@nfdi4plants/arctrl 2.5.1 → 3.0.0-alpha.2

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (1596) hide show
  1. package/LICENSE +21 -0
  2. package/README.md +1 -1
  3. package/dist/ts/cjs/index.js +39 -0
  4. package/dist/ts/cjs/ts/ARC.js +965 -0
  5. package/dist/ts/cjs/ts/Contract/ARC.js +61 -0
  6. package/dist/ts/cjs/ts/Contract/ArcAssay.js +103 -0
  7. package/dist/ts/cjs/ts/Contract/ArcInvestigation.js +77 -0
  8. package/dist/ts/cjs/ts/Contract/ArcRun.js +103 -0
  9. package/dist/ts/cjs/ts/Contract/ArcStudy.js +103 -0
  10. package/dist/ts/cjs/ts/Contract/ArcWorkflow.js +104 -0
  11. package/dist/ts/cjs/ts/Contract/Contract.js +100 -0
  12. package/dist/ts/cjs/ts/Contract/Datamap.js +314 -0
  13. package/dist/ts/cjs/ts/Contract/Git.js +94 -0
  14. package/dist/ts/cjs/ts/Contract/ValidationPackagesConfig.js +97 -0
  15. package/dist/ts/cjs/ts/ContractIO/ContractIO.js +217 -0
  16. package/dist/ts/cjs/ts/ContractIO/FileSystemHelper.js +205 -0
  17. package/dist/ts/cjs/ts/Conversion.js +1700 -0
  18. package/dist/ts/cjs/ts/Core/ArcTypes.js +3803 -0
  19. package/dist/ts/cjs/ts/Core/Comment.js +106 -0
  20. package/dist/ts/cjs/ts/Core/CommentList.js +134 -0
  21. package/dist/ts/cjs/ts/Core/Conversion.js +1131 -0
  22. package/dist/ts/cjs/ts/Core/Data.js +194 -0
  23. package/dist/ts/cjs/ts/Core/DataContext.js +141 -0
  24. package/dist/ts/cjs/ts/Core/DataFile.js +98 -0
  25. package/dist/ts/cjs/ts/Core/DataMap.js +185 -0
  26. package/dist/ts/cjs/ts/Core/Helper/Collections.js +419 -0
  27. package/dist/ts/cjs/ts/Core/Helper/HashCodes.js +40 -0
  28. package/dist/ts/cjs/ts/Core/Helper/Identifier.js +329 -0
  29. package/dist/ts/cjs/ts/Core/Helper/ORCID.js +40 -0
  30. package/dist/ts/cjs/ts/Core/Helper/Printer.js +2 -0
  31. package/dist/ts/cjs/ts/Core/Helper/Regex.js +616 -0
  32. package/dist/ts/cjs/ts/Core/Helper/SemVer.js +59 -0
  33. package/dist/ts/cjs/ts/Core/Helper/Url.js +40 -0
  34. package/dist/ts/cjs/ts/Core/IPropertyValue.js +2 -0
  35. package/dist/ts/cjs/ts/Core/IdentifierSetters.js +27 -0
  36. package/dist/ts/cjs/ts/Core/OntologyAnnotation.js +215 -0
  37. package/dist/ts/cjs/ts/Core/OntologySourceReference.js +94 -0
  38. package/dist/ts/cjs/ts/Core/Person.js +196 -0
  39. package/dist/ts/cjs/ts/Core/Process/ColumnIndex.js +258 -0
  40. package/dist/ts/cjs/ts/Core/Process/Component.js +200 -0
  41. package/dist/ts/cjs/ts/Core/Process/Factor.js +111 -0
  42. package/dist/ts/cjs/ts/Core/Process/FactorValue.js +143 -0
  43. package/dist/ts/cjs/ts/Core/Process/Material.js +68 -0
  44. package/dist/ts/cjs/ts/Core/Process/MaterialAttribute.js +103 -0
  45. package/dist/ts/cjs/ts/Core/Process/MaterialAttributeValue.js +160 -0
  46. package/dist/ts/cjs/ts/Core/Process/MaterialType.js +51 -0
  47. package/dist/ts/cjs/ts/Core/Process/Process.js +371 -0
  48. package/dist/ts/cjs/ts/Core/Process/ProcessInput.js +321 -0
  49. package/dist/ts/cjs/ts/Core/Process/ProcessOutput.js +282 -0
  50. package/dist/ts/cjs/ts/Core/Process/ProcessParameterValue.js +141 -0
  51. package/dist/ts/cjs/ts/Core/Process/ProcessSequence.js +250 -0
  52. package/dist/ts/cjs/ts/Core/Process/Protocol.js +248 -0
  53. package/dist/ts/cjs/ts/Core/Process/ProtocolParameter.js +75 -0
  54. package/dist/ts/cjs/ts/Core/Process/Sample.js +73 -0
  55. package/dist/ts/cjs/ts/Core/Process/Source.js +56 -0
  56. package/dist/ts/cjs/ts/Core/Publication.js +118 -0
  57. package/dist/ts/cjs/ts/Core/Table/ArcTable.js +906 -0
