Coverage report: 77%

Files Functions Classes

coverage.py v7.14.1, created at 2026-06-01 08:51 +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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