Skip to content

Commit

Permalink
Add note about shard shape in README
Browse files Browse the repository at this point in the history
  • Loading branch information
will-moore committed Aug 8, 2024
1 parent 88ad856 commit cf5269c
Showing 1 changed file with 6 additions and 0 deletions.
6 changes: 6 additions & 0 deletions README.md
Original file line number Diff line number Diff line change
Expand Up @@ -97,6 +97,12 @@ ome2024-ngff-challenge --input-bucket=idr --input-endpoint=https://uk1s3.embassy

`9822152.zarr` was created with ome2024-ngff-challenge commit `f17a6de963`.

The chunks and shard shapes are specified to be the same for all resoultion levels. This is required since the smaller resolution levels of
the source image at
https://ome.github.io/ome-ngff-validator/?source=https://uk1s3.embassy.ebi.ac.uk/idr/zarr/v0.4/idr0083A/9822152.zarr
have chunks that correspond to the resolution shape, e,g, `1,1,1,91,141` and this will fail to convert using
a shard shape of `1,1,1,4096,4096`.

Took 34 minutes to run conversion with this command:
```
$ ome2024-ngff-challenge --input-bucket=idr --input-endpoint=https://uk1s3.embassy.ebi.ac.uk --input-anon zarr/v0.4/idr0083A/9822152.zarr 9822152.zarr --output-shards=1,1,1,4096,4096 --output-chunks=1,1,1,1024,1024 --log debug
Expand Down

0 comments on commit cf5269c

Please sign in to comment.