feat: `mlx` compat by ilan-gold · Pull Request #2334 · scverse/anndata

ilan-gold · 2026-02-06T18:42:36Z

TODOs:

Felt excited after the announcement, wanted to give it a spin

Closes #
Tests added
Release note not necessary because:

codecov · 2026-02-06T18:43:39Z

❌ 3 Tests Failed:

Tests completed	Failed	Passed	Skipped
14	3	11	1

View the top 3 failed test(s) by shortest run time

tests.test_readwrite::test_readwrite_kitchensink[dataset_kwargs0-mlx-zarr]

Stack Traces | 0.004s run time

tmp_path = PosixPath('.../pytest-0/popen-gw0/test_readwrite_kitchensink_dat2')
storage = 'zarr', typ = <function mlx_array_or_idempotent at 0x7fe6ef384e00>
backing_h5ad = PosixPath('.../pytest-0/popen-gw0/test_readwrite_kitchensink_dat2/test.h5ad')
dataset_kwargs = {}

    #x1B[0m#x1B[37m@pytest#x1B[39;49;00m.mark.parametrize(#x1B[33m"#x1B[39;49;00m#x1B[33mstorage#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, [#x1B[33m"#x1B[39;49;00m#x1B[33mh5ad#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, #x1B[33m"#x1B[39;49;00m#x1B[33mzarr#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m])#x1B[90m#x1B[39;49;00m
    #x1B[37m@pytest#x1B[39;49;00m.mark.parametrize(#x1B[33m"#x1B[39;49;00m#x1B[33mtyp#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, ARRAY_TYPES)#x1B[90m#x1B[39;49;00m
    #x1B[94mdef#x1B[39;49;00m#x1B[90m #x1B[39;49;00m#x1B[92mtest_readwrite_kitchensink#x1B[39;49;00m(#x1B[90m#x1B[39;49;00m
        tmp_path: Path,#x1B[90m#x1B[39;49;00m
        storage: Literal[#x1B[33m"#x1B[39;49;00m#x1B[33mh5ad#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, #x1B[33m"#x1B[39;49;00m#x1B[33mzarr#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m],#x1B[90m#x1B[39;49;00m
        typ,#x1B[90m#x1B[39;49;00m
        backing_h5ad: Path,#x1B[90m#x1B[39;49;00m
        dataset_kwargs,#x1B[90m#x1B[39;49;00m
    ) -> #x1B[94mNone#x1B[39;49;00m:#x1B[90m#x1B[39;49;00m
        X = typ(X_list)#x1B[90m#x1B[39;49;00m
        adata_src = ad.AnnData(X, obs=obs_dict, var=var_dict, uns=uns_dict)#x1B[90m#x1B[39;49;00m
        #x1B[94massert#x1B[39;49;00m #x1B[95mnot#x1B[39;49;00m #x1B[96misinstance#x1B[39;49;00m(adata_src.obs[#x1B[33m"#x1B[39;49;00m#x1B[33moanno1#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m].dtype, pd.CategoricalDtype)#x1B[90m#x1B[39;49;00m
>       adata_src.raw = adata_src.copy()#x1B[90m#x1B[39;49;00m
                        ^^^^^^^^^^^^^^^^#x1B[90m#x1B[39;49;00m

#x1B[1m#x1B[31mtests/test_readwrite.py#x1B[0m:182: 
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
#x1B[1m#x1B[.../anndata/_core/anndata.py#x1B[0m:1557: in copy
    #x1B[0m#x1B[94mreturn#x1B[39;49;00m #x1B[96mself#x1B[39;49;00m._mutated_copy()#x1B[90m#x1B[39;49;00m
           ^^^^^^^^^^^^^^^^^^^^#x1B[90m#x1B[39;49;00m
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 

self = AnnData object with n_obs × n_vars = 3 × 2
    obs: 'oanno1', 'oanno1b', 'oanno1c', 'oanno2', 'oanno3', 'oanno4'
    var: 'vanno1', 'vanno2', 'vanno3', 'vanno4'
    uns: 'oanno1_colors', 'uns2', 'uns3', 'uns4', 'uns5'
kwargs = {}
new = {'layers': {}, 'obs':       oanno1 oanno1b oanno1c oanno2  oanno3  oanno4
name1   cat1    cat1    cat1     o1     2.1 ...  cat1    cat1     o2     2.2     1.1
name3   cat2    cat1     NaN     o3     2.3     2.2, 'obsm': {}, 'obsp': {}, ...}
key = 'layers'

