@galaxy-tool-util/schema 1.14.0 → 1.15.0
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.
- package/dist/index.d.ts +1 -1
- package/dist/index.d.ts.map +1 -1
- package/dist/index.js +1 -1
- package/dist/index.js.map +1 -1
- package/dist/user-tool-source/schema.generated.d.ts +1203 -266
- package/dist/user-tool-source/schema.generated.d.ts.map +1 -1
- package/dist/user-tool-source/schema.generated.js +1522 -367
- package/dist/user-tool-source/schema.generated.js.map +1 -1
- package/dist/workflow/index.d.ts +1 -1
- package/dist/workflow/index.d.ts.map +1 -1
- package/dist/workflow/index.js +1 -1
- package/dist/workflow/index.js.map +1 -1
- package/dist/workflow/input-parameter.d.ts +280 -0
- package/dist/workflow/input-parameter.d.ts.map +1 -0
- package/dist/workflow/input-parameter.js +38 -0
- package/dist/workflow/input-parameter.js.map +1 -0
- package/dist/workflow/lint.d.ts.map +1 -1
- package/dist/workflow/lint.js +156 -50
- package/dist/workflow/lint.js.map +1 -1
- package/dist/workflow/mermaid.d.ts.map +1 -1
- package/dist/workflow/mermaid.js +1 -0
- package/dist/workflow/mermaid.js.map +1 -1
- package/dist/workflow/normalized/native.js +5 -4
- package/dist/workflow/normalized/native.js.map +1 -1
- package/dist/workflow/normalized/toFormat2.d.ts +1 -0
- package/dist/workflow/normalized/toFormat2.d.ts.map +1 -1
- package/dist/workflow/normalized/toFormat2.js +24 -2
- package/dist/workflow/normalized/toFormat2.js.map +1 -1
- package/dist/workflow/normalized/toNative.d.ts +3 -1
- package/dist/workflow/normalized/toNative.d.ts.map +1 -1
- package/dist/workflow/normalized/toNative.js +32 -11
- package/dist/workflow/normalized/toNative.js.map +1 -1
- package/dist/workflow/raw/gxformat2-draft.d.ts +67 -9
- package/dist/workflow/raw/gxformat2-draft.d.ts.map +1 -1
- package/dist/workflow/raw/gxformat2-draft.effect.d.ts +1073 -161
- package/dist/workflow/raw/gxformat2-draft.effect.d.ts.map +1 -1
- package/dist/workflow/raw/gxformat2-draft.effect.js +184 -120
- package/dist/workflow/raw/gxformat2-draft.effect.js.map +1 -1
- package/dist/workflow/raw/gxformat2-draft.js +6 -0
- package/dist/workflow/raw/gxformat2-draft.js.map +1 -1
- package/dist/workflow/raw/gxformat2.d.ts +67 -9
- package/dist/workflow/raw/gxformat2.d.ts.map +1 -1
- package/dist/workflow/raw/gxformat2.effect.d.ts +591 -143
- package/dist/workflow/raw/gxformat2.effect.d.ts.map +1 -1
- package/dist/workflow/raw/gxformat2.effect.js +169 -105
- package/dist/workflow/raw/gxformat2.effect.js.map +1 -1
- package/dist/workflow/raw/gxformat2.js +6 -0
- package/dist/workflow/raw/gxformat2.js.map +1 -1
- package/dist/workflow/raw/native.d.ts +14 -0
- package/dist/workflow/raw/native.d.ts.map +1 -1
- package/dist/workflow/raw/native.effect.d.ts +45 -30
- package/dist/workflow/raw/native.effect.d.ts.map +1 -1
- package/dist/workflow/raw/native.effect.js +40 -26
- package/dist/workflow/raw/native.effect.js.map +1 -1
- package/dist/workflow/raw/native.js.map +1 -1
- package/dist/workflow/schema_rules.yml +9 -0
- package/dist/workflow/semantic-validators.d.ts.map +1 -1
- package/dist/workflow/semantic-validators.js +17 -8
- package/dist/workflow/semantic-validators.js.map +1 -1
- package/dist/workflow/strict-checks.d.ts.map +1 -1
- package/dist/workflow/strict-checks.js +2 -3
- package/dist/workflow/strict-checks.js.map +1 -1
- package/dist/workflow/validators.d.ts +7 -4
- package/dist/workflow/validators.d.ts.map +1 -1
- package/dist/workflow/validators.js +20 -9
- package/dist/workflow/validators.js.map +1 -1
- package/package.json +1 -1
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@@ -16,7 +16,7 @@ export declare const PrimitiveTypeSchema: Schema.Literal<["null", "boolean", "in
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export type PrimitiveType = typeof PrimitiveTypeSchema.Type;
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/**
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* Extends primitive types with the native Galaxy concepts such as datasets and collections.
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Normalized gxformat2 workflow input declaration spellings are ``data``, ``collection``, ``string``, ``int``, ``float``, and ``
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Normalized gxformat2 workflow input declaration spellings are ``data``, ``collection``, ``string``, ``int``, ``float``, ``boolean``, ``color``, and ``directory_uri``. Other spellings are accepted as compatibility aliases on import but normalized gxformat2 output emits the normalized spellings.
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data: one Galaxy dataset input. Native Galaxy ``data_input`` converts to this spelling.
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File: accepted alias for ``data``, but normalized gxformat2 output emits ``data``. Note: workflow **test job** YAML uses ``type: File`` to mean 'stage this file as test input data', which is a separate concept from workflow input declaration.
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collection: one Galaxy dataset collection input. Native Galaxy ``data_collection_input`` converts to this spelling.
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@@ -24,8 +24,10 @@ string: normalized gxformat2 spelling for native Galaxy text workflow parameters
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text: accepted alias for ``string`` because native Galaxy parameter state and Galaxy tool XML terminology use ``text``.
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int: normalized gxformat2 spelling for native Galaxy integer workflow parameters.
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integer: accepted alias for ``int`` because native Galaxy parameter state and Galaxy tool XML terminology use ``integer``.
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color: native Galaxy color workflow parameter; the value is a color string such as ``#ff0000``.
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directory_uri: native Galaxy directory URI workflow parameter; the value is a URI string such as ``s3://bucket/path/``.
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*/
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export declare const GalaxyTypeSchema: Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection"]>;
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export declare const GalaxyTypeSchema: Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection", "color", "directory_uri"]>;
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export type GalaxyType = typeof GalaxyTypeSchema.Type;
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/**
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* Module types used by Galaxy steps. Galaxy's native format allows additional types such as data_input, data_input_collection, and parameter_type
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}>;
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export type MinMax = typeof MinMaxSchema.Type;
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/**
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* A
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* A scalar integer workflow parameter. Normalized gxformat2 output uses
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``type: int``. ``type: integer`` is accepted for compatibility with native
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Galaxy parameter state and Galaxy tool XML terminology.
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*/
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export declare const
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export declare const WorkflowIntegerParameterSchema: Schema.Struct<{
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/** The unique identifier for this object. */
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id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
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/** A short, human-readable label of this object. */
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/** Relative horizontal position of the step's node when rendered in the workflow editor. */
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left: typeof Schema.Number;
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}>]>>;
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/** Must be ``
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type: Schema.Literal<["
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/** Must be ``integer`` or ``int``. */
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type: Schema.Literal<["integer", "int"]>;
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min: Schema.optional<Schema.Union<[typeof Schema.Number, typeof Schema.Null]>>;
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max: Schema.optional<Schema.Union<[typeof Schema.Number, typeof Schema.Null]>>;
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optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
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}>;
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export type
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* A boolean input parameter for a Galaxy workflow.
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*/
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export declare const WorkflowBooleanParameterSchema: Schema.Struct<{
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export type WorkflowIntegerParameter = typeof WorkflowIntegerParameterSchema.Type;
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export declare const BaseDataParameterSchema: Schema.Struct<{
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/** The unique identifier for this object. */
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id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
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/** A short, human-readable label of this object. */
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/** Relative horizontal position of the step's node when rendered in the workflow editor. */
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left: typeof Schema.Number;
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}>]>>;
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/**
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/** Specify datatype extensions for valid input datasets. */
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format: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<typeof Schema.String>]>>;
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optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
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}>;
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export type
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/**
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* Describes one field of a `record` collection input.
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Used in `fields` on a `collection_type` containing `record` (e.g.
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`record`, `list:record`, `sample_sheet:record`). Mirrors a subset of
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the CWL `InputRecordSchema` shape that Galaxy persists on
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`DatasetCollection.fields`.
