@vitessce/constants-internal 3.4.9 → 3.4.10

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (16) hide show
  1. package/dist/index.js +43 -14
  2. package/dist-tsc/constant-relationships.d.ts +1 -0
  3. package/dist-tsc/constant-relationships.d.ts.map +1 -1
  4. package/dist-tsc/constant-relationships.js +11 -0
  5. package/dist-tsc/constants.d.ts +16 -0
  6. package/dist-tsc/constants.d.ts.map +1 -1
  7. package/dist-tsc/constants.js +17 -0
  8. package/dist-tsc/index.d.ts +1 -1
  9. package/dist-tsc/index.d.ts.map +1 -1
  10. package/dist-tsc/index.js +1 -1
  11. package/dist-tsc/version.json +3 -3
  12. package/package.json +1 -1
  13. package/src/constant-relationships.ts +11 -0
  14. package/src/constants.ts +18 -0
  15. package/src/index.ts +1 -1
  16. package/src/version.json +3 -3
package/dist/index.js CHANGED
@@ -37,6 +37,7 @@ const FileType = {
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  // Joint file types
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  ANNDATA_ZARR: "anndata.zarr",
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  ANNDATA_ZARR_ZIP: "anndata.zarr.zip",
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+ ANNDATA_H5AD: "anndata.h5ad",
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  SPATIALDATA_ZARR: "spatialdata.zarr",
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  // Atomic file types
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  OBS_EMBEDDING_CSV: "obsEmbedding.csv",
@@ -77,6 +78,18 @@ const FileType = {
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  OBS_LABELS_ANNDATA_ZARR_ZIP: "obsLabels.anndata.zarr.zip",
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  FEATURE_LABELS_ANNDATA_ZARR_ZIP: "featureLabels.anndata.zarr.zip",
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  SAMPLE_EDGES_ANNDATA_ZARR_ZIP: "sampleEdges.anndata.zarr.zip",
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+ // AnnData - h5ad via reference spec
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+ OBS_FEATURE_MATRIX_ANNDATA_H5AD: "obsFeatureMatrix.anndata.h5ad",
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+ OBS_FEATURE_COLUMNS_ANNDATA_H5AD: "obsFeatureColumns.anndata.h5ad",
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+ OBS_SETS_ANNDATA_H5AD: "obsSets.anndata.h5ad",
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+ OBS_EMBEDDING_ANNDATA_H5AD: "obsEmbedding.anndata.h5ad",
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+ OBS_SPOTS_ANNDATA_H5AD: "obsSpots.anndata.h5ad",
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+ OBS_POINTS_ANNDATA_H5AD: "obsPoints.anndata.h5ad",
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+ OBS_LOCATIONS_ANNDATA_H5AD: "obsLocations.anndata.h5ad",
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+ OBS_SEGMENTATIONS_ANNDATA_H5AD: "obsSegmentations.anndata.h5ad",
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+ OBS_LABELS_ANNDATA_H5AD: "obsLabels.anndata.h5ad",
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+ FEATURE_LABELS_ANNDATA_H5AD: "featureLabels.anndata.h5ad",
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+ SAMPLE_EDGES_ANNDATA_H5AD: "sampleEdges.anndata.h5ad",
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  // SpatialData
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  IMAGE_SPATIALDATA_ZARR: "image.spatialdata.zarr",
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  LABELS_SPATIALDATA_ZARR: "labels.spatialdata.zarr",
@@ -266,6 +279,10 @@ const STATUS = {
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  SUCCESS: "success",
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  ERROR: "error"
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  };
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+ const DescriptionType = {
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+ PLAIN: "plain",
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+ MARKDOWN: "markdown"
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+ };