    #x1B[0m#x1B[94mdef#x1B[39;49;00m#x1B[90m #x1B[39;49;00m#x1B[92m_mutated_copy#x1B[39;49;00m(#x1B[96mself#x1B[39;49;00m, **kwargs):#x1B[90m#x1B[39;49;00m
    #x1B[90m    #x1B[39;49;00m#x1B[33m"""Creating AnnData with attributes optionally specified via kwargs."""#x1B[39;49;00m#x1B[90m#x1B[39;49;00m
        #x1B[94mif#x1B[39;49;00m #x1B[96mself#x1B[39;49;00m.isbacked #x1B[95mand#x1B[39;49;00m (#x1B[90m#x1B[39;49;00m
            #x1B[33m"#x1B[39;49;00m#x1B[33mX#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m #x1B[95mnot#x1B[39;49;00m #x1B[95min#x1B[39;49;00m kwargs #x1B[95mor#x1B[39;49;00m (#x1B[96mself#x1B[39;49;00m.raw #x1B[95mis#x1B[39;49;00m #x1B[95mnot#x1B[39;49;00m #x1B[94mNone#x1B[39;49;00m #x1B[95mand#x1B[39;49;00m #x1B[33m"#x1B[39;49;00m#x1B[33mraw#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m #x1B[95mnot#x1B[39;49;00m #x1B[95min#x1B[39;49;00m kwargs)#x1B[90m#x1B[39;49;00m
        ):#x1B[90m#x1B[39;49;00m
            msg = (#x1B[90m#x1B[39;49;00m
                #x1B[33m"#x1B[39;49;00m#x1B[33mThis function does not currently handle backed objects #x1B[39;49;00m#x1B[33m"#x1B[39;49;00m#x1B[90m#x1B[39;49;00m
                #x1B[33m"#x1B[39;49;00m#x1B[33minternally, this should be dealt with before.#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m#x1B[90m#x1B[39;49;00m
            )#x1B[90m#x1B[39;49;00m
            #x1B[94mraise#x1B[39;49;00m #x1B[96mNotImplementedError#x1B[39;49;00m(msg)#x1B[90m#x1B[39;49;00m
        new = {}#x1B[90m#x1B[39;49;00m
    #x1B[90m#x1B[39;49;00m
        #x1B[94mfor#x1B[39;49;00m key #x1B[95min#x1B[39;49;00m [#x1B[33m"#x1B[39;49;00m#x1B[33mobs#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, #x1B[33m"#x1B[39;49;00m#x1B[33mvar#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, #x1B[33m"#x1B[39;49;00m#x1B[33mobsm#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, #x1B[33m"#x1B[39;49;00m#x1B[33mvarm#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, #x1B[33m"#x1B[39;49;00m#x1B[33mobsp#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, #x1B[33m"#x1B[39;49;00m#x1B[33mvarp#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, #x1B[33m"#x1B[39;49;00m#x1B[33mlayers#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m]:#x1B[90m#x1B[39;49;00m
            #x1B[94mif#x1B[39;49;00m key #x1B[95min#x1B[39;49;00m kwargs:#x1B[90m#x1B[39;49;00m
                new[key] = kwargs[key]#x1B[90m#x1B[39;49;00m
            #x1B[94melse#x1B[39;49;00m:#x1B[90m#x1B[39;49;00m
                new[key] = #x1B[96mgetattr#x1B[39;49;00m(#x1B[96mself#x1B[39;49;00m, key).copy()#x1B[90m#x1B[39;49;00m
        #x1B[94mif#x1B[39;49;00m #x1B[33m"#x1B[39;49;00m#x1B[33mX#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m #x1B[95min#x1B[39;49;00m kwargs:#x1B[90m#x1B[39;49;00m
            new[#x1B[33m"#x1B[39;49;00m#x1B[33mX#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m] = kwargs[#x1B[33m"#x1B[39;49;00m#x1B[33mX#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m]#x1B[90m#x1B[39;49;00m
        #x1B[94melif#x1B[39;49;00m #x1B[96mself#x1B[39;49;00m._has_X():#x1B[90m#x1B[39;49;00m
>           new[#x1B[33m"#x1B[39;49;00m#x1B[33mX#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m] = #x1B[96mself#x1B[39;49;00m.X.copy()#x1B[90m#x1B[39;49;00m
                       ^^^^^^^^^^^#x1B[90m#x1B[39;49;00m
#x1B[1m#x1B[31mE           AttributeError: 'mlx.core.array' object has no attribute 'copy'#x1B[0m