  58. package/dist/ts/cjs/ts/Core/Table/ArcTableAux.js +582 -0
  59. package/dist/ts/cjs/ts/Core/Table/ArcTables.js +483 -0
  60. package/dist/ts/cjs/ts/Core/Table/CompositeCell.js +317 -0
  61. package/dist/ts/cjs/ts/Core/Table/CompositeColumn.js +58 -0
  62. package/dist/ts/cjs/ts/Core/Table/CompositeHeader.js +718 -0
  63. package/dist/ts/cjs/ts/Core/Template.js +196 -0
  64. package/dist/ts/cjs/ts/Core/Templates.js +86 -0
  65. package/dist/ts/cjs/ts/Core/URI.js +20 -0
  66. package/dist/ts/cjs/ts/Core/Value.js +191 -0
  67. package/dist/ts/cjs/ts/CrossAsync.js +35 -0
  68. package/dist/ts/cjs/ts/FileSystem/Commit.js +20 -0
  69. package/dist/ts/cjs/ts/FileSystem/DefaultGitattributes.js +4 -0
  70. package/dist/ts/cjs/ts/FileSystem/DefaultGitignore.js +4 -0
  71. package/dist/ts/cjs/ts/FileSystem/FileSystem.js +55 -0
  72. package/dist/ts/cjs/ts/FileSystem/FileSystemTree.js +322 -0
  73. package/dist/ts/cjs/ts/FileSystem/Path.js +63 -0
  74. package/dist/ts/cjs/ts/Json/Assay.js +234 -0
  75. package/dist/ts/cjs/ts/Json/Comment.js +119 -0
  76. package/dist/ts/cjs/ts/Json/Data.js +147 -0
  77. package/dist/ts/cjs/ts/Json/DataFile.js +54 -0
  78. package/dist/ts/cjs/ts/Json/DataMap/DataContext.js +40 -0
  79. package/dist/ts/cjs/ts/Json/DataMap/DataMap.js +30 -0
  80. package/dist/ts/cjs/ts/Json/Decode.js +126 -0
  81. package/dist/ts/cjs/ts/Json/Encode.js +75 -0
  82. package/dist/ts/cjs/ts/Json/IDTable.js +30 -0
  83. package/dist/ts/cjs/ts/Json/Investigation.js +254 -0
  84. package/dist/ts/cjs/ts/Json/OntologyAnnotation.js +207 -0
  85. package/dist/ts/cjs/ts/Json/OntologySourceReference.js +125 -0
  86. package/dist/ts/cjs/ts/Json/Person.js +338 -0
  87. package/dist/ts/cjs/ts/Json/Process/AssayMaterials.js +21 -0
  88. package/dist/ts/cjs/ts/Json/Process/Component.js +47 -0
  89. package/dist/ts/cjs/ts/Json/Process/Factor.js +58 -0
  90. package/dist/ts/cjs/ts/Json/Process/FactorValue.js +47 -0
  91. package/dist/ts/cjs/ts/Json/Process/Material.js +120 -0
  92. package/dist/ts/cjs/ts/Json/Process/MaterialAttribute.js +47 -0
  93. package/dist/ts/cjs/ts/Json/Process/MaterialAttributeValue.js +47 -0
  94. package/dist/ts/cjs/ts/Json/Process/MaterialType.js +46 -0
  95. package/dist/ts/cjs/ts/Json/Process/Process.js +109 -0
  96. package/dist/ts/cjs/ts/Json/Process/ProcessInput.js +38 -0
  97. package/dist/ts/cjs/ts/Json/Process/ProcessOutput.js +33 -0
  98. package/dist/ts/cjs/ts/Json/Process/ProcessParameterValue.js +33 -0
  99. package/dist/ts/cjs/ts/Json/Process/Protocol.js +180 -0
  100. package/dist/ts/cjs/ts/Json/Process/ProtocolParameter.js +47 -0
  101. package/dist/ts/cjs/ts/Json/Process/Sample.js +176 -0
  102. package/dist/ts/cjs/ts/Json/Process/Source.js +145 -0
  103. package/dist/ts/cjs/ts/Json/Process/StudyMaterials.js +23 -0
  104. package/dist/ts/cjs/ts/Json/Process/Value.js +39 -0
  105. package/dist/ts/cjs/ts/Json/PropertyValue.js +300 -0
  106. package/dist/ts/cjs/ts/Json/Publication.js +130 -0
  107. package/dist/ts/cjs/ts/Json/ROCrate/LDContext.js +123 -0
  108. package/dist/ts/cjs/ts/Json/ROCrate/LDGraph.js +88 -0
  109. package/dist/ts/cjs/ts/Json/ROCrate/LDNode.js +213 -0
  110. package/dist/ts/cjs/ts/Json/ROCrate/LDRef.js +25 -0
  111. package/dist/ts/cjs/ts/Json/ROCrate/LDValue.js +70 -0
  112. package/dist/ts/cjs/ts/Json/StringTable.js +63 -0
  113. package/dist/ts/cjs/ts/Json/Study.js +347 -0