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  const FILE_TYPE_DATA_TYPE_MAPPING = {
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  // For new file types
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  [FileType.OBS_EMBEDDING_CSV]: DataType.OBS_EMBEDDING,
@@ -376,37 +393,48 @@ const DATA_TYPE_COORDINATION_VALUE_USAGE = {
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  };
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  const ALT_ZARR_STORE_TYPES = {
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  [FileType.OBS_FEATURE_MATRIX_ANNDATA_ZARR]: {
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- zip: FileType.OBS_FEATURE_MATRIX_ANNDATA_ZARR_ZIP
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+ zip: FileType.OBS_FEATURE_MATRIX_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.OBS_FEATURE_MATRIX_ANNDATA_H5AD
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  },
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  [FileType.OBS_FEATURE_COLUMNS_ANNDATA_ZARR]: {
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- zip: FileType.OBS_FEATURE_COLUMNS_ANNDATA_ZARR_ZIP
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+ zip: FileType.OBS_FEATURE_COLUMNS_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.OBS_FEATURE_COLUMNS_ANNDATA_H5AD
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  },
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  [FileType.OBS_SETS_ANNDATA_ZARR]: {
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- zip: FileType.OBS_SETS_ANNDATA_ZARR_ZIP
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+ zip: FileType.OBS_SETS_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.OBS_SETS_ANNDATA_H5AD
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  },
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  [FileType.OBS_EMBEDDING_ANNDATA_ZARR]: {
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- zip: FileType.OBS_EMBEDDING_ANNDATA_ZARR_ZIP
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+ zip: FileType.OBS_EMBEDDING_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.OBS_EMBEDDING_ANNDATA_H5AD
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  },
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  [FileType.OBS_SPOTS_ANNDATA_ZARR]: {
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- zip: FileType.OBS_SPOTS_ANNDATA_ZARR_ZIP
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+ zip: FileType.OBS_SPOTS_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.OBS_SPOTS_ANNDATA_H5AD
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  },
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  [FileType.OBS_POINTS_ANNDATA_ZARR]: {
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- zip: FileType.OBS_POINTS_ANNDATA_ZARR_ZIP
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+ zip: FileType.OBS_POINTS_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.OBS_POINTS_ANNDATA_H5AD
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  },
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  [FileType.OBS_LOCATIONS_ANNDATA_ZARR]: {
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- zip: FileType.OBS_LOCATIONS_ANNDATA_ZARR_ZIP
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+ zip: FileType.OBS_LOCATIONS_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.OBS_LOCATIONS_ANNDATA_H5AD
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  },
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  [FileType.OBS_SEGMENTATIONS_ANNDATA_ZARR]: {
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- zip: FileType.OBS_SEGMENTATIONS_ANNDATA_ZARR_ZIP
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+ zip: FileType.OBS_SEGMENTATIONS_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.OBS_SEGMENTATIONS_ANNDATA_H5AD
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  },
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  [FileType.OBS_LABELS_ANNDATA_ZARR]: {
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- zip: FileType.OBS_LABELS_ANNDATA_ZARR_ZIP
