Issues

• Linear surface interpolation keeps the normal constant per grid cell, so layers rendered off the surface step at cell edges

  ScrollPrize/villa#2246 · Filter by author evilaliv3 opened on Oct 22, 2026

• Surfaces regridded by vc_transform_geom sit a fraction of a cell off, so labels moved between scan resolutions land about 7.4 px off

  ScrollPrize/villa#2243 · Filter by author evilaliv3 opened on Oct 22, 2026

• zarr_tasks merge crashes under zarr 3: merge.py calls Group.create_dataset

  ScrollPrize/villa#2240 · Filter by author albertotranquilli-cmyk opened on Oct 22, 2026

• One umbilicus JSON, two different scroll centers: VC3D holds the end points, spiral-fitting extrapolates past them

  ScrollPrize/villa#2239 · Filter by author ChaseHendrick opened on Oct 22, 2026
  1

• Saving a segment in VC3D deletes its subfolders (such as ink-detections/) on Linux and macOS

  ScrollPrize/villa#2222 · Filter by author ChaseHendrick opened on Oct 22, 2026

• Default patch finding takes over two minutes on a large segment

  ScrollPrize/villa#2195 · Filter by author evilaliv3 opened on Oct 21, 2026

• Recompressing a multiscale OME-Zarr group passes its root to workers; --skip-corrupt can zero every chunk

  ScrollPrize/villa#2186 · Filter by author hmoff1711 opened on Oct 21, 2026

• PHerc0139: w036 lies inside w034 across part of the sector missing from w035

  ScrollPrize/villa#2167 · Filter by author ChaseHendrick opened on Oct 20, 2026
  2

• Linux AppImage: CLI tools fail on headless servers (unbundled GL/X11 libs; direct binary invocation crashes)

  ScrollPrize/villa#2153 · Filter by author evelynrook opened on Oct 19, 2026

• surfaces/kaggle labels: 6 hand-checked holes are pockets between merged sheets (cut, not fill); 8 more are fillable

  ScrollPrize/villa#2144 · Filter by author Wittmoon opened on Oct 18, 2026

• vesuvius.zarr_tasks makes pyramid levels one voxel short on some odd sizes, so VC3D won't open the output

  ScrollPrize/villa#2135 · Filter by author ChaseHendrick opened on Oct 18, 2026

• Proposal: Bacterial Apatite Triage - Low-cost XRF screening to guide synchrotron time (Stromatolite Model)

  ScrollPrize/villa#2125 · Filter by author hodlareve opened on Oct 16, 2026

• vc_render_tifxyz: uint8 output is truncated, not rounded (mean -0.5 level)

  ScrollPrize/villa#2119 · Filter by author evilaliv3 opened on Oct 16, 2026

• ink/ label bucket: in 18 of 33 surface volumes, pyramid level 2 holds only the first 17 of 65 depth slices while declaring z-scale 1

  ScrollPrize/villa#2107 · Filter by author EhimenNathan opened on Oct 15, 2026
  1

• metadata.json: z_direction_is_top_to_bottom is null on 13 volumes that the catalog's own transforms register to a scan where it's set

  ScrollPrize/villa#2106 · Filter by author ChaseHendrick opened on Oct 14, 2026

• spiral-fitting README: the PHerc0826 spiral-scroll.json example says CW, but its catalog properties give ACW

  ScrollPrize/villa#2105 · Filter by author ChaseHendrick opened on Oct 14, 2026

• vc_grow_seg_from_seed with x/y/z limits stops growing in every direction once a cell skipped at a limit lies inside used_area

  ScrollPrize/villa#2104 · Filter by author ChaseHendrick opened on Oct 14, 2026

• PHerc1299 m7-L2 surface prediction: level 5 is missing its last z chunk although level 4 has surface there

  ScrollPrize/villa#2092 · Filter by author sfc0324 opened on Oct 14, 2026

• vc_grow_seg_from_seed without normal_grid_path ignores the volume: same surface on the m7 prediction as on an all-zero volume, and no warning

  ScrollPrize/villa#2080 · Filter by author ChaseHendrick opened on Oct 13, 2026

• A downloaded copy of a published surface prediction won't open: "metadata.json missing 'scan' key"

  ScrollPrize/villa#2078 · Filter by author ChaseHendrick opened on Oct 13, 2026

• sheet tracer: area_cm2 in meta.json uses the checkpoint's 9.6 um for any --volume

  ScrollPrize/villa#2072 · Filter by author evilaliv3 opened on Oct 13, 2026

• vc_grow_seg_from_seed: a trace can move off its seed onto the next winding, while meta.json still records the seed

  ScrollPrize/villa#2059 · Filter by author ChaseHendrick opened on Oct 12, 2026

• VC3D caches any HTTP 404 as a missing chunk, so a transient 404 becomes permanent zeros in renders and traces

  ScrollPrize/villa#2058 · Filter by author ChaseHendrick opened on Oct 12, 2026

• VC3D releases are deleted on promotion, so published results cannot be reproduced

  ScrollPrize/villa#2049 · Filter by author rodriguescarson opened on Oct 12, 2026
  6

• 'Copy' default bbox overlap 0.0 leaves seams at the inference block edges

  ScrollPrize/villa#2040 · Filter by author slchicoineau-creator opened on Oct 11, 2026
  3