  114. package/dist/ts/cjs/ts/Json/Table/ArcTable.js +230 -0
  115. package/dist/ts/cjs/ts/Json/Table/CellTable.js +58 -0
  116. package/dist/ts/cjs/ts/Json/Table/CompositeCell.js +103 -0
  117. package/dist/ts/cjs/ts/Json/Table/CompositeHeader.js +108 -0
  118. package/dist/ts/cjs/ts/Json/Table/IOType.js +16 -0
  119. package/dist/ts/cjs/ts/Json/Table/OATable.js +55 -0
  120. package/dist/ts/cjs/ts/Json/Table/Templates.js +106 -0
  121. package/dist/ts/cjs/ts/Json/context/rocrate/isa_assay_context.js +89 -0
  122. package/dist/ts/cjs/ts/Json/context/rocrate/isa_comment_context.js +47 -0
  123. package/dist/ts/cjs/ts/Json/context/rocrate/isa_data_context.js +61 -0
  124. package/dist/ts/cjs/ts/Json/context/rocrate/isa_investigation_context.js +97 -0
  125. package/dist/ts/cjs/ts/Json/context/rocrate/isa_material_context.js +58 -0
  126. package/dist/ts/cjs/ts/Json/context/rocrate/isa_ontology_annotation_context.js +56 -0
  127. package/dist/ts/cjs/ts/Json/context/rocrate/isa_ontology_source_reference_context.js +62 -0
  128. package/dist/ts/cjs/ts/Json/context/rocrate/isa_organization_context.js +42 -0
  129. package/dist/ts/cjs/ts/Json/context/rocrate/isa_person_context.js +112 -0
  130. package/dist/ts/cjs/ts/Json/context/rocrate/isa_process_context.js +82 -0
  131. package/dist/ts/cjs/ts/Json/context/rocrate/isa_protocol_context.js +85 -0
  132. package/dist/ts/cjs/ts/Json/context/rocrate/isa_publication_context.js +66 -0
  133. package/dist/ts/cjs/ts/Json/context/rocrate/isa_sample_context.js +53 -0
  134. package/dist/ts/cjs/ts/Json/context/rocrate/isa_source_context.js +53 -0
  135. package/dist/ts/cjs/ts/Json/context/rocrate/isa_study_context.js +113 -0
  136. package/dist/ts/cjs/ts/Json/context/rocrate/property_value_context.js +61 -0
  137. package/dist/ts/cjs/ts/Json/context/rocrate/rocrate_context.js +63 -0
  138. package/dist/ts/cjs/ts/Json.js +195 -0
  139. package/dist/ts/cjs/ts/JsonIO/Assay.js +104 -0
  140. package/dist/ts/cjs/ts/JsonIO/Investigation.js +104 -0
  141. package/dist/ts/cjs/ts/JsonIO/OntologyAnnotation.js +77 -0
  142. package/dist/ts/cjs/ts/JsonIO/Study.js +104 -0
  143. package/dist/ts/cjs/ts/JsonIO/Table/Compression.js +47 -0
  144. package/dist/ts/cjs/ts/JsonIO/Table/Templates.js +92 -0
  145. package/dist/ts/cjs/ts/ROCrate/Generic/Comment.js +117 -0
  146. package/dist/ts/cjs/ts/ROCrate/Generic/Dataset.js +671 -0
  147. package/dist/ts/cjs/ts/ROCrate/Generic/DefinedTerm.js +117 -0
  148. package/dist/ts/cjs/ts/ROCrate/Generic/File.js +202 -0
  149. package/dist/ts/cjs/ts/ROCrate/Generic/LabProcess.js +240 -0
  150. package/dist/ts/cjs/ts/ROCrate/Generic/LabProtocol.js +277 -0
  151. package/dist/ts/cjs/ts/ROCrate/Generic/Organization.js +73 -0
  152. package/dist/ts/cjs/ts/ROCrate/Generic/Person.js +413 -0
  153. package/dist/ts/cjs/ts/ROCrate/Generic/PostalAddress.js +161 -0
  154. package/dist/ts/cjs/ts/ROCrate/Generic/PropertyValue.js +550 -0
  155. package/dist/ts/cjs/ts/ROCrate/Generic/Sample.js +141 -0
  156. package/dist/ts/cjs/ts/ROCrate/Generic/ScholarlyArticle.js +189 -0
  157. package/dist/ts/cjs/ts/ROCrate/Helper.js +7 -0
  158. package/dist/ts/cjs/ts/ROCrate/LDContext.js +284 -0
  159. package/dist/ts/cjs/ts/ROCrate/LDObject.js +984 -0
  160. package/dist/ts/cjs/ts/ROCrate/ROCrateContext.js +44 -0
  161. package/dist/ts/cjs/ts/ROCrateIO.js +64 -0
  162. package/dist/ts/cjs/ts/Spreadsheet/AnnotationTable/ArcTable.js +165 -0
