Default attr names

[yfukai]

The default attr names are sometimes hardcoded in the package. I think it's better to decide:

• Whether we make those attr names changeable by the users.
• If we make them changeable, where those are set.
• If not, we should let the users specify the attr name conversion in from_geff etc.

[yfukai]

I'd like to hear your opinion on this if any! @JoOkuma @TeunHuijben

[JoOkuma]

Hi @yfukai,

For them to be changeable is one of the original goals, that's why there's tracksdata.constants.DEFAULT_ATTR_KEY.

I noticed T is not working because sometimes it's indexed by the string "t" directly. This needs to be fixed.

But this works:

    td.DEFAULT_ATTR_KEYS.MASK = "better_mask"
    graph = td.graph.InMemoryGraph()
    nodes_operator = td.nodes.RegionPropsNodes()
    nodes_operator.add_nodes(graph, labels=labels)
    print(graph.node_attrs())

returning

shape: (8_639, 6)
┌─────────┬─────┬───────────────────────────────┬───────────────────┬────────────┬────────────┐
│ node_id ┆ t   ┆ better_mask                   ┆ bbox              ┆ y          ┆ x          │
│ ---     ┆ --- ┆ ---                           ┆ ---               ┆ ---        ┆ ---        │
│ i64     ┆ i64 ┆ object                        ┆ array[i64, 4]     ┆ f64        ┆ f64        │
╞═════════╪═════╪═══════════════════════════════╪═══════════════════╪════════════╪════════════╡
│ 0       ┆ 0   ┆ Mask(bbox=[169:193, 454:476]) ┆ [169, 454, … 476] ┆ 181.897172 ┆ 463.048843 │
│ 1       ┆ 0   ┆ Mask(bbox=[30:37, 166:173])   ┆ [30, 166, … 173]  ┆ 33.0       ┆ 169.0      │
│ 2       ┆ 0   ┆ Mask(bbox=[12:32, 186:198])   ┆ [12, 186, … 198]  ┆ 21.558685  ┆ 191.629108 │
│ 3       ┆ 0   ┆ Mask(bbox=[36:53, 242:259])   ┆ [36, 242, … 259]  ┆ 44.0       ┆ 250.0      │
│ 4       ┆ 0   ┆ Mask(bbox=[8:34, 669:693])    ┆ [8, 669, … 693]   ┆ 20.933194  ┆ 681.137787 │
│ …       ┆ …   ┆ …                             ┆ …                 ┆ …          ┆ …          │
│ 8634    ┆ 91  ┆ Mask(bbox=[578:589, 283:294]) ┆ [578, 283, … 294] ┆ 583.0      ┆ 288.0      │
│ 8635    ┆ 91  ┆ Mask(bbox=[451:460, 127:136]) ┆ [451, 127, … 136] ┆ 455.0      ┆ 131.0      │
│ 8636    ┆ 91  ┆ Mask(bbox=[390:403, 143:156]) ┆ [390, 143, … 156] ┆ 396.0      ┆ 149.0      │
│ 8637    ┆ 91  ┆ Mask(bbox=[0:10, 5:24])       ┆ [0, 5, … 24]      ┆ 4.088235   ┆ 14.0       │
│ 8638    ┆ 91  ┆ Mask(bbox=[439:448, 399:408]) ┆ [439, 399, … 408] ┆ 443.0      ┆ 403.0      │
└─────────┴─────┴───────────────────────────────┴───────────────────┴────────────┴────────────┘