#x1B[1m#x1B[.../anndata/_core/anndata.py#x1B[0m:1489: AttributeError

tests.test_readwrite::test_readwrite_kitchensink[dataset_kwargs1-mlx-zarr]

Stack Traces | 0.006s run time

tmp_path = PosixPath('.../pytest-0/popen-gw0/test_readwrite_kitchensink_dat0')
storage = 'zarr', typ = <function mlx_array_or_idempotent at 0x7fe6ef384e00>
backing_h5ad = PosixPath('.../pytest-0/popen-gw0/test_readwrite_kitchensink_dat0/test.h5ad')
dataset_kwargs = {'compression': 'gzip'}

    #x1B[0m#x1B[37m@pytest#x1B[39;49;00m.mark.parametrize(#x1B[33m"#x1B[39;49;00m#x1B[33mstorage#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, [#x1B[33m"#x1B[39;49;00m#x1B[33mh5ad#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, #x1B[33m"#x1B[39;49;00m#x1B[33mzarr#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m])#x1B[90m#x1B[39;49;00m
    #x1B[37m@pytest#x1B[39;49;00m.mark.parametrize(#x1B[33m"#x1B[39;49;00m#x1B[33mtyp#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, ARRAY_TYPES)#x1B[90m#x1B[39;49;00m
    #x1B[94mdef#x1B[39;49;00m#x1B[90m #x1B[39;49;00m#x1B[92mtest_readwrite_kitchensink#x1B[39;49;00m(#x1B[90m#x1B[39;49;00m
        tmp_path: Path,#x1B[90m#x1B[39;49;00m
        storage: Literal[#x1B[33m"#x1B[39;49;00m#x1B[33mh5ad#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, #x1B[33m"#x1B[39;49;00m#x1B[33mzarr#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m],#x1B[90m#x1B[39;49;00m
        typ,#x1B[90m#x1B[39;49;00m
        backing_h5ad: Path,#x1B[90m#x1B[39;49;00m
        dataset_kwargs,#x1B[90m#x1B[39;49;00m
    ) -> #x1B[94mNone#x1B[39;49;00m:#x1B[90m#x1B[39;49;00m
        X = typ(X_list)#x1B[90m#x1B[39;49;00m
        adata_src = ad.AnnData(X, obs=obs_dict, var=var_dict, uns=uns_dict)#x1B[90m#x1B[39;49;00m
        #x1B[94massert#x1B[39;49;00m #x1B[95mnot#x1B[39;49;00m #x1B[96misinstance#x1B[39;49;00m(adata_src.obs[#x1B[33m"#x1B[39;49;00m#x1B[33moanno1#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m].dtype, pd.CategoricalDtype)#x1B[90m#x1B[39;49;00m
>       adata_src.raw = adata_src.copy()#x1B[90m#x1B[39;49;00m
                        ^^^^^^^^^^^^^^^^#x1B[90m#x1B[39;49;00m