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  164. package/dist/ts/cjs/ts/Spreadsheet/AnnotationTable/CompositeColumn.js +79 -0
  165. package/dist/ts/cjs/ts/Spreadsheet/AnnotationTable/CompositeHeader.js +476 -0
  166. package/dist/ts/cjs/ts/Spreadsheet/ArcAssay.js +218 -0
  167. package/dist/ts/cjs/ts/Spreadsheet/ArcInvestigation.js +340 -0
  168. package/dist/ts/cjs/ts/Spreadsheet/ArcRun.js +177 -0
  169. package/dist/ts/cjs/ts/Spreadsheet/ArcStudy.js +130 -0
  170. package/dist/ts/cjs/ts/Spreadsheet/ArcWorkflow.js +166 -0
  171. package/dist/ts/cjs/ts/Spreadsheet/CollectionAux.js +128 -0
  172. package/dist/ts/cjs/ts/Spreadsheet/DataMap.js +41 -0
  173. package/dist/ts/cjs/ts/Spreadsheet/DataMapTable/DataMapColumn.js +43 -0
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  178. package/dist/ts/cjs/ts/Spreadsheet/Metadata/Contacts.js +92 -0
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  181. package/dist/ts/cjs/ts/Spreadsheet/Metadata/Factors.js +83 -0
  182. package/dist/ts/cjs/ts/Spreadsheet/Metadata/OntologyAnnotation.js +65 -0
  183. package/dist/ts/cjs/ts/Spreadsheet/Metadata/OntologySourceReference.js +68 -0
  184. package/dist/ts/cjs/ts/Spreadsheet/Metadata/Protocols.js +103 -0
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  1589. package/fable_modules/fable-library-js.4.24.0/Util.d.ts +0 -210
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  1596. package/index.js +0 -16
@@ -0,0 +1,618 @@
1
+ import { Option } from "@fable-org/fable-library-js/Option.js";
2
+ import { OntologyAnnotation } from "./OntologyAnnotation.js";
3
+ import { DataMap } from "./DataMap.js";
4
+ import { Person } from "./Person.js";
5
+ import { Remark, Comment$ } from "./Comment.js";
6
+ import { int32 } from "@fable-org/fable-library-js/Int32.js";
7
+ import { ArcTable } from "./Table/ArcTable.js";
8
+ import { CompositeHeader_$union } from "./Table/CompositeHeader.js";
9
+ import { CompositeCell_$union } from "./Table/CompositeCell.js";
10
+ import { CompositeColumn } from "./Table/CompositeColumn.js";
11
+ import { ArcTables } from "./Table/ArcTables.js";
12
+ import { TypeInfo } from "@fable-org/fable-library-js/Reflection.js";
13
+ import { Publication } from "./Publication.js";
14
+ import { ProtocolParameter } from "./Process/ProtocolParameter.js";
15
+ import { Component } from "./Process/Component.js";
16
+ import { OntologySourceReference } from "./OntologySourceReference.js";
17
+ export declare class ArcAssay extends ArcTables implements Iterable<ArcTable> {
18
+ "identifier@129": string;
19
+ "title@133": Option<string>;
20
+ "description@134": Option<string>;
21
+ investigation: Option<ArcInvestigation>;
22
+ "measurementType@136": Option<OntologyAnnotation>;
23
+ "technologyType@137": Option<OntologyAnnotation>;
24
+ "technologyPlatform@138": Option<OntologyAnnotation>;
25
+ dataMap: Option<DataMap>;
26
+ "performers@140-1": Person[];
27
+ "comments@141-1": Comment$[];
28
+ staticHash: int32;
29
+ constructor(identifier: string, title?: string, description?: string, measurementType?: OntologyAnnotation, technologyType?: OntologyAnnotation, technologyPlatform?: OntologyAnnotation, tables?: ArcTable[], datamap?: DataMap, performers?: Person[], comments?: Comment$[]);
30
+ get Identifier(): string;
31
+ set Identifier(i: string);
32
+ get Investigation(): ArcInvestigation | undefined;
33
+ set Investigation(i: Option<ArcInvestigation>);
34
+ get Title(): string | undefined;