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+ zip: FileType.OBS_LABELS_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.OBS_LABELS_ANNDATA_H5AD
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  },
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  [FileType.FEATURE_LABELS_ANNDATA_ZARR]: {
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- zip: FileType.FEATURE_LABELS_ANNDATA_ZARR_ZIP
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+ zip: FileType.FEATURE_LABELS_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.FEATURE_LABELS_ANNDATA_H5AD
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  },
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  [FileType.SAMPLE_EDGES_ANNDATA_ZARR]: {
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- zip: FileType.SAMPLE_EDGES_ANNDATA_ZARR_ZIP
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+ zip: FileType.SAMPLE_EDGES_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.SAMPLE_EDGES_ANNDATA_H5AD
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  }
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  };
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  const AUTO_INDEPENDENT_COORDINATION_TYPES = [
@@ -842,10 +870,10 @@ const COMPONENT_COORDINATION_TYPES = {
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  ]
843
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  };
844
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  const note = "This file is autogenerated by .changeset/post-changelog.mjs.";
845
- const version = "3.4.9";
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- const date = "2024-07-26";
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+ const version = "3.4.10";
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+ const date = "2024-09-01";
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  const branch = "changeset-release/main";
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- const hash = "9582ddcf";
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+ const hash = "26b1c2d6";
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  const version$1 = {
850
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  note,
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  version,
@@ -860,6 +888,7 @@ export {
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  CoordinationType,
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  DATA_TYPE_COORDINATION_VALUE_USAGE,
862
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  DataType,
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+ DescriptionType,
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  FILE_TYPE_DATA_TYPE_MAPPING,
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  FileType,
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  version$1 as META_VERSION,
package/dist-tsc/constant-relationships.d.ts CHANGED
@@ -17,6 +17,7 @@ export declare const DATA_TYPE_COORDINATION_VALUE_USAGE: {
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  export declare const ALT_ZARR_STORE_TYPES: {
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  [x: string]: {
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  zip: string;
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+ h5ad: string;
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  };
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  };
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  //# sourceMappingURL=constant-relationships.d.ts.map
package/dist-tsc/constant-relationships.d.ts.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"constant-relationships.d.ts","sourceRoot":"","sources":["../src/constant-relationships.ts"],"names":[],"mappings":"AAEA;;;;GAIG;AACH,eAAO,MAAM,2BAA2B;;CA+DvC,CAAC;AAEF;;;;GAIG;AACH,eAAO,MAAM,kCAAkC;;CA6C9C,CAAC;AAKF,eAAO,MAAM,oBAAoB;;;;CAkChC,CAAC"}
1
+ {"version":3,"file":"constant-relationships.d.ts","sourceRoot":"","sources":["../src/constant-relationships.ts"],"names":[],"mappings":"AAEA;;;;GAIG;AACH,eAAO,MAAM,2BAA2B;;CA+DvC,CAAC;AAEF;;;;GAIG;AACH,eAAO,MAAM,kCAAkC;;CA6C9C,CAAC;AAKF,eAAO,MAAM,oBAAoB;;;;;CA6ChC,CAAC"}