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*/
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export declare const RecordFieldDefinitionSchema: Schema.Struct<{
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/** Field name. Must equal the corresponding element identifier in the materialized record collection. */
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name: typeof Schema.String;
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/** Field value type. A subset of the CWL primitive types: `File`, `null`, `boolean`, `int`, `float`, `string`. May be a list to express a union (e.g. `["File", "null"]` for an optional file). */
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type: Schema.Union<[Schema.Literal<["File", "null", "boolean", "int", "float", "string"]>, Schema.Array$<Schema.Literal<["File", "null", "boolean", "int", "float", "string"]>>]>;
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/** Optional Galaxy datatype hint for `File`-typed fields. */
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format: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
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}>;
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export type RecordFieldDefinition = typeof RecordFieldDefinitionSchema.Type;
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export type BaseDataParameter = typeof BaseDataParameterSchema.Type;
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/**
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* Describes one column of a sample-sheet collection input.
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Used in `column_definitions` on a `collection_type: sample_sheet[:<type>]`
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suggestions: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<Schema.Union<[typeof Schema.String, typeof Schema.Number, typeof Schema.Number, typeof Schema.Boolean]>>]>>;
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}>;
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export type SampleSheetColumnDefinition = typeof SampleSheetColumnDefinitionSchema.Type;
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/** Specify datatype extensions for valid input datasets. */
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format: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<typeof Schema.String>]>>;
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optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
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/**
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* Describes one field of a `record` collection input.
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Used in `fields` on a `collection_type` containing `record` (e.g.
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`record`, `list:record`, `sample_sheet:record`). Mirrors a subset of
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the CWL `InputRecordSchema` shape that Galaxy persists on
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`DatasetCollection.fields`.
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*/
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export declare const RecordFieldDefinitionSchema: Schema.Struct<{
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/** Field name. Must equal the corresponding element identifier in the materialized record collection. */
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name: typeof Schema.String;
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/** Field value type. A subset of the CWL primitive types: `File`, `null`, `boolean`, `int`, `float`, `string`. May be a list to express a union (e.g. `["File", "null"]` for an optional file). */
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type: Schema.Union<[Schema.Literal<["File", "null", "boolean", "int", "float", "string"]>, Schema.Array$<Schema.Literal<["File", "null", "boolean", "int", "float", "string"]>>]>;
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/** Optional Galaxy datatype hint for `File`-typed fields. */
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format: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
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export type
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export type RecordFieldDefinition = typeof RecordFieldDefinitionSchema.Type;
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/**
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* A collection input parameter for a Galaxy workflow - represents a dataset collection.
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*/
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export type WorkflowCollectionParameter = typeof WorkflowCollectionParameterSchema.Type;
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* A float input parameter for a Galaxy workflow.
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export declare const WorkflowFloatParameterSchema: Schema.Struct<{
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id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
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/** Relative horizontal position of the step's node when rendered in the workflow editor. */
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}>]>>;
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type: Schema.Literal<["float"]>;
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min: Schema.optional<Schema.Union<[typeof Schema.Number, typeof Schema.Null]>>;
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max: Schema.optional<Schema.Union<[typeof Schema.Number, typeof Schema.Null]>>;
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* A data input parameter for a Galaxy workflow. Represents one Galaxy dataset.
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export declare const WorkflowDataParameterSchema: Schema.Struct<{
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/** The default value to use for this parameter if the parameter is missing from the input object, or if the value of the parameter in the input object is `null`. Default values are applied before eva... */
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default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
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position: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Struct<{
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/** Controls whether Galaxy allows invocation of the workflow without a user-supplied value for this input. If ``true``, the input may be omitted at invocation time. ``optional`` and ``default`` are in... */
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export type WorkflowFloatParameter = typeof WorkflowFloatParameterSchema.Type;
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export type WorkflowTextOption = typeof WorkflowTextOptionSchema.Type;
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* A validator restricting values of a text workflow parameter. Persisted
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in native Galaxy as an entry of the input step's `tool_state.validators`.
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/** Regular expression matched from the start of the value. End it with `$` to require a complete-value match. */
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message: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
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negate: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
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export type WorkflowTextValidator = typeof WorkflowTextValidatorSchema.Type;
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/** Ask Galaxy to derive valid choices from connected tool or subworkflow select inputs at runtime. Falls back to free text when derivation fails. */
|
|
521
487
|
restrictOnConnections: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
488
|
+
/** Validators applied to values supplied for this input. */
|
|
489
|
+
validators: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<Schema.Struct<{
|
|
490
|
+
/** Validator type. Only `regex` is supported. */
|
|
491
|
+
type: Schema.Literal<["regex"]>;
|
|
492
|
+
/** Regular expression matched from the start of the value. End it with `$` to require a complete-value match. */
|
|
493
|
+
expression: typeof Schema.String;
|
|
494
|
+
/** Message shown when a value fails validation. */
|
|
495
|
+
message: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
496
|
+
/** Reject matching values instead of values that do not match. Defaults to `false`. */
|
|
497
|
+
negate: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
498
|
+
}>>]>>;
|
|
522
499
|
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
523
500
|
}>;
|
|
524
501
|
export type WorkflowTextParameter = typeof WorkflowTextParameterSchema.Type;
|
|
502
|
+
/**
|
|
503
|
+
* A data input parameter for a Galaxy workflow. Represents one Galaxy dataset.
|
|
504
|
+
Normalized gxformat2 output uses ``type: data``. ``type: File`` is accepted as
|
|
505
|
+
an alias, but should not be confused with workflow test job syntax where
|
|
506
|
+
``type: File`` means stage a file as test input data.
|
|
507
|
+
*/
|
|
508
|
+
export declare const WorkflowDataParameterSchema: Schema.Struct<{
|
|
509
|
+
/** The unique identifier for this object. */
|
|
510
|
+
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
511
|
+
/** A short, human-readable label of this object. */
|
|
512
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
513
|
+
/** A documentation string for this object, or an array of strings which should be concatenated. */
|
|
514
|
+
doc: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
515
|
+
/** The default value to use for this parameter if the parameter is missing from the input object, or if the value of the parameter in the input object is `null`. Default values are applied before eva... */
|
|
516
|
+
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
517
|
+
position: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Struct<{
|
|
518
|
+
/** Relative vertical position of the step's node when rendered in the workflow editor. */
|
|
519
|
+
top: typeof Schema.Number;
|
|
520
|
+
/** Relative horizontal position of the step's node when rendered in the workflow editor. */
|
|
521
|
+
left: typeof Schema.Number;
|
|
522
|
+
}>]>>;
|
|
523
|
+
/** Controls whether Galaxy allows invocation of the workflow without a user-supplied value for this input. If ``true``, the input may be omitted at invocation time. ``optional`` and ``default`` are in... */
|
|
524
|
+
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
525
|
+
/** Specify valid types of data that may be assigned to this parameter. */
|
|
526
|
+
type: Schema.optional<Schema.Union<[Schema.Literal<["data", "File"]>, typeof Schema.Null]>>;
|
|
527
|
+
format: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<typeof Schema.String>]>>;
|
|
528
|
+
}>;
|
|
529
|
+
export type WorkflowDataParameter = typeof WorkflowDataParameterSchema.Type;
|
|
530
|
+
/**
|
|
531
|
+
* A color input parameter for a Galaxy workflow. The value is a color
|
|
532
|
+
string such as ``#ff0000``.
|
|
533
|
+
*/
|
|
534
|
+
export declare const WorkflowColorParameterSchema: Schema.Struct<{
|
|
535
|
+
/** The unique identifier for this object. */
|
|
536
|
+
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
537
|
+
/** A short, human-readable label of this object. */
|
|
538
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
539
|
+
/** A documentation string for this object, or an array of strings which should be concatenated. */
|
|
540
|
+
doc: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
541
|
+
/** The default value to use for this parameter if the parameter is missing from the input object, or if the value of the parameter in the input object is `null`. Default values are applied before eva... */
|
|
542
|
+
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
543
|
+
position: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Struct<{
|
|
544
|
+
/** Relative vertical position of the step's node when rendered in the workflow editor. */
|
|
545
|
+
top: typeof Schema.Number;
|
|
546
|
+
/** Relative horizontal position of the step's node when rendered in the workflow editor. */
|
|
547
|
+
left: typeof Schema.Number;
|
|
548
|
+
}>]>>;
|
|
549
|
+
/** Must be ``color``. */
|
|
550
|
+
type: Schema.Literal<["color"]>;
|
|
551
|
+
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
552
|
+
}>;
|
|
553
|
+
export type WorkflowColorParameter = typeof WorkflowColorParameterSchema.Type;
|
|
554
|
+
/**
|
|
555
|
+
* A directory URI input parameter for a Galaxy workflow. The value is a
|
|
556
|
+
URI string such as ``s3://bucket/path/``.