35
+ set Title(t: Option<string>);
36
+ get Description(): string | undefined;
37
+ set Description(d: Option<string>);
38
+ get MeasurementType(): OntologyAnnotation | undefined;
39
+ set MeasurementType(n: Option<OntologyAnnotation>);
40
+ get TechnologyType(): OntologyAnnotation | undefined;
41
+ set TechnologyType(n: Option<OntologyAnnotation>);
42
+ get TechnologyPlatform(): OntologyAnnotation | undefined;
43
+ set TechnologyPlatform(n: Option<OntologyAnnotation>);
44
+ get DataMap(): DataMap | undefined;
45
+ set DataMap(n: Option<DataMap>);
46
+ get Performers(): Person[];
47
+ set Performers(n: Person[]);
48
+ get Comments(): Comment$[];
49
+ set Comments(n: Comment$[]);
50
+ get StaticHash(): int32;
51
+ set StaticHash(h: int32);
52
+ static init(identifier: string): ArcAssay;
53
+ static create(identifier: string, title?: string, description?: string, measurementType?: OntologyAnnotation, technologyType?: OntologyAnnotation, technologyPlatform?: OntologyAnnotation, tables?: ArcTable[], datamap?: DataMap, performers?: Person[], comments?: Comment$[]): ArcAssay;
54
+ static make(identifier: string, title: Option<string>, description: Option<string>, measurementType: Option<OntologyAnnotation>, technologyType: Option<OntologyAnnotation>, technologyPlatform: Option<OntologyAnnotation>, tables: ArcTable[], datamap: Option<DataMap>, performers: Person[], comments: Comment$[]): ArcAssay;
55
+ static get FileName(): string;
56
+ get StudiesRegisteredIn(): ArcStudy[];
57
+ static addTable(table: ArcTable, index?: int32): ((arg0: ArcAssay) => ArcAssay);
58
+ static addTables(tables: Iterable<ArcTable>, index?: int32): ((arg0: ArcAssay) => ArcAssay);
59
+ static initTable(tableName: string, index?: int32): ((arg0: ArcAssay) => [ArcAssay, ArcTable]);
60
+ static initTables(tableNames: Iterable<string>, index?: int32): ((arg0: ArcAssay) => ArcAssay);
61
+ static getTableAt(index: int32): ((arg0: ArcAssay) => ArcTable);
62
+ static getTable(name: string): ((arg0: ArcAssay) => ArcTable);
63
+ static updateTableAt(index: int32, table: ArcTable): ((arg0: ArcAssay) => ArcAssay);
64
+ static updateTable(name: string, table: ArcTable): ((arg0: ArcAssay) => ArcAssay);
65
+ static setTableAt(index: int32, table: ArcTable): ((arg0: ArcAssay) => ArcAssay);
66
+ static setTable(name: string, table: ArcTable): ((arg0: ArcAssay) => ArcAssay);
67
+ static removeTableAt(index: int32): ((arg0: ArcAssay) => ArcAssay);
68
+ static removeTable(name: string): ((arg0: ArcAssay) => ArcAssay);
69
+ static mapTableAt(index: int32, updateFun: ((arg0: ArcTable) => void)): ((arg0: ArcAssay) => ArcAssay);
70
+ static updateTableBy(name: string, updateFun: ((arg0: ArcTable) => void)): ((arg0: ArcAssay) => ArcAssay);
71
+ static renameTableAt(index: int32, newName: string): ((arg0: ArcAssay) => ArcAssay);
72
+ static renameTable(name: string, newName: string): ((arg0: ArcAssay) => ArcAssay);
73
+ static addColumnAt(tableIndex: int32, header: CompositeHeader_$union, cells?: CompositeCell_$union[], columnIndex?: int32, forceReplace?: boolean): ((arg0: ArcAssay) => ArcAssay);
74
+ static addColumn(tableName: string, header: CompositeHeader_$union, cells?: CompositeCell_$union[], columnIndex?: int32, forceReplace?: boolean): ((arg0: ArcAssay) => ArcAssay);
75
+ static removeColumnAt(tableIndex: int32, columnIndex: int32): ((arg0: ArcAssay) => ArcAssay);
76
+ static removeColumn(tableName: string, columnIndex: int32): ((arg0: ArcAssay) => ArcAssay);