#x1B[1m#x1B[31mtests/test_readwrite.py#x1B[0m:182: 
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
#x1B[1m#x1B[.../anndata/_core/anndata.py#x1B[0m:1557: in copy
    #x1B[0m#x1B[94mreturn#x1B[39;49;00m #x1B[96mself#x1B[39;49;00m._mutated_copy()#x1B[90m#x1B[39;49;00m
           ^^^^^^^^^^^^^^^^^^^^#x1B[90m#x1B[39;49;00m
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 

self = AnnData object with n_obs × n_vars = 3 × 2
    obs: 'oanno1', 'oanno1b', 'oanno1c', 'oanno2', 'oanno3', 'oanno4'
    var: 'vanno1', 'vanno2', 'vanno3', 'vanno4'
    uns: 'oanno1_colors', 'uns2', 'uns3', 'uns4', 'uns5'
kwargs = {}
new = {'layers': {}, 'obs':       oanno1 oanno1b oanno1c oanno2  oanno3  oanno4
name1   cat1    cat1    cat1     o1     2.1 ...  cat1    cat1     o2     2.2     1.1
name3   cat2    cat1     NaN     o3     2.3     2.2, 'obsm': {}, 'obsp': {}, ...}
key = 'layers'

    #x1B[0m#x1B[94mdef#x1B[39;49;00m#x1B[90m #x1B[39;49;00m#x1B[92m_mutated_copy#x1B[39;49;00m(#x1B[96mself#x1B[39;49;00m, **kwargs):#x1B[90m#x1B[39;49;00m
    #x1B[90m    #x1B[39;49;00m#x1B[33m"""Creating AnnData with attributes optionally specified via kwargs."""#x1B[39;49;00m#x1B[90m#x1B[39;49;00m
        #x1B[94mif#x1B[39;49;00m #x1B[96mself#x1B[39;49;00m.isbacked #x1B[95mand#x1B[39;49;00m (#x1B[90m#x1B[39;49;00m
            #x1B[33m"#x1B[39;49;00m#x1B[33mX#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m #x1B[95mnot#x1B[39;49;00m #x1B[95min#x1B[39;49;00m kwargs #x1B[95mor#x1B[39;49;00m (#x1B[96mself#x1B[39;49;00m.raw #x1B[95mis#x1B[39;49;00m #x1B[95mnot#x1B[39;49;00m #x1B[94mNone#x1B[39;49;00m #x1B[95mand#x1B[39;49;00m #x1B[33m"#x1B[39;49;00m#x1B[33mraw#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m #x1B[95mnot#x1B[39;49;00m #x1B[95min#x1B[39;49;00m kwargs)#x1B[90m#x1B[39;49;00m
        ):#x1B[90m#x1B[39;49;00m
            msg = (#x1B[90m#x1B[39;49;00m
                #x1B[33m"#x1B[39;49;00m#x1B[33mThis function does not currently handle backed objects #x1B[39;49;00m#x1B[33m"#x1B[39;49;00m#x1B[90m#x1B[39;49;00m
                #x1B[33m"#x1B[39;49;00m#x1B[33minternally, this should be dealt with before.#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m#x1B[90m#x1B[39;49;00m
            )#x1B[90m#x1B[39;49;00m
            #x1B[94mraise#x1B[39;49;00m #x1B[96mNotImplementedError#x1B[39;49;00m(msg)#x1B[90m#x1B[39;49;00m
        new = {}#x1B[90m#x1B[39;49;00m
    #x1B[90m#x1B[39;49;00m
        #x1B[94mfor#x1B[39;49;00m key #x1B[95min#x1B[39;49;00m [#x1B[33m"#x1B[39;49;00m#x1B[33mobs#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, #x1B[33m"#x1B[39;49;00m#x1B[33mvar#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, #x1B[33m"#x1B[39;49;00m#x1B[33mobsm#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, #x1B[33m"#x1B[39;49;00m#x1B[33mvarm#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, #x1B[33m"#x1B[39;49;00m#x1B[33mobsp#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, #x1B[33m"#x1B[39;49;00m#x1B[33mvarp#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, #x1B[33m"#x1B[39;49;00m#x1B[33mlayers#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m]:#x1B[90m#x1B[39;49;00m
            #x1B[94mif#x1B[39;49;00m key #x1B[95min#x1B[39;49;00m kwargs:#x1B[90m#x1B[39;49;00m
                new[key] = kwargs[key]#x1B[90m#x1B[39;49;00m
            #x1B[94melse#x1B[39;49;00m:#x1B[90m#x1B[39;49;00m
                new[key] = #x1B[96mgetattr#x1B[39;49;00m(#x1B[96mself#x1B[39;49;00m, key).copy()#x1B[90m#x1B[39;49;00m
        #x1B[94mif#x1B[39;49;00m #x1B[33m"#x1B[39;49;00m#x1B[33mX#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m #x1B[95min#x1B[39;49;00m kwargs:#x1B[90m#x1B[39;49;00m
            new[#x1B[33m"#x1B[39;49;00m#x1B[33mX#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m] = kwargs[#x1B[33m"#x1B[39;49;00m#x1B[33mX#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m]#x1B[90m#x1B[39;49;00m
        #x1B[94melif#x1B[39;49;00m #x1B[96mself#x1B[39;49;00m._has_X():#x1B[90m#x1B[39;49;00m
>           new[#x1B[33m"#x1B[39;49;00m#x1B[33mX#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m] = #x1B[96mself#x1B[39;49;00m.X.copy()#x1B[90m#x1B[39;49;00m
                       ^^^^^^^^^^^#x1B[90m#x1B[39;49;00m
#x1B[1m#x1B[31mE           AttributeError: 'mlx.core.array' object has no attribute 'copy'#x1B[0m