|
|
557
|
+
*/
|
|
558
|
+
export declare const WorkflowDirectoryUriParameterSchema: Schema.Struct<{
|
|
559
|
+
/** The unique identifier for this object. */
|
|
560
|
+
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
561
|
+
/** A short, human-readable label of this object. */
|
|
562
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
563
|
+
/** A documentation string for this object, or an array of strings which should be concatenated. */
|
|
564
|
+
doc: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
565
|
+
/** The default value to use for this parameter if the parameter is missing from the input object, or if the value of the parameter in the input object is `null`. Default values are applied before eva... */
|
|
566
|
+
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
567
|
+
position: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Struct<{
|
|
568
|
+
/** Relative vertical position of the step's node when rendered in the workflow editor. */
|
|
569
|
+
top: typeof Schema.Number;
|
|
570
|
+
/** Relative horizontal position of the step's node when rendered in the workflow editor. */
|
|
571
|
+
left: typeof Schema.Number;
|
|
572
|
+
}>]>>;
|
|
573
|
+
/** Must be ``directory_uri``. */
|
|
574
|
+
type: Schema.Literal<["directory_uri"]>;
|
|
575
|
+
/** Validators applied to values supplied for this input. */
|
|
576
|
+
validators: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<Schema.Struct<{
|
|
577
|
+
/** Validator type. Only `regex` is supported. */
|
|
578
|
+
type: Schema.Literal<["regex"]>;
|
|
579
|
+
/** Regular expression matched from the start of the value. End it with `$` to require a complete-value match. */
|
|
580
|
+
expression: typeof Schema.String;
|
|
581
|
+
/** Message shown when a value fails validation. */
|
|
582
|
+
message: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
583
|
+
/** Reject matching values instead of values that do not match. Defaults to `false`. */
|
|
584
|
+
negate: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
585
|
+
}>>]>>;
|
|
586
|
+
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
587
|
+
}>;
|
|
588
|
+
export type WorkflowDirectoryUriParameter = typeof WorkflowDirectoryUriParameterSchema.Type;
|
|
525
589
|
/**
|
|
526
590
|
* Describe an output parameter of a workflow. The parameter must be
|
|
527
591
|
connected to one parameter defined in the workflow that
|
|
@@ -538,9 +602,32 @@ export declare const WorkflowOutputParameterSchema: Schema.Struct<{
|
|
|
538
602
|
/** Specifies workflow parameter that supply the value of to the output parameter. */
|
|
539
603
|
outputSource: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
540
604
|
/** Specify valid types of data that may be assigned to this parameter. */
|
|
541
|
-
type: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection"]>]>>;
|
|
605
|
+
type: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection", "color", "directory_uri"]>]>>;
|
|
542
606
|
}>;
|
|
543
607
|
export type WorkflowOutputParameter = typeof WorkflowOutputParameterSchema.Type;
|
|
608
|
+
/**
|
|
609
|
+
* A boolean input parameter for a Galaxy workflow.
|
|
610
|
+
*/
|
|
611
|
+
export declare const WorkflowBooleanParameterSchema: Schema.Struct<{
|
|
612
|
+
/** The unique identifier for this object. */
|
|
613
|
+
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
614
|
+
/** A short, human-readable label of this object. */
|
|
615
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
616
|
+
/** A documentation string for this object, or an array of strings which should be concatenated. */
|
|
617
|
+
doc: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
618
|
+
/** The default value to use for this parameter if the parameter is missing from the input object, or if the value of the parameter in the input object is `null`. Default values are applied before eva... */
|
|
619
|
+
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
620
|
+
position: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Struct<{
|
|
621
|
+
/** Relative vertical position of the step's node when rendered in the workflow editor. */
|
|
622
|
+
top: typeof Schema.Number;
|
|
623
|
+
/** Relative horizontal position of the step's node when rendered in the workflow editor. */
|
|
624
|
+
left: typeof Schema.Number;
|
|
625
|
+
}>]>>;
|
|
626
|
+
/** Must be ``boolean``. */
|
|
627
|
+
type: Schema.Literal<["boolean"]>;
|
|
628
|
+
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
629
|
+
}>;
|
|
630
|
+
export type WorkflowBooleanParameter = typeof WorkflowBooleanParameterSchema.Type;
|
|
544
631
|
/**
|
|
545
632
|
* The base executable type in CWL is the `Process` object defined by the
|
|
546
633
|
document. Note that the `Process` object is abstract and cannot be
|
|
@@ -691,6 +778,17 @@ export declare const ProcessSchema: Schema.Struct<{
|
|
|
691
778
|
}>]>>]>>;
|
|
692
779
|
/** Ask Galaxy to derive valid choices from connected tool or subworkflow select inputs at runtime. Falls back to free text when derivation fails. */
|
|
693
780
|
restrictOnConnections: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
781
|
+
/** Validators applied to values supplied for this input. */
|
|
782
|
+
validators: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<Schema.Struct<{
|
|
783
|
+
/** Validator type. Only `regex` is supported. */
|
|
784
|
+
type: Schema.Literal<["regex"]>;
|
|
785
|
+
/** Regular expression matched from the start of the value. End it with `$` to require a complete-value match. */
|
|
786
|
+
expression: typeof Schema.String;
|
|
787
|
+
/** Message shown when a value fails validation. */
|
|
788
|
+
message: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
789
|
+
/** Reject matching values instead of values that do not match. Defaults to `false`. */
|
|
790
|
+
negate: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
791
|
+
}>>]>>;
|
|
694
792
|
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
695
793
|
}>, Schema.Struct<{
|
|
696
794
|
/** The unique identifier for this object. */
|
|
@@ -710,6 +808,53 @@ export declare const ProcessSchema: Schema.Struct<{
|
|
|
710
808
|
/** Must be ``boolean``. */
|
|
711
809
|
type: Schema.Literal<["boolean"]>;
|
|
712
810
|
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
811
|
+
}>, Schema.Struct<{
|
|
812
|
+
/** The unique identifier for this object. */
|
|
813
|
+
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
814
|
+
/** A short, human-readable label of this object. */
|
|
815
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
816
|
+
/** A documentation string for this object, or an array of strings which should be concatenated. */
|
|
817
|
+
doc: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
818
|
+
/** The default value to use for this parameter if the parameter is missing from the input object, or if the value of the parameter in the input object is `null`. Default values are applied before eva... */
|
|
819
|
+
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
820
|
+
position: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Struct<{
|
|
821
|
+
/** Relative vertical position of the step's node when rendered in the workflow editor. */
|
|
822
|
+
top: typeof Schema.Number;
|
|
823
|
+
/** Relative horizontal position of the step's node when rendered in the workflow editor. */
|
|
824
|
+
left: typeof Schema.Number;
|
|
825
|
+
}>]>>;
|
|
826
|
+
/** Must be ``color``. */
|
|
827
|
+
type: Schema.Literal<["color"]>;
|
|
828
|
+
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
829
|
+
}>, Schema.Struct<{
|
|
830
|
+
/** The unique identifier for this object. */
|
|
831
|
+
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
832
|
+
/** A short, human-readable label of this object. */
|
|
833
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
834
|
+
/** A documentation string for this object, or an array of strings which should be concatenated. */
|
|
835
|
+
doc: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
836
|
+
/** The default value to use for this parameter if the parameter is missing from the input object, or if the value of the parameter in the input object is `null`. Default values are applied before eva... */
|
|
837
|
+
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
838
|
+
position: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Struct<{
|
|
839
|
+
/** Relative vertical position of the step's node when rendered in the workflow editor. */
|
|
840
|
+
top: typeof Schema.Number;
|
|
841
|
+
/** Relative horizontal position of the step's node when rendered in the workflow editor. */
|
|
842
|
+
left: typeof Schema.Number;
|
|
843
|
+
}>]>>;
|
|
844
|
+
/** Must be ``directory_uri``. */
|
|
845
|
+
type: Schema.Literal<["directory_uri"]>;
|
|
846
|
+
/** Validators applied to values supplied for this input. */
|
|
847
|
+
validators: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<Schema.Struct<{
|
|
848
|
+
/** Validator type. Only `regex` is supported. */
|
|
849
|
+
type: Schema.Literal<["regex"]>;
|
|
850
|
+
/** Regular expression matched from the start of the value. End it with `$` to require a complete-value match. */
|
|
851
|
+
expression: typeof Schema.String;
|
|
852
|
+
/** Message shown when a value fails validation. */
|
|
853
|
+
message: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
854
|
+
/** Reject matching values instead of values that do not match. Defaults to `false`. */
|
|
855
|
+
negate: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
856
|
+
}>>]>>;
|
|
857
|
+
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
713
858
|
}>]>>, Schema.Record$<typeof Schema.String, Schema.Union<[Schema.Struct<{
|
|
714
859
|
/** The unique identifier for this object. */
|
|
715
860
|
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
@@ -853,6 +998,17 @@ export declare const ProcessSchema: Schema.Struct<{
|
|
|
853
998
|
}>]>>]>>;
|
|
854
999
|
/** Ask Galaxy to derive valid choices from connected tool or subworkflow select inputs at runtime. Falls back to free text when derivation fails. */
|
|
855
1000
|
restrictOnConnections: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
1001
|
+
/** Validators applied to values supplied for this input. */
|
|
1002
|
+
validators: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<Schema.Struct<{
|
|
1003
|
+
/** Validator type. Only `regex` is supported. */
|
|
1004
|
+
type: Schema.Literal<["regex"]>;
|
|
1005
|
+
/** Regular expression matched from the start of the value. End it with `$` to require a complete-value match. */
|
|
1006
|
+
expression: typeof Schema.String;
|
|
1007
|
+
/** Message shown when a value fails validation. */
|
|
1008
|
+
message: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1009
|
+
/** Reject matching values instead of values that do not match. Defaults to `false`. */
|
|
1010
|
+
negate: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
1011
|
+
}>>]>>;
|
|
856
1012
|
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
857
1013
|
}>, Schema.Struct<{
|
|
858
1014
|
