Add `dataset_id` prefix to tables in Visium HD

[LucaMarconato]

Thanks for the clarification. That makes sense.

One small detail. Should not the elements in Tables be renamed as well? Right now they are not (see above). If I try to concatenate two visium_hd SpatialData objects I get a warning about identical names and they are given unique names which are not ideal because do not follow the original patterns, making it harder to know which ones came from where.

>> sdata1
SpatialData object
├── Images
│     ├── 'HM_hires_image': DataArray[cyx] (3, 5057, 6000)
│     └── 'HM_lowres_image': DataArray[cyx] (3, 506, 600)
├── Shapes
│     ├── 'HM_square_002um': GeoDataFrame shape: (2942291, 1) (2D shapes)
│     ├── 'HM_square_008um': GeoDataFrame shape: (187571, 1) (2D shapes)
│     └── 'HM_square_016um': GeoDataFrame shape: (48206, 1) (2D shapes)
└── Tables
      ├── 'square_002um': AnnData (2942291, 18085)
      ├── 'square_008um': AnnData (187571, 18085)
      └── 'square_016um': AnnData (48206, 18085)
with coordinate systems:
    ▸ 'downscaled_hires', with elements:
        HM_hires_image (Images), HM_square_002um (Shapes), HM_square_008um (Shapes), HM_square_016um (Shapes)
    ▸ 'downscaled_lowres', with elements:
        HM_lowres_image (Images), HM_square_002um (Shapes), HM_square_008um (Shapes), HM_square_016um (Shapes)
    ▸ 'global', with elements:
        HM_hires_image (Images), HM_lowres_image (Images), HM_square_002um (Shapes), HM_square_008um (Shapes), HM_square_016um (Shapes)
>> sdata2
SpatialData object
├── Images
│     ├── 'RS_hires_image': DataArray[cyx] (3, 6000, 5163)
│     └── 'RS_lowres_image': DataArray[cyx] (3, 600, 517)
├── Shapes
│     ├── 'RS_square_002um': GeoDataFrame shape: (2493008, 1) (2D shapes)
│     ├── 'RS_square_008um': GeoDataFrame shape: (160049, 1) (2D shapes)
│     └── 'RS_square_016um': GeoDataFrame shape: (41439, 1) (2D shapes)
└── Tables
      ├── 'square_002um': AnnData (2493008, 18085)
      ├── 'square_008um': AnnData (160049, 18085)
      └── 'square_016um': AnnData (41439, 18085)
with coordinate systems:
    ▸ 'downscaled_hires', with elements:
        RS_hires_image (Images), RS_square_002um (Shapes), RS_square_008um (Shapes), RS_square_016um (Shapes)
    ▸ 'downscaled_lowres', with elements:
        RS_lowres_image (Images), RS_square_002um (Shapes), RS_square_008um (Shapes), RS_square_016um (Shapes)
    ▸ 'global', with elements:
        RS_hires_image (Images), RS_lowres_image (Images), RS_square_002um (Shapes), RS_square_008um (Shapes), RS_square_016um (Shapes)
>> sd.concatenate([sdata1, sdata2])
<stdin>:1: UserWarning: Duplicate table names found. Tables will be added with integer suffix. Set `concatenate_tables` to `True` if concatenation is wished for instead.
SpatialData object
├── Images
│     ├── 'HM_hires_image': DataArray[cyx] (3, 5057, 6000)
│     ├── 'HM_lowres_image': DataArray[cyx] (3, 506, 600)
│     ├── 'RS_hires_image': DataArray[cyx] (3, 6000, 5163)
│     └── 'RS_lowres_image': DataArray[cyx] (3, 600, 517)
├── Shapes
│     ├── 'HM_square_002um': GeoDataFrame shape: (2942291, 1) (2D shapes)
│     ├── 'HM_square_008um': GeoDataFrame shape: (187571, 1) (2D shapes)
│     ├── 'HM_square_016um': GeoDataFrame shape: (48206, 1) (2D shapes)
│     ├── 'RS_square_002um': GeoDataFrame shape: (2493008, 1) (2D shapes)
│     ├── 'RS_square_008um': GeoDataFrame shape: (160049, 1) (2D shapes)
│     └── 'RS_square_016um': GeoDataFrame shape: (41439, 1) (2D shapes)
└── Tables
      ├── 'square_002um_0': AnnData (2942291, 18085)
      ├── 'square_002um_1': AnnData (2493008, 18085)
      ├── 'square_008um_0': AnnData (187571, 18085)
      ├── 'square_008um_1': AnnData (160049, 18085)
      ├── 'square_016um_0': AnnData (48206, 18085)
      └── 'square_016um_1': AnnData (41439, 18085)
with coordinate systems:
    ▸ 'downscaled_hires', with elements:
        HM_hires_image (Images), RS_hires_image (Images), HM_square_002um (Shapes), HM_square_008um (Shapes), HM_square_016um (Shapes), RS_square_002um (Shapes), RS_square_008um (Shapes), RS_square_016um (Shapes)
    ▸ 'downscaled_lowres', with elements:
        HM_lowres_image (Images), RS_lowres_image (Images), HM_square_002um (Shapes), HM_square_008um (Shapes), HM_square_016um (Shapes), RS_square_002um (Shapes), RS_square_008um (Shapes), RS_square_016um (Shapes)
    ▸ 'global', with elements:
        HM_hires_image (Images), HM_lowres_image (Images), RS_hires_image (Images), RS_lowres_image (Images), HM_square_002um (Shapes), HM_square_008um (Shapes), HM_square_016um (Shapes), RS_square_002um (Shapes), RS_square_008um (Shapes), RS_square_016um (Shapes)

Originally posted by @ddiez in #212