package/dist-tsc/constant-relationships.js CHANGED
@@ -123,35 +123,46 @@ export const DATA_TYPE_COORDINATION_VALUE_USAGE = {
123
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  export const ALT_ZARR_STORE_TYPES = {
124
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  [FileType.OBS_FEATURE_MATRIX_ANNDATA_ZARR]: {
125
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  zip: FileType.OBS_FEATURE_MATRIX_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.OBS_FEATURE_MATRIX_ANNDATA_H5AD,
126
127
  },
127
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  [FileType.OBS_FEATURE_COLUMNS_ANNDATA_ZARR]: {
128
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  zip: FileType.OBS_FEATURE_COLUMNS_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.OBS_FEATURE_COLUMNS_ANNDATA_H5AD,
129
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  },
130
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  [FileType.OBS_SETS_ANNDATA_ZARR]: {
131
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  zip: FileType.OBS_SETS_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.OBS_SETS_ANNDATA_H5AD,
132
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  },
133
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  [FileType.OBS_EMBEDDING_ANNDATA_ZARR]: {
134
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  zip: FileType.OBS_EMBEDDING_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.OBS_EMBEDDING_ANNDATA_H5AD,
135
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  },
136
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  [FileType.OBS_SPOTS_ANNDATA_ZARR]: {
137
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  zip: FileType.OBS_SPOTS_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.OBS_SPOTS_ANNDATA_H5AD,
138
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  },
139
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  [FileType.OBS_POINTS_ANNDATA_ZARR]: {
140
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  zip: FileType.OBS_POINTS_ANNDATA_ZARR_ZIP,
146
+ h5ad: FileType.OBS_POINTS_ANNDATA_H5AD,
141
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  },
142
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  [FileType.OBS_LOCATIONS_ANNDATA_ZARR]: {
143
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  zip: FileType.OBS_LOCATIONS_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.OBS_LOCATIONS_ANNDATA_H5AD,
144
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  },
145
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  [FileType.OBS_SEGMENTATIONS_ANNDATA_ZARR]: {
146
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  zip: FileType.OBS_SEGMENTATIONS_ANNDATA_ZARR_ZIP,
154
+ h5ad: FileType.OBS_SEGMENTATIONS_ANNDATA_H5AD,
147
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  },
148
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  [FileType.OBS_LABELS_ANNDATA_ZARR]: {
149
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  zip: FileType.OBS_LABELS_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.OBS_LABELS_ANNDATA_H5AD,
150
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  },
151
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  [FileType.FEATURE_LABELS_ANNDATA_ZARR]: {
152
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  zip: FileType.FEATURE_LABELS_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.FEATURE_LABELS_ANNDATA_H5AD,
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  },
154
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  [FileType.SAMPLE_EDGES_ANNDATA_ZARR]: {
155
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  zip: FileType.SAMPLE_EDGES_ANNDATA_ZARR_ZIP,
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+ h5ad: FileType.SAMPLE_EDGES_ANNDATA_H5AD,
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  },
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  };
package/dist-tsc/constants.d.ts CHANGED