/** The unique identifier for this object. */
|
|
@@ -872,6 +1028,53 @@ export declare const ProcessSchema: Schema.Struct<{
|
|
|
872
1028
|
/** Must be ``boolean``. */
|
|
873
1029
|
type: Schema.Literal<["boolean"]>;
|
|
874
1030
|
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
1031
|
+
}>, Schema.Struct<{
|
|
1032
|
+
/** The unique identifier for this object. */
|
|
1033
|
+
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1034
|
+
/** A short, human-readable label of this object. */
|
|
1035
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1036
|
+
/** A documentation string for this object, or an array of strings which should be concatenated. */
|
|
1037
|
+
doc: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
1038
|
+
/** The default value to use for this parameter if the parameter is missing from the input object, or if the value of the parameter in the input object is `null`. Default values are applied before eva... */
|
|
1039
|
+
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
1040
|
+
position: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Struct<{
|
|
1041
|
+
/** Relative vertical position of the step's node when rendered in the workflow editor. */
|
|
1042
|
+
top: typeof Schema.Number;
|
|
1043
|
+
/** Relative horizontal position of the step's node when rendered in the workflow editor. */
|
|
1044
|
+
left: typeof Schema.Number;
|
|
1045
|
+
}>]>>;
|
|
1046
|
+
/** Must be ``color``. */
|
|
1047
|
+
type: Schema.Literal<["color"]>;
|
|
1048
|
+
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
1049
|
+
}>, Schema.Struct<{
|
|
1050
|
+
/** The unique identifier for this object. */
|
|
1051
|
+
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1052
|
+
/** A short, human-readable label of this object. */
|
|
1053
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1054
|
+
/** A documentation string for this object, or an array of strings which should be concatenated. */
|
|
1055
|
+
doc: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
1056
|
+
/** The default value to use for this parameter if the parameter is missing from the input object, or if the value of the parameter in the input object is `null`. Default values are applied before eva... */
|
|
1057
|
+
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
1058
|
+
position: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Struct<{
|
|
1059
|
+
/** Relative vertical position of the step's node when rendered in the workflow editor. */
|
|
1060
|
+
top: typeof Schema.Number;
|
|
1061
|
+
/** Relative horizontal position of the step's node when rendered in the workflow editor. */
|
|
1062
|
+
left: typeof Schema.Number;
|
|
1063
|
+
}>]>>;
|
|
1064
|
+
/** Must be ``directory_uri``. */
|
|
1065
|
+
type: Schema.Literal<["directory_uri"]>;
|
|
1066
|
+
/** Validators applied to values supplied for this input. */
|
|
1067
|
+
validators: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<Schema.Struct<{
|
|
1068
|
+
/** Validator type. Only `regex` is supported. */
|
|
1069
|
+
type: Schema.Literal<["regex"]>;
|
|
1070
|
+
/** Regular expression matched from the start of the value. End it with `$` to require a complete-value match. */
|
|
1071
|
+
expression: typeof Schema.String;
|
|
1072
|
+
/** Message shown when a value fails validation. */
|
|
1073
|
+
message: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1074
|
+
/** Reject matching values instead of values that do not match. Defaults to `false`. */
|
|
1075
|
+
negate: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
1076
|
+
}>>]>>;
|
|
1077
|
+
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
875
1078
|
}>, typeof Schema.String]>>, Schema.Record$<typeof Schema.String, typeof Schema.Unknown>]>;
|
|
876
1079
|
/** Defines the parameters representing the output of the process. May be used to generate and/or validate the output object. */
|
|
877
1080
|
outputs: Schema.Union<[Schema.Array$<Schema.Struct<{
|
|
@@ -884,7 +1087,7 @@ export declare const ProcessSchema: Schema.Struct<{
|
|
|
884
1087
|
/** Specifies workflow parameter that supply the value of to the output parameter. */
|
|
885
1088
|
outputSource: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
886
1089
|
/** Specify valid types of data that may be assigned to this parameter. */
|
|
887
|
-
type: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection"]>]>>;
|
|
1090
|
+
type: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection", "color", "directory_uri"]>]>>;
|
|
888
1091
|
}>>, Schema.Record$<typeof Schema.String, Schema.Union<[Schema.Struct<{
|
|
889
1092
|
/** The unique identifier for this object. */
|
|
890
1093
|
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
@@ -895,7 +1098,7 @@ export declare const ProcessSchema: Schema.Struct<{
|
|
|
895
1098
|
/** Specifies workflow parameter that supply the value of to the output parameter. */
|
|
896
1099
|
outputSource: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
897
1100
|
/** Specify valid types of data that may be assigned to this parameter. */
|
|
898
|
-
type: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection"]>]>>;
|
|
1101
|
+
type: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection", "color", "directory_uri"]>]>>;
|
|
899
1102
|
}>, typeof Schema.String]>>, Schema.Record$<typeof Schema.String, typeof Schema.Unknown>]>;
|
|
900
1103
|
doc: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
901
1104
|
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
@@ -964,7 +1167,7 @@ export declare const WorkflowInputParameterSchema: Schema.Struct<{
|
|
|
964
1167
|
/** Controls whether Galaxy allows invocation of the workflow without a user-supplied value for this input. If ``true``, the input may be omitted at invocation time. ``optional`` and ``default`` are in... */
|
|
965
1168
|
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
966
1169
|
/** Specify valid types of data that may be assigned to this parameter. */
|
|
967
|
-
type: Schema.optional<Schema.Union<[Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection"]>, typeof Schema.Null, Schema.Array$<Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection"]>>]>>;
|
|
1170
|
+
type: Schema.optional<Schema.Union<[Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection", "color", "directory_uri"]>, typeof Schema.Null, Schema.Array$<Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection", "color", "directory_uri"]>>]>>;
|
|
968
1171
|
/** Collection type (defaults to `list` if `type` is `collection`). Nested collection types are separated with colons, e.g. `list:list:paired`. */
|
|
969
1172
|
collection_type: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
970
1173
|
/** Column schema for sample-sheet collection inputs. Only meaningful when `collection_type` begins with `sample_sheet`. */
|
|
@@ -1011,11 +1214,38 @@ export declare const WorkflowInputParameterSchema: Schema.Struct<{
|
|
|
1011
1214
|
}>]>>]>>;
|
|
1012
1215
|
/** For text-typed inputs - derive runtime choices from connected tool/subworkflow select inputs. */
|
|
1013
1216
|
restrictOnConnections: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
1217
|
+
/** Validators for text-typed and ``directory_uri`` inputs. See `WorkflowTextParameter.validators`. */
|
|
1218
|
+
validators: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<Schema.Struct<{
|
|
1219
|
+
/** Validator type. Only `regex` is supported. */
|
|
1220
|
+
type: Schema.Literal<["regex"]>;
|
|
1221
|
+
/** Regular expression matched from the start of the value. End it with `$` to require a complete-value match. */
|
|
1222
|
+
expression: typeof Schema.String;
|
|
1223
|
+
/** Message shown when a value fails validation. */
|
|
1224
|
+
message: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1225
|
+
/** Reject matching values instead of values that do not match. Defaults to `false`. */
|
|
1226
|
+
negate: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
1227
|
+
}>>]>>;
|
|
1014
1228
|
min: Schema.optional<Schema.Union<[typeof Schema.Number, typeof Schema.Null]>>;
|
|
1015
1229
|
max: Schema.optional<Schema.Union<[typeof Schema.Number, typeof Schema.Null]>>;
|
|
1016
1230
|
format: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<typeof Schema.String>]>>;
|
|
1017
1231
|
}>;
|
|
1018
1232
|
export type WorkflowInputParameter = typeof WorkflowInputParameterSchema.Type;
|
|
1233
|
+
export declare const SinkSchema: Schema.Struct<{
|
|
1234
|
+
/** Specifies one or more workflow parameters that will provide input to the underlying step parameter. */
|
|
1235
|
+
source: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
1236
|
+
}>;
|
|
1237
|
+
export type Sink = typeof SinkSchema.Type;
|
|
1238
|
+
/**
|
|
1239
|
+
* TODO:
|
|
1240
|
+
*/
|
|
1241
|
+
export declare const WorkflowStepInputSchema: Schema.Struct<{
|
|
1242
|
+
/** The default value for this parameter to use if either there is no `source` field, or the value produced by the `source` is `null`. The default must be applied prior to scattering or evaluating `va... */
|
|
1243
|
+
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
1244
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1245
|
+
source: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
1246
|
+
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1247
|
+
}>;
|
|
1248
|
+
export type WorkflowStepInput = typeof WorkflowStepInputSchema.Type;
|
|
1019
1249
|
/**
|
|
1020
1250
|
* Associate an output parameter of the underlying process with a workflow
|
|
1021
1251
|
parameter. The workflow parameter (given in the `id` field) be may be used
|
|
@@ -1037,22 +1267,6 @@ export declare const WorkflowStepOutputSchema: Schema.Struct<{
|
|
|
1037
1267
|
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1038
1268
|
}>;
|
|
1039
1269
|
export type WorkflowStepOutput = typeof WorkflowStepOutputSchema.Type;
|
|
1040
|
-
export declare const SinkSchema: Schema.Struct<{
|
|
1041
|
-
/** Specifies one or more workflow parameters that will provide input to the underlying step parameter. */
|
|
1042
|
-
source: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
1043
|
-
}>;
|
|
1044
|
-
export type Sink = typeof SinkSchema.Type;
|
|
1045
|
-
/**
|
|
1046
|
-
* TODO:
|
|
1047
|
-
*/
|
|
1048
|
-
export declare const WorkflowStepInputSchema: Schema.Struct<{
|
|
1049
|
-
/** The default value for this parameter to use if either there is no `source` field, or the value produced by the `source` is `null`. The default must be applied prior to scattering or evaluating `va... */
|
|
1050
|
-
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
1051
|
-
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1052
|
-
source: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
1053
|
-
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1054
|
-
}>;
|
|
1055
|
-
export type WorkflowStepInput = typeof WorkflowStepInputSchema.Type;
|
|
1056
1270
|
/**
|
|
1057
1271
|
* Base fields shared by all creator types, corresponding to schema.org
|
|
1058
1272
|
Thing properties common to both Person and Organization.