#x1B[1m#x1B[.../anndata/_core/anndata.py#x1B[0m:1489: AttributeError

tests.test_readwrite::test_readwrite_equivalent_h5ad_zarr[mlx]

Stack Traces | 0.045s run time

tmp_path = PosixPath('.../pytest-0/popen-gw1/test_readwrite_equivalent_h5ad1')
typ = <function mlx_array_or_idempotent at 0x7f1ce676ce00>

    #x1B[0m#x1B[37m@pytest#x1B[39;49;00m.mark.parametrize(#x1B[90m#x1B[39;49;00m
        #x1B[33m"#x1B[39;49;00m#x1B[33mtyp#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m,#x1B[90m#x1B[39;49;00m
        [#x1B[90m#x1B[39;49;00m
            pytest.param(np.array, #x1B[96mid#x1B[39;49;00m=#x1B[33m"#x1B[39;49;00m#x1B[33mnp.array#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m),#x1B[90m#x1B[39;49;00m
            pytest.param(csr_matrix, #x1B[96mid#x1B[39;49;00m=#x1B[33m"#x1B[39;49;00m#x1B[33mcsr_matrix#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m),#x1B[90m#x1B[39;49;00m
            pytest.param(csc_matrix, #x1B[96mid#x1B[39;49;00m=#x1B[33m"#x1B[39;49;00m#x1B[33mcsc_matrix#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m),#x1B[90m#x1B[39;49;00m
            pytest.param(csr_array, #x1B[96mid#x1B[39;49;00m=#x1B[33m"#x1B[39;49;00m#x1B[33mcsr_array#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m),#x1B[90m#x1B[39;49;00m
            pytest.param(csc_array, #x1B[96mid#x1B[39;49;00m=#x1B[33m"#x1B[39;49;00m#x1B[33mcsc_array#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m),#x1B[90m#x1B[39;49;00m
            pytest.param(#x1B[90m#x1B[39;49;00m
                jnp_array_or_idempotent, #x1B[96mid#x1B[39;49;00m=#x1B[33m"#x1B[39;49;00m#x1B[33mjax.array#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, marks=pytest.mark.array_api#x1B[90m#x1B[39;49;00m
            ),#x1B[90m#x1B[39;49;00m
            pytest.param(mlx_array_or_idempotent, #x1B[96mid#x1B[39;49;00m=#x1B[33m"#x1B[39;49;00m#x1B[33mmlx#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m, marks=pytest.mark.array_api),#x1B[90m#x1B[39;49;00m
        ],#x1B[90m#x1B[39;49;00m
    )#x1B[90m#x1B[39;49;00m
    #x1B[94mdef#x1B[39;49;00m#x1B[90m #x1B[39;49;00m#x1B[92mtest_readwrite_equivalent_h5ad_zarr#x1B[39;49;00m(tmp_path: Path, typ) -> #x1B[94mNone#x1B[39;49;00m:#x1B[90m#x1B[39;49;00m
        h5ad_pth = tmp_path / #x1B[33m"#x1B[39;49;00m#x1B[33madata.h5ad#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m#x1B[90m#x1B[39;49;00m
        zarr_pth = tmp_path / #x1B[33m"#x1B[39;49;00m#x1B[33madata.zarr#x1B[39;49;00m#x1B[33m"#x1B[39;49;00m#x1B[90m#x1B[39;49;00m
    #x1B[90m#x1B[39;49;00m
        M, N = #x1B[94m100#x1B[39;49;00m, #x1B[94m101#x1B[39;49;00m#x1B[90m#x1B[39;49;00m
        adata = gen_adata((M, N), X_type=typ, **GEN_ADATA_NO_XARRAY_ARGS)#x1B[90m#x1B[39;49;00m
>       adata.raw = adata.copy()#x1B[90m#x1B[39;49;00m
                    ^^^^^^^^^^^^#x1B[90m#x1B[39;49;00m