@@ -48,6 +48,7 @@ export declare const AsyncFunctionType: {
48
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  export declare const FileType: {
49
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  ANNDATA_ZARR: string;
50
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  ANNDATA_ZARR_ZIP: string;
51
+ ANNDATA_H5AD: string;
51
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  SPATIALDATA_ZARR: string;
52
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  OBS_EMBEDDING_CSV: string;
53
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  OBS_SPOTS_CSV: string;
@@ -84,6 +85,17 @@ export declare const FileType: {
84
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  OBS_LABELS_ANNDATA_ZARR_ZIP: string;
85
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  FEATURE_LABELS_ANNDATA_ZARR_ZIP: string;
86
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  SAMPLE_EDGES_ANNDATA_ZARR_ZIP: string;
88
+ OBS_FEATURE_MATRIX_ANNDATA_H5AD: string;
89
+ OBS_FEATURE_COLUMNS_ANNDATA_H5AD: string;
90
+ OBS_SETS_ANNDATA_H5AD: string;
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+ OBS_EMBEDDING_ANNDATA_H5AD: string;
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+ OBS_SPOTS_ANNDATA_H5AD: string;
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+ OBS_POINTS_ANNDATA_H5AD: string;
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+ OBS_LOCATIONS_ANNDATA_H5AD: string;
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+ OBS_SEGMENTATIONS_ANNDATA_H5AD: string;
96
+ OBS_LABELS_ANNDATA_H5AD: string;
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+ FEATURE_LABELS_ANNDATA_H5AD: string;
98
+ SAMPLE_EDGES_ANNDATA_H5AD: string;
87
99
  IMAGE_SPATIALDATA_ZARR: string;
88
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  LABELS_SPATIALDATA_ZARR: string;
89
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  SHAPES_SPATIALDATA_ZARR: string;
@@ -249,4 +261,8 @@ export declare const STATUS: {
249
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  SUCCESS: string;
250
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  ERROR: string;
251
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  };
264
+ export declare const DescriptionType: {
265
+ PLAIN: string;
266
+ MARKDOWN: string;
267
+ };
252
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  //# sourceMappingURL=constants.d.ts.map
package/dist-tsc/constants.d.ts.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"constants.d.ts","sourceRoot":"","sources":["../src/constants.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AACH,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;;;;CAkBpB,CAAC;AAEF,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;CAepB,CAAC;AAEF,eAAO,MAAM,iBAAiB;;;;;;CAM7B,CAAC;AAGF,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CAwGpB,CAAC;AAEF;;;GAGG;AACH,eAAO,MAAM,gBAAgB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CAqH5B,CAAC;AAEF,eAAO,MAAM,MAAM;;;;CAIlB,CAAC"}
1
+ {"version":3,"file":"constants.d.ts","sourceRoot":"","sources":["../src/constants.ts"],"names":[],"mappings":"AAAA;;;;GAIG;AACH,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;;;;CAkBpB,CAAC;AAEF,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;CAepB,CAAC;AAEF,eAAO,MAAM,iBAAiB;;;;;;CAM7B,CAAC;AAGF,eAAO,MAAM,QAAQ;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CAqHpB,CAAC;AAEF;;;GAGG;AACH,eAAO,MAAM,gBAAgB;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CAqH5B,CAAC;AAEF,eAAO,MAAM,MAAM;;;;CAIlB,CAAC;AAEF,eAAO,MAAM,eAAe;;;CAG3B,CAAC"}
package/dist-tsc/constants.js CHANGED
@@ -49,6 +49,7 @@ export const FileType = {
49
49
  // Joint file types
50
50
  ANNDATA_ZARR: 'anndata.zarr',
51
51
  ANNDATA_ZARR_ZIP: 'anndata.zarr.zip',
52
+ ANNDATA_H5AD: 'anndata.h5ad',
52
53
  SPATIALDATA_ZARR: 'spatialdata.zarr',
53
54
  // Atomic file types
54
55
  OBS_EMBEDDING_CSV: 'obsEmbedding.csv',
@@ -89,6 +90,18 @@ export const FileType = {
89
90
  OBS_LABELS_ANNDATA_ZARR_ZIP: 'obsLabels.anndata.zarr.zip',
90
91