|
|
@@ -1096,15 +1310,6 @@ export declare const CreatorOrganizationSchema: Schema.Struct<{
|
|
|
1096
1310
|
faxNumber: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1097
1311
|
}>;
|
|
1098
1312
|
export type CreatorOrganization = typeof CreatorOrganizationSchema.Type;
|
|
1099
|
-
/**
|
|
1100
|
-
* Definition of an invocation report for this workflow. Currently the only
|
|
1101
|
-
field is 'markdown'.
|
|
1102
|
-
*/
|
|
1103
|
-
export declare const ReportSchema: Schema.Struct<{
|
|
1104
|
-
/** Galaxy flavored Markdown to define an invocation report. */
|
|
1105
|
-
markdown: typeof Schema.String;
|
|
1106
|
-
}>;
|
|
1107
|
-
export type Report = typeof ReportSchema.Type;
|
|
1108
1313
|
/**
|
|
1109
1314
|
* Base fields shared by all comment types.
|
|
1110
1315
|
*/
|
|
@@ -1161,6 +1366,35 @@ export declare const CreatorPersonSchema: Schema.Struct<{
|
|
|
1161
1366
|
faxNumber: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1162
1367
|
}>;
|
|
1163
1368
|
export type CreatorPerson = typeof CreatorPersonSchema.Type;
|
|
1369
|
+
/**
|
|
1370
|
+
* A plain text annotation in the workflow editor.
|
|
1371
|
+
*/
|
|
1372
|
+
export declare const TextCommentSchema: Schema.Struct<{
|
|
1373
|
+
/** Comment type (``text``). */
|
|
1374
|
+
type: Schema.Literal<["text"]>;
|
|
1375
|
+
/** The text content. */
|
|
1376
|
+
text: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1377
|
+
/** Whether the text is displayed in bold. */
|
|
1378
|
+
bold: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
1379
|
+
/** Whether the text is displayed in italic. */
|
|
1380
|
+
italic: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
1381
|
+
/** Font size of the text. */
|
|
1382
|
+
text_size: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Number]>>;
|
|
1383
|
+
position: Schema.optional<Schema.Union<[Schema.Array$<typeof Schema.Number>, typeof Schema.Null]>>;
|
|
1384
|
+
size: Schema.optional<Schema.Union<[Schema.Array$<typeof Schema.Number>, typeof Schema.Null]>>;
|
|
1385
|
+
color: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1386
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1387
|
+
}>;
|
|
1388
|
+
export type TextComment = typeof TextCommentSchema.Type;
|
|
1389
|
+
/**
|
|
1390
|
+
* Definition of an invocation report for this workflow. Currently the only
|
|
1391
|
+
field is 'markdown'.
|
|
1392
|
+
*/
|
|
1393
|
+
export declare const ReportSchema: Schema.Struct<{
|
|
1394
|
+
/** Galaxy flavored Markdown to define an invocation report. */
|
|
1395
|
+
markdown: typeof Schema.String;
|
|
1396
|
+
}>;
|
|
1397
|
+
export type Report = typeof ReportSchema.Type;
|
|
1164
1398
|
/**
|
|
1165
1399
|
* A rectangular grouping box that visually contains steps and other comments.
|
|
1166
1400
|
*/
|
|
@@ -1195,26 +1429,6 @@ export declare const FreehandCommentSchema: Schema.Struct<{
|
|
|
1195
1429
|
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1196
1430
|
}>;
|
|
1197
1431
|
export type FreehandComment = typeof FreehandCommentSchema.Type;
|
|
1198
|
-
/**
|
|
1199
|
-
* A plain text annotation in the workflow editor.
|
|
1200
|
-
*/
|
|
1201
|
-
export declare const TextCommentSchema: Schema.Struct<{
|
|
1202
|
-
/** Comment type (``text``). */
|
|
1203
|
-
type: Schema.Literal<["text"]>;
|
|
1204
|
-
/** The text content. */
|
|
1205
|
-
text: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1206
|
-
/** Whether the text is displayed in bold. */
|
|
1207
|
-
bold: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
1208
|
-
/** Whether the text is displayed in italic. */
|
|
1209
|
-
italic: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
1210
|
-
/** Font size of the text. */
|
|
1211
|
-
text_size: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Number]>>;
|
|
1212
|
-
position: Schema.optional<Schema.Union<[Schema.Array$<typeof Schema.Number>, typeof Schema.Null]>>;
|
|
1213
|
-
size: Schema.optional<Schema.Union<[Schema.Array$<typeof Schema.Number>, typeof Schema.Null]>>;
|
|
1214
|
-
color: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1215
|
-
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1216
|
-
}>;
|
|
1217
|
-
export type TextComment = typeof TextCommentSchema.Type;
|
|
1218
1432
|
/**
|
|
1219
1433
|
* A Galaxy workflow description. This record corresponds to the description of a workflow that should be executable
|
|
1220
1434
|
on a Galaxy server that includes the contained tool definitions.
