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version 0.1 to 0.3 #112
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,4 @@ | ||
| Copyright © 2020-[YEAR] | ||
| <a href="https://www.openmicroscopy.org/"><abbr title="Open Microscopy Environment">OME</abbr></a><sup>®</sup> | ||
| (<a href="https://dundee.ac.uk/"><abbr title="University of Dundee">U. Dundee</abbr></a>). | ||
| OME trademark rules apply. |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,112 @@ | ||
| { | ||
| "$schema": "https://json-schema.org/draft/2020-12/schema", | ||
| "$id": "https://ngff.openmicroscopy.org/0.1/schemas/image.schema", | ||
| "title": "NGFF Image", | ||
| "description": "JSON from OME-NGFF .zattrs", | ||
| "type": "object", | ||
| "properties": { | ||
| "multiscales": { | ||
| "description": "The multiscale datasets for this image", | ||
| "type": "array", | ||
| "items": { | ||
| "type": "object", | ||
| "properties": { | ||
| "name": { | ||
| "type": "string" | ||
| }, | ||
| "datasets": { | ||
| "type": "array", | ||
| "minItems": 1, | ||
| "items": { | ||
| "type": "object", | ||
| "properties": { | ||
| "path": { | ||
| "type": "string" | ||
| } | ||
| }, | ||
| "required": ["path"] | ||
| } | ||
| }, | ||
| "version": { | ||
| "type": "string", | ||
| "enum": [ | ||
| "0.1" | ||
| ] | ||
| }, | ||
| "metadata": { | ||
| "type": "object", | ||
| "properties": { | ||
| "method": { | ||
| "type": "string" | ||
| }, | ||
| "version": { | ||
| "type": "string" | ||
| } | ||
| } | ||
| } | ||
| }, | ||
| "required": [ | ||
| "datasets" | ||
| ] | ||
| }, | ||
| "minItems": 1, | ||
| "uniqueItems": true | ||
| }, | ||
| "omero": { | ||
| "type": "object", | ||
| "properties": { | ||
| "channels": { | ||
| "type": "array", | ||
| "items": { | ||
| "type": "object", | ||
| "properties": { | ||
| "window": { | ||
| "type": "object", | ||
| "properties": { | ||
| "end": { | ||
| "type": "number" | ||
| }, | ||
| "max": { | ||
| "type": "number" | ||
| }, | ||
| "min": { | ||
| "type": "number" | ||
| }, | ||
| "start": { | ||
| "type": "number" | ||
| } | ||
| }, | ||
| "required": [ | ||
| "start", | ||
| "min", | ||
| "end", | ||
| "max" | ||
| ] | ||
| }, | ||
| "label": { | ||
| "type": "string" | ||
| }, | ||
| "family": { | ||
| "type": "string" | ||
| }, | ||
| "color": { | ||
| "type": "string" | ||
| }, | ||
| "active": { | ||
| "type": "boolean" | ||
| } | ||
| }, | ||
| "required": [ | ||
| "window", | ||
| "color" | ||
| ] | ||
| } | ||
| } | ||
| }, | ||
| "required": [ | ||
| "channels" | ||
| ] | ||
| } | ||
| }, | ||
| "required": [ "multiscales" ] | ||
| } |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,112 @@ | ||
| { | ||
| "$schema": "https://json-schema.org/draft/2020-12/schema", | ||
| "$id": "https://ngff.openmicroscopy.org/0.1/schemas/plate.schema", | ||
| "title": "OME-NGFF plate schema", | ||
| "description": "JSON from OME-NGFF Plate .zattrs", | ||
| "type": "object", | ||
| "properties": { | ||
| "plate": { | ||
| "type": "object", | ||
| "properties": { | ||
| "version": { | ||
| "type": "string", | ||
| "enum": [ | ||
| "0.1" | ||
| ] | ||
| }, | ||
| "name": { | ||
| "type": "string" | ||
| }, | ||
| "columns": { | ||
| "description": "Columns of the Plate grid", | ||
| "type": "array", | ||
| "items": { | ||
| "type": "object", | ||
| "properties": { | ||
| "name": { | ||
| "type": "string" | ||
| } | ||
| }, | ||
| "required": [ | ||
| "name" | ||
| ] | ||
| }, | ||
| "minItems": 1, | ||
| "uniqueItems": true | ||
| }, | ||
| "rows": { | ||
| "description": "Rows of the Plate grid", | ||
| "type": "array", | ||
| "items": { | ||
| "type": "object", | ||
| "properties": { | ||
| "name": { | ||
| "type": "string" | ||
| } | ||
| }, | ||
| "required": [ | ||
| "name" | ||
| ] | ||
| }, | ||
| "minItems": 1, | ||
| "uniqueItems": true | ||
| }, | ||
| "wells": { | ||
| "description": "Rows of the Plate grid", | ||
| "type": "array", | ||
| "items": { | ||
| "type": "object", | ||
| "properties": { | ||
| "path": { | ||
| "type": "string" | ||
| } | ||
| }, | ||
| "required": [ | ||
| "path" | ||
| ] | ||
| }, | ||
| "minItems": 1, | ||
| "uniqueItems": true | ||
| }, | ||
| "field_count": { | ||
| "description": "Maximum number of fields per view across all wells." | ||
| }, | ||
| "acquisitions": { | ||
| "description": "Rows of the Plate grid", | ||
| "type": "array", | ||
| "items": { | ||
| "type": "object", | ||
| "properties": { | ||
| "id": { | ||
| "type": "number" | ||
| }, | ||
| "maximumfieldcount": { | ||
| "type": "number" | ||
| }, | ||
| "name": { | ||
| "type": "string" | ||
| }, | ||
| "description": { | ||
| "type": "string" | ||
| }, | ||
| "starttime": { | ||
| "type": "number" | ||
| } | ||
| }, | ||
| "required": [ | ||
| "id" | ||
| ] | ||
| }, | ||
| "minItems": 1, | ||
| "uniqueItems": true | ||
| } | ||
| }, | ||
| "required": [ | ||
| "version", "columns", "rows", "wells" | ||
| ] | ||
| } | ||
| }, | ||
| "required": [ | ||
| "plate" | ||
| ] | ||
| } |
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| Original file line number | Diff line number | Diff line change |
|---|---|---|
| @@ -0,0 +1,19 @@ | ||
| { | ||
| "$id": "https://ngff.openmicroscopy.org/0.1/schemas/strict_image.schema", | ||
| "allOf": [ | ||
| { | ||
| "$ref": "https://ngff.openmicroscopy.org/0.1/schemas/image.schema" | ||
| }, | ||
| { | ||
| "properties": { | ||
| "multiscales": { | ||
| "items": { | ||
| "required": [ | ||
| "version", "metadata", "type", "name" | ||
| ] | ||
| } | ||
| } | ||
| } | ||
| } | ||
| ] | ||
| } |
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The line 'axes = [Axis(name=axis, type=type_dict[axis]) for axis in metadata["axes"]]' assumes that the keys will always be one of "t", "c", "z", "y", or "x". Consider adding a default case or error handling for unexpected keys.