77
+ static updateColumnAt(tableIndex: int32, columnIndex: int32, header: CompositeHeader_$union, cells?: CompositeCell_$union[]): ((arg0: ArcAssay) => ArcAssay);
78
+ static updateColumn(tableName: string, columnIndex: int32, header: CompositeHeader_$union, cells?: CompositeCell_$union[]): ((arg0: ArcAssay) => ArcAssay);
79
+ static getColumnAt(tableIndex: int32, columnIndex: int32): ((arg0: ArcAssay) => CompositeColumn);
80
+ static getColumn(tableName: string, columnIndex: int32): ((arg0: ArcAssay) => CompositeColumn);
81
+ static addRowAt(tableIndex: int32, cells?: CompositeCell_$union[], rowIndex?: int32): ((arg0: ArcAssay) => ArcAssay);
82
+ static addRow(tableName: string, cells?: CompositeCell_$union[], rowIndex?: int32): ((arg0: ArcAssay) => ArcAssay);
83
+ static removeRowAt(tableIndex: int32, rowIndex: int32): ((arg0: ArcAssay) => ArcAssay);
84
+ static removeRow(tableName: string, rowIndex: int32): ((arg0: ArcAssay) => ArcAssay);
85
+ static updateRowAt(tableIndex: int32, rowIndex: int32, cells: CompositeCell_$union[]): ((arg0: ArcAssay) => ArcAssay);
86
+ static updateRow(tableName: string, rowIndex: int32, cells: CompositeCell_$union[]): ((arg0: ArcAssay) => ArcAssay);
87
+ static getRowAt(tableIndex: int32, rowIndex: int32): ((arg0: ArcAssay) => CompositeCell_$union[]);
88
+ static getRow(tableName: string, rowIndex: int32): ((arg0: ArcAssay) => CompositeCell_$union[]);
89
+ static setPerformers(performers: Person[], assay: ArcAssay): ArcAssay;
90
+ Copy(): ArcAssay;
91
+ UpdateBy(assay: ArcAssay, onlyReplaceExisting?: boolean, appendSequences?: boolean): void;
92
+ toString(): string;
93
+ AddToInvestigation(investigation: ArcInvestigation): void;
94
+ RemoveFromInvestigation(): void;
95
+ UpdateReferenceByAssayFile(assay: ArcAssay, onlyReplaceExisting?: boolean): void;
96
+ StructurallyEquals(other: ArcAssay): boolean;
97
+ ReferenceEquals(other: ArcAssay): boolean;
98
+ Equals(other: any): boolean;
99
+ GetLightHashCode(): int32;
100
+ GetHashCode(): int32;
101
+ }
102
+ export declare function ArcAssay_$reflection(): TypeInfo;
103
+ export declare function ArcAssay_$ctor_11E1F34(identifier: string, title?: string, description?: string, measurementType?: OntologyAnnotation, technologyType?: OntologyAnnotation, technologyPlatform?: OntologyAnnotation, tables?: ArcTable[], datamap?: DataMap, performers?: Person[], comments?: Comment$[]): ArcAssay;
104
+ export declare class ArcStudy extends ArcTables implements Iterable<ArcTable> {
105
+ "identifier@579": string;
106
+ investigation: Option<ArcInvestigation>;
107
+ "title@584": Option<string>;
108
+ "description@585": Option<string>;
109
+ "submissionDate@586": Option<string>;
110
+ "publicReleaseDate@587": Option<string>;
111
+ "publications@588-1": Publication[];
112
+ "contacts@589-1": Person[];
113
+ "studyDesignDescriptors@590-1": OntologyAnnotation[];
114
+ "datamap@591": Option<DataMap>;
115
+ "registeredAssayIdentifiers@592-1": string[];
116
+ "comments@593-1": Comment$[];
117
+ staticHash: int32;
118
+ constructor(identifier: string, title?: string, description?: string, submissionDate?: string, publicReleaseDate?: string, publications?: Publication[], contacts?: Person[], studyDesignDescriptors?: OntologyAnnotation[], tables?: ArcTable[], datamap?: DataMap, registeredAssayIdentifiers?: string[], comments?: Comment$[]);
119
+ get Identifier(): string;
120