|
|
@@ -1528,6 +1742,17 @@ export declare const GalaxyWorkflowSchema: Schema.Struct<{
|
|
|
1528
1742
|
}>]>>]>>;
|
|
1529
1743
|
/** Ask Galaxy to derive valid choices from connected tool or subworkflow select inputs at runtime. Falls back to free text when derivation fails. */
|
|
1530
1744
|
restrictOnConnections: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
1745
|
+
/** Validators applied to values supplied for this input. */
|
|
1746
|
+
validators: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<Schema.Struct<{
|
|
1747
|
+
/** Validator type. Only `regex` is supported. */
|
|
1748
|
+
type: Schema.Literal<["regex"]>;
|
|
1749
|
+
/** Regular expression matched from the start of the value. End it with `$` to require a complete-value match. */
|
|
1750
|
+
expression: typeof Schema.String;
|
|
1751
|
+
/** Message shown when a value fails validation. */
|
|
1752
|
+
message: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1753
|
+
/** Reject matching values instead of values that do not match. Defaults to `false`. */
|
|
1754
|
+
negate: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
1755
|
+
}>>]>>;
|
|
1531
1756
|
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
1532
1757
|
}>, Schema.Struct<{
|
|
1533
1758
|
/** The unique identifier for this object. */
|
|
@@ -1547,6 +1772,53 @@ export declare const GalaxyWorkflowSchema: Schema.Struct<{
|
|
|
1547
1772
|
/** Must be ``boolean``. */
|
|
1548
1773
|
type: Schema.Literal<["boolean"]>;
|
|
1549
1774
|
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
1775
|
+
}>, Schema.Struct<{
|
|
1776
|
+
/** The unique identifier for this object. */
|
|
1777
|
+
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1778
|
+
/** A short, human-readable label of this object. */
|
|
1779
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1780
|
+
/** A documentation string for this object, or an array of strings which should be concatenated. */
|
|
1781
|
+
doc: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
1782
|
+
/** The default value to use for this parameter if the parameter is missing from the input object, or if the value of the parameter in the input object is `null`. Default values are applied before eva... */
|
|
1783
|
+
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
1784
|
+
position: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Struct<{
|
|
1785
|
+
/** Relative vertical position of the step's node when rendered in the workflow editor. */
|
|
1786
|
+
top: typeof Schema.Number;
|
|
1787
|
+
/** Relative horizontal position of the step's node when rendered in the workflow editor. */
|
|
1788
|
+
left: typeof Schema.Number;
|
|
1789
|
+
}>]>>;
|
|
1790
|
+
/** Must be ``color``. */
|
|
1791
|
+
type: Schema.Literal<["color"]>;
|
|
1792
|
+
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
1793
|
+
}>, Schema.Struct<{
|
|
1794
|
+
/** The unique identifier for this object. */
|
|
1795
|
+
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1796
|
+
/** A short, human-readable label of this object. */
|
|
1797
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1798
|
+
/** A documentation string for this object, or an array of strings which should be concatenated. */
|
|
1799
|
+
doc: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
1800
|
+
/** The default value to use for this parameter if the parameter is missing from the input object, or if the value of the parameter in the input object is `null`. Default values are applied before eva... */
|
|
1801
|
+
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
1802
|
+
position: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Struct<{
|
|
1803
|
+
/** Relative vertical position of the step's node when rendered in the workflow editor. */
|
|
1804
|
+
top: typeof Schema.Number;
|
|
1805
|
+
/** Relative horizontal position of the step's node when rendered in the workflow editor. */
|
|
1806
|
+
left: typeof Schema.Number;
|
|
1807
|
+
}>]>>;
|
|
1808
|
+
/** Must be ``directory_uri``. */
|
|
1809
|
+
type: Schema.Literal<["directory_uri"]>;
|
|
1810
|
+
/** Validators applied to values supplied for this input. */
|
|
1811
|
+
validators: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<Schema.Struct<{
|
|
1812
|
+
/** Validator type. Only `regex` is supported. */
|
|
1813
|
+
type: Schema.Literal<["regex"]>;
|
|
1814
|
+
/** Regular expression matched from the start of the value. End it with `$` to require a complete-value match. */
|
|
1815
|
+
expression: typeof Schema.String;
|
|
1816
|
+
/** Message shown when a value fails validation. */
|
|
1817
|
+
message: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1818
|
+
/** Reject matching values instead of values that do not match. Defaults to `false`. */
|
|
1819
|
+
negate: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
1820
|
+
}>>]>>;
|
|
1821
|
+
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
1550
1822
|
}>]>>, Schema.Record$<typeof Schema.String, Schema.Union<[Schema.Struct<{
|
|
1551
1823
|
/** The unique identifier for this object. */
|
|
1552
1824
|
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
@@ -1690,6 +1962,17 @@ export declare const GalaxyWorkflowSchema: Schema.Struct<{
|
|
|
1690
1962
|
}>]>>]>>;
|
|
1691
1963
|
/** Ask Galaxy to derive valid choices from connected tool or subworkflow select inputs at runtime. Falls back to free text when derivation fails. */
|
|
1692
1964
|
restrictOnConnections: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
1965
|
+
/** Validators applied to values supplied for this input. */
|
|
1966
|
+
validators: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<Schema.Struct<{
|
|
1967
|
+
/** Validator type. Only `regex` is supported. */
|
|
1968
|
+
type: Schema.Literal<["regex"]>;
|
|
1969
|
+
/** Regular expression matched from the start of the value. End it with `$` to require a complete-value match. */
|
|
1970
|
+
expression: typeof Schema.String;
|
|
1971
|
+
/** Message shown when a value fails validation. */
|
|
1972
|
+
message: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1973
|
+
/** Reject matching values instead of values that do not match. Defaults to `false`. */
|
|
1974
|
+
negate: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
1975
|
+
}>>]>>;
|
|
1693
1976
|
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
1694
1977
|
}>, Schema.Struct<{
|
|
1695
1978
|
/** The unique identifier for this object. */
|
|
@@ -1709,6 +1992,53 @@ export declare const GalaxyWorkflowSchema: Schema.Struct<{
|
|
|
1709
1992
|
/** Must be ``boolean``. */
|
|
1710
1993
|
type: Schema.Literal<["boolean"]>;
|
|
1711
1994
|
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
1995
|
+
}>, Schema.Struct<{
|
|
1996
|
+
/** The unique identifier for this object. */
|
|
1997
|
+
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1998
|
+
/** A short, human-readable label of this object. */
|
|
1999
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2000
|
+
/** A documentation string for this object, or an array of strings which should be concatenated. */
|
|
2001
|
+
doc: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
2002
|
+
/** The default value to use for this parameter if the parameter is missing from the input object, or if the value of the parameter in the input object is `null`. Default values are applied before eva... */
|
|
2003
|
+
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
2004
|
+
position: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Struct<{
|
|
2005
|
+
/** Relative vertical position of the step's node when rendered in the workflow editor. */
|
|
2006
|
+
top: typeof Schema.Number;
|
|
2007
|
+
/** Relative horizontal position of the step's node when rendered in the workflow editor. */
|
|
2008
|
+
left: typeof Schema.Number;
|
|
2009
|
+
}>]>>;
|
|
2010
|
+
/** Must be ``color``. */
|
|
2011
|
+
type: Schema.Literal<["color"]>;
|
|
2012
|
+
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
2013
|
+
}>, Schema.Struct<{
|
|
2014
|
+
/** The unique identifier for this object. */
|
|
2015
|
+
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2016
|
+
/** A short, human-readable label of this object. */
|
|
2017
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2018
|
+
/** A documentation string for this object, or an array of strings which should be concatenated. */
|
|
2019
|
+
doc: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
2020
|
+
/** The default value to use for this parameter if the parameter is missing from the input object, or if the value of the parameter in the input object is `null`. Default values are applied before eva... */
|
|
2021
|
+
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
2022
|
+
position: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Struct<{
|
|
2023
|
+
/** Relative vertical position of the step's node when rendered in the workflow editor. */
|
|
2024
|
+
top: typeof Schema.Number;
|
|
2025
|
+
/** Relative horizontal position of the step's node when rendered in the workflow editor. */
|
|
2026
|
+
left: typeof Schema.Number;
|
|
2027
|
+
}>]>>;
|
|
2028
|
+
/** Must be ``directory_uri``. */
|
|
2029
|
+
type: Schema.Literal<["directory_uri"]>;
|
|
2030
|
+
/** Validators applied to values supplied for this input. */
|
|
2031
|
+
validators: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<Schema.Struct<{
|
|
2032
|
+
/** Validator type. Only `regex` is supported. */
|
|
2033
|
+