  FEATURE_LABELS_ANNDATA_ZARR_ZIP: 'featureLabels.anndata.zarr.zip',
91
92
  SAMPLE_EDGES_ANNDATA_ZARR_ZIP: 'sampleEdges.anndata.zarr.zip',
93
+ // AnnData - h5ad via reference spec
94
+ OBS_FEATURE_MATRIX_ANNDATA_H5AD: 'obsFeatureMatrix.anndata.h5ad',
95
+ OBS_FEATURE_COLUMNS_ANNDATA_H5AD: 'obsFeatureColumns.anndata.h5ad',
96
+ OBS_SETS_ANNDATA_H5AD: 'obsSets.anndata.h5ad',
97
+ OBS_EMBEDDING_ANNDATA_H5AD: 'obsEmbedding.anndata.h5ad',
98
+ OBS_SPOTS_ANNDATA_H5AD: 'obsSpots.anndata.h5ad',
99
+ OBS_POINTS_ANNDATA_H5AD: 'obsPoints.anndata.h5ad',
100
+ OBS_LOCATIONS_ANNDATA_H5AD: 'obsLocations.anndata.h5ad',
101
+ OBS_SEGMENTATIONS_ANNDATA_H5AD: 'obsSegmentations.anndata.h5ad',
102
+ OBS_LABELS_ANNDATA_H5AD: 'obsLabels.anndata.h5ad',
103
+ FEATURE_LABELS_ANNDATA_H5AD: 'featureLabels.anndata.h5ad',
104
+ SAMPLE_EDGES_ANNDATA_H5AD: 'sampleEdges.anndata.h5ad',
92
105
  // SpatialData
93
106
  IMAGE_SPATIALDATA_ZARR: 'image.spatialdata.zarr',
94
107
  LABELS_SPATIALDATA_ZARR: 'labels.spatialdata.zarr',
@@ -277,3 +290,7 @@ export const STATUS = {
277
290
  SUCCESS: 'success',
278
291
  ERROR: 'error',
279
292
  };
293
+ export const DescriptionType = {
294
+ PLAIN: 'plain',
295
+ MARKDOWN: 'markdown',
296
+ };
package/dist-tsc/index.d.ts CHANGED
@@ -1,4 +1,4 @@
1
- export { ViewType, DataType, FileType, CoordinationType, STATUS, } from './constants.js';
1
+ export { ViewType, DataType, FileType, CoordinationType, STATUS, DescriptionType, } from './constants.js';
2
2
  export { FILE_TYPE_DATA_TYPE_MAPPING, DATA_TYPE_COORDINATION_VALUE_USAGE, ALT_ZARR_STORE_TYPES, } from './constant-relationships.js';
3
3
  export { AUTO_INDEPENDENT_COORDINATION_TYPES, COMPONENT_COORDINATION_TYPES } from './coordination.js';
4
4
  export { default as META_VERSION } from './version.json';
package/dist-tsc/index.d.ts.map CHANGED
@@ -1 +1 @@
1
- {"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EACL,QAAQ,EAAE,QAAQ,EAAE,QAAQ,EAAE,gBAAgB,EAAE,MAAM,GACvD,MAAM,gBAAgB,CAAC;AACxB,OAAO,EACL,2BAA2B,EAC3B,kCAAkC,EAClC,oBAAoB,GACrB,MAAM,6BAA6B,CAAC;AACrC,OAAO,EAAE,mCAAmC,EAAE,4BAA4B,EAAE,MAAM,mBAAmB,CAAC;AACtG,OAAO,EAAE,OAAO,IAAI,YAAY,EAAE,MAAM,gBAAgB,CAAC"}
1
+ {"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../src/index.ts"],"names":[],"mappings":"AAAA,OAAO,EACL,QAAQ,EAAE,QAAQ,EAAE,QAAQ,EAAE,gBAAgB,EAAE,MAAM,EAAE,eAAe,GACxE,MAAM,gBAAgB,CAAC;AACxB,OAAO,EACL,2BAA2B,EAC3B,kCAAkC,EAClC,oBAAoB,GACrB,MAAM,6BAA6B,CAAC;AACrC,OAAO,EAAE,mCAAmC,EAAE,4BAA4B,EAAE,MAAM,mBAAmB,CAAC;AACtG,OAAO,EAAE,OAAO,IAAI,YAAY,EAAE,MAAM,gBAAgB,CAAC"}
package/dist-tsc/index.js CHANGED
@@ -1,4 +1,4 @@
1
- export { ViewType, DataType, FileType, CoordinationType, STATUS, } from './constants.js';
1
+ export { ViewType, DataType, FileType, CoordinationType, STATUS, DescriptionType, } from './constants.js';
2
2
  export { FILE_TYPE_DATA_TYPE_MAPPING, DATA_TYPE_COORDINATION_VALUE_USAGE, ALT_ZARR_STORE_TYPES, } from './constant-relationships.js';
3
3
  export { AUTO_INDEPENDENT_COORDINATION_TYPES, COMPONENT_COORDINATION_TYPES } from './coordination.js';
4
4
  export { default as META_VERSION } from './version.json';
package/dist-tsc/version.json CHANGED
@@ -1,7 +1,7 @@
1
1
  {
2
2
  "note": "This file is autogenerated by .changeset/post-changelog.mjs.",
3
- "version": "3.4.9",
4
- "date": "2024-07-26",
3
+ "version": "3.4.10",
4
+ "date": "2024-09-01",
5
5
  "branch": "changeset-release/main",
6
- "hash": "9582ddcf"
6
+ "hash": "26b1c2d6"
7
7
  }
package/package.json CHANGED
@@ -1,6 +1,6 @@
1
1
  {
2
2
  "name": "@vitessce/constants-internal",
3
- "version": "3.4.9",
3
+ "version": "3.4.10",
4
4
  "author": "Gehlenborg Lab",
5
5
  "homepage": "http://vitessce.io",
6
6
  "repository": {
package/src/constant-relationships.ts CHANGED
@@ -128,35 +128,46 @@ export const DATA_TYPE_COORDINATION_VALUE_USAGE = {
128
128
  export const ALT_ZARR_STORE_TYPES = {
129
129
  [FileType.OBS_FEATURE_MATRIX_ANNDATA_ZARR]: {
130
130
  zip: FileType.OBS_FEATURE_MATRIX_ANNDATA_ZARR_ZIP,
131
+ h5ad: FileType.OBS_FEATURE_MATRIX_ANNDATA_H5AD,
