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Include skeleton source in segmentation layer for neuroglancer links #222

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Merged
fcollman merged 2 commits into from
Apr 30, 2026
Merged

Include skeleton source in segmentation layer for neuroglancer links #222

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Initial plan
Copilot Apr 30, 2026
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Include skeleton source in segmentation layer for neuroglancer links …
Copilot Apr 30, 2026
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25 changes: 19 additions & 6 deletions materializationengine/views.py
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Original file line number Diff line number Diff line change
Expand Up @@ -270,8 +270,8 @@ def make_precomputed_annotation_link(datastack_name, table_name, client):
auth_disabled = get_config_param("AUTH_DISABLED", False)
auth_prefix = "" if auth_disabled else "middleauth+"

seg_layer = client.info.segmentation_source(format_for="neuroglancer")
seg_layer = seg_layer.replace("graphene://https://", "graphene://middleauth+https://")
seg_source = client.info.segmentation_source(format_for="neuroglancer")
seg_source = seg_source.replace("graphene://https://", "graphene://middleauth+https://")

annotation_url = url_for(
"api.Materialization Client2_live_table_precomputed_info",
Expand All @@ -280,8 +280,15 @@ def make_precomputed_annotation_link(datastack_name, table_name, client):
_external=True)
annotation_source = f"precomputed://{auth_prefix}{annotation_url}"
annotation_source = annotation_source[:-5]

seg_sources = [seg_source]
datastack_info = client.info.get_datastack_info()
skeleton_source = datastack_info.get("skeleton_source", None)
if skeleton_source:
seg_sources.append(skeleton_source)

seg_layer = nglui.statebuilder.SegmentationLayerConfig(
source=seg_layer, name="seg"
source=seg_sources, name="seg"
)
img_layer = nglui.statebuilder.ImageLayerConfig(
source=client.info.image_source(), name="img"
Expand Down Expand Up @@ -310,8 +317,8 @@ def make_seg_prop_ng_link(datastack_name, table_name, version, client, is_view=F
auth_disabled = get_config_param("AUTH_DISABLED", False)
auth_prefix = "" if auth_disabled else "middleauth+"

seg_layer = client.info.segmentation_source(format_for="neuroglancer")
seg_layer = seg_layer.replace("graphene://https://", "graphene://middleauth+https://")
seg_source = client.info.segmentation_source(format_for="neuroglancer")
seg_source = seg_source.replace("graphene://https://", "graphene://middleauth+https://")

if is_view:
seginfo_url = url_for(
Expand All @@ -334,8 +341,14 @@ def make_seg_prop_ng_link(datastack_name, table_name, version, client, is_view=F
# strip off the /info
seg_info_source = seg_info_source[:-5]

seg_sources = [seg_source, seg_info_source]
datastack_info = client.info.get_datastack_info()
skeleton_source = datastack_info.get("skeleton_source", None)
if skeleton_source:
seg_sources.append(skeleton_source)

seg_layer = nglui.statebuilder.SegmentationLayerConfig(
source=[seg_layer, seg_info_source], name="seg"
source=seg_sources, name="seg"
)
img_layer = nglui.statebuilder.ImageLayerConfig(
source=client.info.image_source(), name="img"
Expand Down
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