type: Schema.Literal<["regex"]>;
|
|
2034
|
+
/** Regular expression matched from the start of the value. End it with `$` to require a complete-value match. */
|
|
2035
|
+
expression: typeof Schema.String;
|
|
2036
|
+
/** Message shown when a value fails validation. */
|
|
2037
|
+
message: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2038
|
+
/** Reject matching values instead of values that do not match. Defaults to `false`. */
|
|
2039
|
+
negate: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
2040
|
+
}>>]>>;
|
|
2041
|
+
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
1712
2042
|
}>, typeof Schema.String]>>, Schema.Record$<typeof Schema.String, typeof Schema.Unknown>]>;
|
|
1713
2043
|
outputs: Schema.Union<[Schema.Array$<Schema.Struct<{
|
|
1714
2044
|
/** The unique identifier for this object. */
|
|
@@ -1720,7 +2050,7 @@ export declare const GalaxyWorkflowSchema: Schema.Struct<{
|
|
|
1720
2050
|
/** Specifies workflow parameter that supply the value of to the output parameter. */
|
|
1721
2051
|
outputSource: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1722
2052
|
/** Specify valid types of data that may be assigned to this parameter. */
|
|
1723
|
-
type: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection"]>]>>;
|
|
2053
|
+
type: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection", "color", "directory_uri"]>]>>;
|
|
1724
2054
|
}>>, Schema.Record$<typeof Schema.String, Schema.Union<[Schema.Struct<{
|
|
1725
2055
|
/** The unique identifier for this object. */
|
|
1726
2056
|
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
@@ -1731,7 +2061,7 @@ export declare const GalaxyWorkflowSchema: Schema.Struct<{
|
|
|
1731
2061
|
/** Specifies workflow parameter that supply the value of to the output parameter. */
|
|
1732
2062
|
outputSource: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
1733
2063
|
/** Specify valid types of data that may be assigned to this parameter. */
|
|
1734
|
-
type: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection"]>]>>;
|
|
2064
|
+
type: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection", "color", "directory_uri"]>]>>;
|
|
1735
2065
|
}>, typeof Schema.String]>>, Schema.Record$<typeof Schema.String, typeof Schema.Unknown>]>;
|
|
1736
2066
|
}>;
|
|
1737
2067
|
export type GalaxyWorkflow = typeof GalaxyWorkflowSchema.Type;
|
|
@@ -2095,6 +2425,17 @@ export declare const WorkflowStepSchema: Schema.Struct<{
|
|
|
2095
2425
|
}>]>>]>>;
|
|
2096
2426
|
/** Ask Galaxy to derive valid choices from connected tool or subworkflow select inputs at runtime. Falls back to free text when derivation fails. */
|
|
2097
2427
|
restrictOnConnections: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
2428
|
+
/** Validators applied to values supplied for this input. */
|
|
2429
|
+
validators: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<Schema.Struct<{
|
|
2430
|
+
/** Validator type. Only `regex` is supported. */
|
|
2431
|
+
type: Schema.Literal<["regex"]>;
|
|
2432
|
+
/** Regular expression matched from the start of the value. End it with `$` to require a complete-value match. */
|
|
2433
|
+
expression: typeof Schema.String;
|
|
2434
|
+
/** Message shown when a value fails validation. */
|
|
2435
|
+
message: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2436
|
+
/** Reject matching values instead of values that do not match. Defaults to `false`. */
|
|
2437
|
+
negate: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
2438
|
+
}>>]>>;
|
|
2098
2439
|
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
2099
2440
|
}>, Schema.Struct<{
|
|
2100
2441
|
/** The unique identifier for this object. */
|
|
@@ -2114,6 +2455,53 @@ export declare const WorkflowStepSchema: Schema.Struct<{
|
|
|
2114
2455
|
/** Must be ``boolean``. */
|
|
2115
2456
|
type: Schema.Literal<["boolean"]>;
|
|
2116
2457
|
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
2458
|
+
}>, Schema.Struct<{
|
|
2459
|
+
/** The unique identifier for this object. */
|
|
2460
|
+
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2461
|
+
/** A short, human-readable label of this object. */
|
|
2462
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2463
|
+
/** A documentation string for this object, or an array of strings which should be concatenated. */
|
|
2464
|
+
doc: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
2465
|
+
/** The default value to use for this parameter if the parameter is missing from the input object, or if the value of the parameter in the input object is `null`. Default values are applied before eva... */
|
|
2466
|
+
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
2467
|
+
position: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Struct<{
|
|
2468
|
+
/** Relative vertical position of the step's node when rendered in the workflow editor. */
|
|
2469
|
+
top: typeof Schema.Number;
|
|
2470
|
+
/** Relative horizontal position of the step's node when rendered in the workflow editor. */
|
|
2471
|
+
left: typeof Schema.Number;
|
|
2472
|
+
}>]>>;
|
|
2473
|
+
/** Must be ``color``. */
|
|
2474
|
+
type: Schema.Literal<["color"]>;
|
|
2475
|
+
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
2476
|
+
}>, Schema.Struct<{
|
|
2477
|
+
/** The unique identifier for this object. */
|
|
2478
|
+
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2479
|
+
/** A short, human-readable label of this object. */
|
|
2480
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2481
|
+
/** A documentation string for this object, or an array of strings which should be concatenated. */
|
|
2482
|
+
doc: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
2483
|
+
/** The default value to use for this parameter if the parameter is missing from the input object, or if the value of the parameter in the input object is `null`. Default values are applied before eva... */
|
|
2484
|
+
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
2485
|
+
position: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Struct<{
|
|
2486
|
+
/** Relative vertical position of the step's node when rendered in the workflow editor. */
|
|
2487
|
+
top: typeof Schema.Number;
|
|
2488
|
+
/** Relative horizontal position of the step's node when rendered in the workflow editor. */
|
|
2489
|
+
left: typeof Schema.Number;
|
|
2490
|
+
}>]>>;
|
|
2491
|
+
/** Must be ``directory_uri``. */
|
|
2492
|
+
type: Schema.Literal<["directory_uri"]>;
|
|
2493
|
+
/** Validators applied to values supplied for this input. */
|
|
2494
|
+
validators: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<Schema.Struct<{
|
|
2495
|
+
/** Validator type. Only `regex` is supported. */
|
|
2496
|
+
type: Schema.Literal<["regex"]>;
|
|
2497
|
+
/** Regular expression matched from the start of the value. End it with `$` to require a complete-value match. */
|
|
2498
|
+
expression: typeof Schema.String;
|
|
2499
|
+
/** Message shown when a value fails validation. */
|
|
2500
|
+
message: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2501
|
+
/** Reject matching values instead of values that do not match. Defaults to `false`. */
|
|
2502
|
+
negate: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
2503
|
+
}>>]>>;
|
|
2504
|
+
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
2117
2505
|
}>]>>, Schema.Record$<typeof Schema.String, Schema.Union<[Schema.Struct<{
|
|
2118
2506
|
/** The unique identifier for this object. */
|
|
2119
2507
|
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
@@ -2257,6 +2645,17 @@ export declare const WorkflowStepSchema: Schema.Struct<{
|
|
|
2257
2645
|
}>]>>]>>;
|
|
2258
2646
|
/** Ask Galaxy to derive valid choices from connected tool or subworkflow select inputs at runtime. Falls back to free text when derivation fails. */
|
|
2259
2647
|
restrictOnConnections: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
2648
|
+
/** Validators applied to values supplied for this input. */
|
|
2649
|
+
validators: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<Schema.Struct<{
|
|
2650
|
+
/** Validator type. Only `regex` is supported. */
|
|
2651
|
+
type: Schema.Literal<["regex"]>;
|
|
2652
|
+
/** Regular expression matched from the start of the value. End it with `$` to require a complete-value match. */
|
|
2653
|
+
expression: typeof Schema.String;
|
|
2654
|
+
/** Message shown when a value fails validation. */
|
|
2655
|
+
message: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2656
|
+
/** Reject matching values instead of values that do not match. Defaults to `false`. */
|
|
2657
|
+
negate: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
2658
|
+
}>>]>>;
|
|
2260
2659
|
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
2261
2660
|
}>, Schema.Struct<{
|
|
2262
2661
|
/** The unique identifier for this object. */
|
|
@@ -2276,6 +2675,53 @@ export declare const WorkflowStepSchema: Schema.Struct<{
|
|
|
2276
2675
|
/** Must be ``boolean``. */
|
|
2277
2676
|
type: Schema.Literal<["boolean"]>;
|
|
2278
2677
|
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
2678
|
+
}>, Schema.Struct<{
|
|
2679
|
+
/** The unique identifier for this object. */
|
|
2680
|
+
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2681
|
+
/** A short, human-readable label of this object. */
|
|
2682
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2683
|
+
/** A documentation string for this object, or an array of strings which should be concatenated. */
|
|
2684
|
+
