src/bioimageio/core/backends/pytorch_backend.py TorchNNModuleLike   1 1 3   0%
src/bioimageio/core/backends/pytorch_backend.py PytorchModelAdapter   38 11 2   71%
src/bioimageio/core/backends/pytorch_backend.py (no class)   79 17 16   78%
src/bioimageio/core/backends/tensorflow_backend.py TensorflowModelAdapter   33 33 0   0%
src/bioimageio/core/backends/tensorflow_backend.py KerasModelAdapter   27 27 0   0%
src/bioimageio/core/backends/tensorflow_backend.py (no class)   39 39 0   0%
src/bioimageio/core/backends/torchscript_backend.py TorchscriptModelAdapter   22 5 0   77%
src/bioimageio/core/backends/torchscript_backend.py (no class)   16 0 0   100%
src/bioimageio/core/block.py Block   12 2 0   83%
src/bioimageio/core/block.py (no class)   26 4 0   85%
src/bioimageio/core/block_meta.py LinearAxisTransform   1 0 0   100%
src/bioimageio/core/block_meta.py BlockMeta   13 5 0   62%
src/bioimageio/core/block_meta.py (no class)   111 16 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   119 25 0   79%
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 EmptyCacheCmd   1 1 0   0%
src/bioimageio/core/cli.py ServerCmd   7 7 1   0%
src/bioimageio/core/cli.py Bioimageio   8 0 0   100%
src/bioimageio/core/cli.py (no class)   247 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)   44 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)   239 41 4   83%
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)   121 24 2   80%
src/bioimageio/core/prediction.py (no class)   59 22 0   63%
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 19 1   5%
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 20 3   91%
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/remote_backends/__init__.py (no class)   12 8 3   33%
src/bioimageio/core/remote_backends/gradio/__init__.py (no class)   0 0 0   100%
src/bioimageio/core/remote_backends/gradio/client.py GradioModelAdapter   25 25 0   0%
src/bioimageio/core/remote_backends/gradio/client.py GradioPredictionPipeline   33 33 0   0%
src/bioimageio/core/remote_backends/gradio/client.py (no class)   45 45 0   0%
src/bioimageio/core/remote_backends/gradio/serializer.py _SerializableBlock   4 4 0   0%
src/bioimageio/core/remote_backends/gradio/serializer.py _SerializableSampleBlock   0 0 0   100%
src/bioimageio/core/remote_backends/gradio/serializer.py GradioSampleSerializer   10 10 0   0%
src/bioimageio/core/remote_backends/gradio/serializer.py (no class)   30 30 0   0%
src/bioimageio/core/remote_backends/gradio/server.py (no class)   85 85 0   0%
src/bioimageio/core/sample.py Sample   45 8 0   82%
src/bioimageio/core/sample.py SampleBlockBase   2 1 0   50%
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   5 1 0   80%
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)   89 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)   6 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 92 3   0%
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 11 0   0%
src/bioimageio/core/weight_converters/pytorch_to_torchscript.py (no class)   21 21 0   0%
src/bioimageio/core/weight_converters/torchscript_to_onnx.py (no class)   25 25 0   0%
Total     4962 1660 203   67%

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