131
132
  },
132
133
  [FileType.OBS_FEATURE_COLUMNS_ANNDATA_ZARR]: {
133
134
  zip: FileType.OBS_FEATURE_COLUMNS_ANNDATA_ZARR_ZIP,
135
+ h5ad: FileType.OBS_FEATURE_COLUMNS_ANNDATA_H5AD,
134
136
  },
135
137
  [FileType.OBS_SETS_ANNDATA_ZARR]: {
136
138
  zip: FileType.OBS_SETS_ANNDATA_ZARR_ZIP,
139
+ h5ad: FileType.OBS_SETS_ANNDATA_H5AD,
137
140
  },
138
141
  [FileType.OBS_EMBEDDING_ANNDATA_ZARR]: {
139
142
  zip: FileType.OBS_EMBEDDING_ANNDATA_ZARR_ZIP,
143
+ h5ad: FileType.OBS_EMBEDDING_ANNDATA_H5AD,
140
144
  },
141
145
  [FileType.OBS_SPOTS_ANNDATA_ZARR]: {
142
146
  zip: FileType.OBS_SPOTS_ANNDATA_ZARR_ZIP,
147
+ h5ad: FileType.OBS_SPOTS_ANNDATA_H5AD,
143
148
  },
144
149
  [FileType.OBS_POINTS_ANNDATA_ZARR]: {
145
150
  zip: FileType.OBS_POINTS_ANNDATA_ZARR_ZIP,
151
+ h5ad: FileType.OBS_POINTS_ANNDATA_H5AD,
146
152
  },
147
153
  [FileType.OBS_LOCATIONS_ANNDATA_ZARR]: {
148
154
  zip: FileType.OBS_LOCATIONS_ANNDATA_ZARR_ZIP,
155
+ h5ad: FileType.OBS_LOCATIONS_ANNDATA_H5AD,
149
156
  },
150
157
  [FileType.OBS_SEGMENTATIONS_ANNDATA_ZARR]: {
151
158
  zip: FileType.OBS_SEGMENTATIONS_ANNDATA_ZARR_ZIP,
159
+ h5ad: FileType.OBS_SEGMENTATIONS_ANNDATA_H5AD,
152
160
  },
153
161
  [FileType.OBS_LABELS_ANNDATA_ZARR]: {
154
162
  zip: FileType.OBS_LABELS_ANNDATA_ZARR_ZIP,
163
+ h5ad: FileType.OBS_LABELS_ANNDATA_H5AD,
155
164
  },
156
165
  [FileType.FEATURE_LABELS_ANNDATA_ZARR]: {
157
166
  zip: FileType.FEATURE_LABELS_ANNDATA_ZARR_ZIP,
167
+ h5ad: FileType.FEATURE_LABELS_ANNDATA_H5AD,
158
168
  },
159
169
  [FileType.SAMPLE_EDGES_ANNDATA_ZARR]: {
160
170
  zip: FileType.SAMPLE_EDGES_ANNDATA_ZARR_ZIP,
171
+ h5ad: FileType.SAMPLE_EDGES_ANNDATA_H5AD,
161
172
  },
162
173
  };
package/src/constants.ts CHANGED
@@ -53,6 +53,7 @@ export const FileType = {
53
53
  // Joint file types
54
54
  ANNDATA_ZARR: 'anndata.zarr',
55
55
  ANNDATA_ZARR_ZIP: 'anndata.zarr.zip',
56
+ ANNDATA_H5AD: 'anndata.h5ad',
56
57
  SPATIALDATA_ZARR: 'spatialdata.zarr',
57
58
  // Atomic file types
58
59
  OBS_EMBEDDING_CSV: 'obsEmbedding.csv',
@@ -93,6 +94,18 @@ export const FileType = {
93
94
  OBS_LABELS_ANNDATA_ZARR_ZIP: 'obsLabels.anndata.zarr.zip',
94
95
  FEATURE_LABELS_ANNDATA_ZARR_ZIP: 'featureLabels.anndata.zarr.zip',
95
96
  SAMPLE_EDGES_ANNDATA_ZARR_ZIP: 'sampleEdges.anndata.zarr.zip',
97
+ // AnnData - h5ad via reference spec
98
+ OBS_FEATURE_MATRIX_ANNDATA_H5AD: 'obsFeatureMatrix.anndata.h5ad',
99
+ OBS_FEATURE_COLUMNS_ANNDATA_H5AD: 'obsFeatureColumns.anndata.h5ad',
100
+ OBS_SETS_ANNDATA_H5AD: 'obsSets.anndata.h5ad',
101
+ OBS_EMBEDDING_ANNDATA_H5AD: 'obsEmbedding.anndata.h5ad',
102
+ OBS_SPOTS_ANNDATA_H5AD: 'obsSpots.anndata.h5ad',
103
+ OBS_POINTS_ANNDATA_H5AD: 'obsPoints.anndata.h5ad',
104
+ OBS_LOCATIONS_ANNDATA_H5AD: 'obsLocations.anndata.h5ad',
105
+ OBS_SEGMENTATIONS_ANNDATA_H5AD: 'obsSegmentations.anndata.h5ad',
106
+ OBS_LABELS_ANNDATA_H5AD: 'obsLabels.anndata.h5ad',
107
+ FEATURE_LABELS_ANNDATA_H5AD: 'featureLabels.anndata.h5ad',
108
+ SAMPLE_EDGES_ANNDATA_H5AD: 'sampleEdges.anndata.h5ad',
96
109
  // SpatialData
97
110
  IMAGE_SPATIALDATA_ZARR: 'image.spatialdata.zarr',
98
111
  LABELS_SPATIALDATA_ZARR: 'labels.spatialdata.zarr',
@@ -283,3 +296,8 @@ export const STATUS = {
283
296
  SUCCESS: 'success',
284
297
  ERROR: 'error',
285
298
  };
299
+
300
+ export const DescriptionType = {
301
+ PLAIN: 'plain',
302
+ MARKDOWN: 'markdown',
303
+ };
package/src/index.ts CHANGED
@@ -1,5 +1,5 @@
1
1
  export {
2
- ViewType, DataType, FileType, CoordinationType, STATUS,
2
+ ViewType, DataType, FileType, CoordinationType, STATUS, DescriptionType,
3
3
  } from './constants.js';
4
4
  export {
5
5
  FILE_TYPE_DATA_TYPE_MAPPING,
package/src/version.json CHANGED
@@ -1,7 +1,7 @@
1
1
  {
2
2
  "note": "This file is autogenerated by .changeset/post-changelog.mjs.",
3
- "version": "3.4.9",
4
- "date": "2024-07-26",
3
+ "version": "3.4.10",
4
+ "date": "2024-09-01",
5
5
  "branch": "changeset-release/main",
6
- "hash": "9582ddcf"
6
+ "hash": "26b1c2d6"
7
7
  }