+ set Identifier(i: string);
121
+ get Investigation(): ArcInvestigation | undefined;
122
+ set Investigation(i: Option<ArcInvestigation>);
123
+ get Title(): string | undefined;
124
+ set Title(n: Option<string>);
125
+ get Description(): string | undefined;
126
+ set Description(n: Option<string>);
127
+ get SubmissionDate(): string | undefined;
128
+ set SubmissionDate(n: Option<string>);
129
+ get PublicReleaseDate(): string | undefined;
130
+ set PublicReleaseDate(n: Option<string>);
131
+ get Publications(): Publication[];
132
+ set Publications(n: Publication[]);
133
+ get Contacts(): Person[];
134
+ set Contacts(n: Person[]);
135
+ get StudyDesignDescriptors(): OntologyAnnotation[];
136
+ set StudyDesignDescriptors(n: OntologyAnnotation[]);
137
+ get DataMap(): DataMap | undefined;
138
+ set DataMap(n: Option<DataMap>);
139
+ get RegisteredAssayIdentifiers(): string[];
140
+ set RegisteredAssayIdentifiers(n: string[]);
141
+ get Comments(): Comment$[];
142
+ set Comments(n: Comment$[]);
143
+ get StaticHash(): int32;
144
+ set StaticHash(h: int32);
145
+ static init(identifier: string): ArcStudy;
146
+ static create(identifier: string, title?: string, description?: string, submissionDate?: string, publicReleaseDate?: string, publications?: Publication[], contacts?: Person[], studyDesignDescriptors?: OntologyAnnotation[], tables?: ArcTable[], datamap?: DataMap, registeredAssayIdentifiers?: string[], comments?: Comment$[]): ArcStudy;
147
+ static make(identifier: string, title: Option<string>, description: Option<string>, submissionDate: Option<string>, publicReleaseDate: Option<string>, publications: Publication[], contacts: Person[], studyDesignDescriptors: OntologyAnnotation[], tables: ArcTable[], datamap: Option<DataMap>, registeredAssayIdentifiers: string[], comments: Comment$[]): ArcStudy;
148
+ get isEmpty(): boolean;
149
+ static get FileName(): string;
150
+ get RegisteredAssayIdentifierCount(): int32;
151
+ get RegisteredAssayCount(): int32;
152
+ get RegisteredAssays(): ArcAssay[];
153
+ get VacantAssayIdentifiers(): string[];
154
+ AddRegisteredAssay(assay: ArcAssay): void;
155
+ static addRegisteredAssay(assay: ArcAssay): ((arg0: ArcStudy) => ArcStudy);
156
+ InitRegisteredAssay(assayIdentifier: string): ArcAssay;
157
+ static initRegisteredAssay(assayIdentifier: string): ((arg0: ArcStudy) => [ArcStudy, ArcAssay]);
158
+ RegisterAssay(assayIdentifier: string): void;
159
+ static registerAssay(assayIdentifier: string): ((arg0: ArcStudy) => ArcStudy);
160
+ DeregisterAssay(assayIdentifier: string): void;
161
+ static deregisterAssay(assayIdentifier: string): ((arg0: ArcStudy) => ArcStudy);
162
+ GetRegisteredAssay(assayIdentifier: string): ArcAssay;
163
+ static getRegisteredAssay(assayIdentifier: string): ((arg0: ArcStudy) => ArcAssay);
164
+ static getRegisteredAssays(): ((arg0: ArcStudy) => ArcAssay[]);
165
+ GetRegisteredAssaysOrIdentifier(): ArcAssay[];
166
+ static getRegisteredAssaysOrIdentifier(): ((arg0: ArcStudy) => ArcAssay[]);
167
+ static addTable(table: ArcTable, index?: int32): ((arg0: ArcStudy) => ArcStudy);
168
+ static addTables(tables: Iterable<ArcTable>, index?: int32): ((arg0: ArcStudy) => ArcStudy);
169
+ static initTable(tableName: string, index?: int32): ((arg0: ArcStudy) => [ArcStudy, ArcTable]);
170
+ static initTables(tableNames: Iterable<string>, index?: int32): ((arg0: ArcStudy) => ArcStudy);
171
+ static getTableAt(index: int32): ((arg0: ArcStudy) => ArcTable);