doc: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
2685
|
+
/** The default value to use for this parameter if the parameter is missing from the input object, or if the value of the parameter in the input object is `null`. Default values are applied before eva... */
|
|
2686
|
+
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
2687
|
+
position: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Struct<{
|
|
2688
|
+
/** Relative vertical position of the step's node when rendered in the workflow editor. */
|
|
2689
|
+
top: typeof Schema.Number;
|
|
2690
|
+
/** Relative horizontal position of the step's node when rendered in the workflow editor. */
|
|
2691
|
+
left: typeof Schema.Number;
|
|
2692
|
+
}>]>>;
|
|
2693
|
+
/** Must be ``color``. */
|
|
2694
|
+
type: Schema.Literal<["color"]>;
|
|
2695
|
+
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
2696
|
+
}>, Schema.Struct<{
|
|
2697
|
+
/** The unique identifier for this object. */
|
|
2698
|
+
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2699
|
+
/** A short, human-readable label of this object. */
|
|
2700
|
+
label: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2701
|
+
/** A documentation string for this object, or an array of strings which should be concatenated. */
|
|
2702
|
+
doc: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String, Schema.Array$<typeof Schema.String>]>>;
|
|
2703
|
+
/** The default value to use for this parameter if the parameter is missing from the input object, or if the value of the parameter in the input object is `null`. Default values are applied before eva... */
|
|
2704
|
+
default: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Unknown]>>;
|
|
2705
|
+
position: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Struct<{
|
|
2706
|
+
/** Relative vertical position of the step's node when rendered in the workflow editor. */
|
|
2707
|
+
top: typeof Schema.Number;
|
|
2708
|
+
/** Relative horizontal position of the step's node when rendered in the workflow editor. */
|
|
2709
|
+
left: typeof Schema.Number;
|
|
2710
|
+
}>]>>;
|
|
2711
|
+
/** Must be ``directory_uri``. */
|
|
2712
|
+
type: Schema.Literal<["directory_uri"]>;
|
|
2713
|
+
/** Validators applied to values supplied for this input. */
|
|
2714
|
+
validators: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<Schema.Struct<{
|
|
2715
|
+
/** Validator type. Only `regex` is supported. */
|
|
2716
|
+
type: Schema.Literal<["regex"]>;
|
|
2717
|
+
/** Regular expression matched from the start of the value. End it with `$` to require a complete-value match. */
|
|
2718
|
+
expression: typeof Schema.String;
|
|
2719
|
+
/** Message shown when a value fails validation. */
|
|
2720
|
+
message: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2721
|
+
/** Reject matching values instead of values that do not match. Defaults to `false`. */
|
|
2722
|
+
negate: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.Boolean]>>;
|
|
2723
|
+
}>>]>>;
|
|
2724
|
+
optional: Schema.optional<Schema.Union<[typeof Schema.Boolean, typeof Schema.Null]>>;
|
|
2279
2725
|
}>, typeof Schema.String]>>, Schema.Record$<typeof Schema.String, typeof Schema.Unknown>]>;
|
|
2280
2726
|
outputs: Schema.Union<[Schema.Array$<Schema.Struct<{
|
|
2281
2727
|
/** The unique identifier for this object. */
|
|
@@ -2287,7 +2733,7 @@ export declare const WorkflowStepSchema: Schema.Struct<{
|
|
|
2287
2733
|
/** Specifies workflow parameter that supply the value of to the output parameter. */
|
|
2288
2734
|
outputSource: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2289
2735
|
/** Specify valid types of data that may be assigned to this parameter. */
|
|
2290
|
-
type: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection"]>]>>;
|
|
2736
|
+
type: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection", "color", "directory_uri"]>]>>;
|
|
2291
2737
|
}>>, Schema.Record$<typeof Schema.String, Schema.Union<[Schema.Struct<{
|
|
2292
2738
|
/** The unique identifier for this object. */
|
|
2293
2739
|
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
@@ -2298,7 +2744,7 @@ export declare const WorkflowStepSchema: Schema.Struct<{
|
|
|
2298
2744
|
/** Specifies workflow parameter that supply the value of to the output parameter. */
|
|
2299
2745
|
outputSource: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2300
2746
|
/** Specify valid types of data that may be assigned to this parameter. */
|
|
2301
|
-
type: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection"]>]>>;
|
|
2747
|
+
type: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Literal<["null", "boolean", "int", "long", "float", "double", "string", "integer", "text", "File", "data", "collection", "color", "directory_uri"]>]>>;
|
|
2302
2748
|
}>, typeof Schema.String]>>, Schema.Record$<typeof Schema.String, typeof Schema.Unknown>]>;
|
|
2303
2749
|
}>, typeof Schema.String, Schema.Record$<typeof Schema.String, typeof Schema.Unknown>, typeof Schema.Null]>>;
|
|
2304
2750
|
runtime_inputs: Schema.optional<Schema.Union<[typeof Schema.Null, Schema.Array$<typeof Schema.String>]>>;
|
|
@@ -2329,10 +2775,12 @@ export declare const WorkflowStepSchema: Schema.Struct<{
|
|
|
2329
2775
|
id: Schema.optional<Schema.Union<[typeof Schema.Null, typeof Schema.String]>>;
|
|
2330
2776
|
}>;
|
|
2331
2777
|
export type WorkflowStep = typeof WorkflowStepSchema.Type;
|
|
2332
|
-
export declare function isWorkflowDataParameter(v: WorkflowDataParameter | WorkflowCollectionParameter | WorkflowIntegerParameter | WorkflowTextParameter | WorkflowFloatParameter | WorkflowBooleanParameter): v is WorkflowDataParameter;
|
|
2333
|
-
export declare function isWorkflowCollectionParameter(v: WorkflowDataParameter | WorkflowCollectionParameter | WorkflowIntegerParameter | WorkflowTextParameter | WorkflowFloatParameter | WorkflowBooleanParameter): v is WorkflowCollectionParameter;
|
|
2334
|
-
export declare function isWorkflowIntegerParameter(v: WorkflowDataParameter | WorkflowCollectionParameter | WorkflowIntegerParameter | WorkflowTextParameter | WorkflowFloatParameter | WorkflowBooleanParameter): v is WorkflowIntegerParameter;
|
|
2335
|
-
export declare function isWorkflowTextParameter(v: WorkflowDataParameter | WorkflowCollectionParameter | WorkflowIntegerParameter | WorkflowTextParameter | WorkflowFloatParameter | WorkflowBooleanParameter): v is WorkflowTextParameter;
|
|
2336
|
-
export declare function isWorkflowFloatParameter(v: WorkflowDataParameter | WorkflowCollectionParameter | WorkflowIntegerParameter | WorkflowTextParameter | WorkflowFloatParameter | WorkflowBooleanParameter): v is WorkflowFloatParameter;
|
|
2337
|
-
export declare function isWorkflowBooleanParameter(v: WorkflowDataParameter | WorkflowCollectionParameter | WorkflowIntegerParameter | WorkflowTextParameter | WorkflowFloatParameter | WorkflowBooleanParameter): v is WorkflowBooleanParameter;
|
|
2778
|
+
export declare function isWorkflowDataParameter(v: WorkflowDataParameter | WorkflowCollectionParameter | WorkflowIntegerParameter | WorkflowTextParameter | WorkflowFloatParameter | WorkflowBooleanParameter | WorkflowColorParameter | WorkflowDirectoryUriParameter): v is WorkflowDataParameter;
|
|
2779
|
+
export declare function isWorkflowCollectionParameter(v: WorkflowDataParameter | WorkflowCollectionParameter | WorkflowIntegerParameter | WorkflowTextParameter | WorkflowFloatParameter | WorkflowBooleanParameter | WorkflowColorParameter | WorkflowDirectoryUriParameter): v is WorkflowCollectionParameter;
|
|
2780
|
+
export declare function isWorkflowIntegerParameter(v: WorkflowDataParameter | WorkflowCollectionParameter | WorkflowIntegerParameter | WorkflowTextParameter | WorkflowFloatParameter | WorkflowBooleanParameter | WorkflowColorParameter | WorkflowDirectoryUriParameter): v is WorkflowIntegerParameter;
|
|
2781
|
+
export declare function isWorkflowTextParameter(v: WorkflowDataParameter | WorkflowCollectionParameter | WorkflowIntegerParameter | WorkflowTextParameter | WorkflowFloatParameter | WorkflowBooleanParameter | WorkflowColorParameter | WorkflowDirectoryUriParameter): v is WorkflowTextParameter;
|
|
2782
|
+
export declare function isWorkflowFloatParameter(v: WorkflowDataParameter | WorkflowCollectionParameter | WorkflowIntegerParameter | WorkflowTextParameter | WorkflowFloatParameter | WorkflowBooleanParameter | WorkflowColorParameter | WorkflowDirectoryUriParameter): v is WorkflowFloatParameter;
|
|
2783
|
+
export declare function isWorkflowBooleanParameter(v: WorkflowDataParameter | WorkflowCollectionParameter | WorkflowIntegerParameter | WorkflowTextParameter | WorkflowFloatParameter | WorkflowBooleanParameter | WorkflowColorParameter | WorkflowDirectoryUriParameter): v is WorkflowBooleanParameter;
|
|
2784
|
+
export declare function isWorkflowColorParameter(v: WorkflowDataParameter | WorkflowCollectionParameter | WorkflowIntegerParameter | WorkflowTextParameter | WorkflowFloatParameter | WorkflowBooleanParameter | WorkflowColorParameter | WorkflowDirectoryUriParameter): v is WorkflowColorParameter;
|
|
2785
|
+
export declare function isWorkflowDirectoryUriParameter(v: WorkflowDataParameter | WorkflowCollectionParameter | WorkflowIntegerParameter | WorkflowTextParameter | WorkflowFloatParameter | WorkflowBooleanParameter | WorkflowColorParameter | WorkflowDirectoryUriParameter): v is WorkflowDirectoryUriParameter;
|
|
2338
2786
|
//# sourceMappingURL=gxformat2.effect.d.ts.map
|