#x1B[1m#x1B[31mtests/test_readwrite.py#x1B[0m:306: 
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 
#x1B[1m#x1B[.../anndata/_core/anndata.py#x1B[0m:1557: in copy
    #x1B[0m#x1B[94mreturn#x1B[39;49;00m #x1B[96mself#x1B[39;49;00m._mutated_copy()#x1B[90m#x1B[39;49;00m
           ^^^^^^^^^^^^^^^^^^^^#x1B[90m#x1B[39;49;00m
#x1B[1m#x1B[.../anndata/_core/anndata.py#x1B[0m:1485: in _mutated_copy
    #x1B[0mnew[key] = #x1B[96mgetattr#x1B[39;49;00m(#x1B[96mself#x1B[39;49;00m, key).copy()#x1B[90m#x1B[39;49;00m
               ^^^^^^^^^^^^^^^^^^^^^^^^^#x1B[90m#x1B[39;49;00m
_ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ 

self = PairwiseArrays with keys: array, sparse, sparse_array

    #x1B[0m#x1B[94mdef#x1B[39;49;00m#x1B[90m #x1B[39;49;00m#x1B[92mcopy#x1B[39;49;00m(#x1B[96mself#x1B[39;49;00m) -> #x1B[96mdict#x1B[39;49;00m[#x1B[96mstr#x1B[39;49;00m, Value]:#x1B[90m#x1B[39;49;00m
        #x1B[90m# Shallow copy for awkward array since their buffers are immutable#x1B[39;49;00m#x1B[90m#x1B[39;49;00m
        #x1B[94mreturn#x1B[39;49;00m {#x1B[90m#x1B[39;49;00m
>           k: copy(v) #x1B[94mif#x1B[39;49;00m #x1B[96misinstance#x1B[39;49;00m(v, AwkArray) #x1B[94melse#x1B[39;49;00m v.copy() #x1B[94mfor#x1B[39;49;00m k, v #x1B[95min#x1B[39;49;00m #x1B[96mself#x1B[39;49;00m.items()#x1B[90m#x1B[39;49;00m
                                                       ^^^^^^#x1B[90m#x1B[39;49;00m
        }#x1B[90m#x1B[39;49;00m
#x1B[1m#x1B[31mE       AttributeError: 'mlx.core.array' object has no attribute 'copy'#x1B[0m

#x1B[1m#x1B[.../anndata/_core/aligned_mapping.py#x1B[0m:122: AttributeError

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feat: mlx compat

1e705d8

ilan-gold added this to the 0.13.0 milestone Feb 6, 2026

ilan-gold added 3 commits February 6, 2026 19:48

fix: params

fa25537

fix: no need for float with empty

60c418b

fix: dlpack compat

1aa66d7

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feat: `mlx` compat#2334

feat: `mlx` compat#2334
ilan-gold wants to merge 4 commits intomainfrom
ig/mlx_compat

ilan-gold commented Feb 6, 2026 •

edited by flying-sheep

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ilan-gold commented Feb 6, 2026 •

edited by flying-sheep

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