172
+ static getTable(name: string): ((arg0: ArcStudy) => ArcTable);
173
+ static updateTableAt(index: int32, table: ArcTable): ((arg0: ArcStudy) => ArcStudy);
174
+ static updateTable(name: string, table: ArcTable): ((arg0: ArcStudy) => ArcStudy);
175
+ static setTableAt(index: int32, table: ArcTable): ((arg0: ArcStudy) => ArcStudy);
176
+ static setTable(name: string, table: ArcTable): ((arg0: ArcStudy) => ArcStudy);
177
+ static removeTableAt(index: int32): ((arg0: ArcStudy) => ArcStudy);
178
+ static removeTable(name: string): ((arg0: ArcStudy) => ArcStudy);
179
+ static mapTableAt(index: int32, updateFun: ((arg0: ArcTable) => void)): ((arg0: ArcStudy) => ArcStudy);
180
+ static mapTable(name: string, updateFun: ((arg0: ArcTable) => void)): ((arg0: ArcStudy) => ArcStudy);
181
+ static renameTableAt(index: int32, newName: string): ((arg0: ArcStudy) => ArcStudy);
182
+ static renameTable(name: string, newName: string): ((arg0: ArcStudy) => ArcStudy);
183
+ static addColumnAt(tableIndex: int32, header: CompositeHeader_$union, cells?: CompositeCell_$union[], columnIndex?: int32, forceReplace?: boolean): ((arg0: ArcStudy) => ArcStudy);
184
+ static addColumn(tableName: string, header: CompositeHeader_$union, cells?: CompositeCell_$union[], columnIndex?: int32, forceReplace?: boolean): ((arg0: ArcStudy) => ArcStudy);
185
+ static removeColumnAt(tableIndex: int32, columnIndex: int32): ((arg0: ArcStudy) => ArcStudy);
186
+ static removeColumn(tableName: string, columnIndex: int32): ((arg0: ArcStudy) => ArcStudy);
187
+ static updateColumnAt(tableIndex: int32, columnIndex: int32, header: CompositeHeader_$union, cells?: CompositeCell_$union[]): ((arg0: ArcStudy) => ArcStudy);
188
+ static updateColumn(tableName: string, columnIndex: int32, header: CompositeHeader_$union, cells?: CompositeCell_$union[]): ((arg0: ArcStudy) => ArcStudy);
189
+ static getColumnAt(tableIndex: int32, columnIndex: int32): ((arg0: ArcStudy) => CompositeColumn);
190
+ static getColumn(tableName: string, columnIndex: int32): ((arg0: ArcStudy) => CompositeColumn);
191
+ static addRowAt(tableIndex: int32, cells?: CompositeCell_$union[], rowIndex?: int32): ((arg0: ArcStudy) => ArcStudy);
192
+ static addRow(tableName: string, cells?: CompositeCell_$union[], rowIndex?: int32): ((arg0: ArcStudy) => ArcStudy);
193
+ static removeRowAt(tableIndex: int32, rowIndex: int32): ((arg0: ArcStudy) => ArcStudy);
194
+ static removeRow(tableName: string, rowIndex: int32): ((arg0: ArcStudy) => ArcStudy);
195
+ static updateRowAt(tableIndex: int32, rowIndex: int32, cells: CompositeCell_$union[]): ((arg0: ArcStudy) => ArcStudy);
196
+ static updateRow(tableName: string, rowIndex: int32, cells: CompositeCell_$union[]): ((arg0: ArcStudy) => ArcStudy);
197
+ static getRowAt(tableIndex: int32, rowIndex: int32): ((arg0: ArcStudy) => CompositeCell_$union[]);
198
+ static getRow(tableName: string, rowIndex: int32): ((arg0: ArcStudy) => CompositeCell_$union[]);
199
+ AddToInvestigation(investigation: ArcInvestigation): void;
200
+ RemoveFromInvestigation(): void;
201
+ Copy(copyInvestigationRef?: boolean): ArcStudy;
202
+ UpdateReferenceByStudyFile(study: ArcStudy, onlyReplaceExisting?: boolean, keepUnusedRefTables?: boolean): void;
203
+ StructurallyEquals(other: ArcStudy): boolean;
204
+ ReferenceEquals(other: ArcStudy): boolean;
205
+ toString(): string;
206
+ Equals(other: any): boolean;
207
+ GetHashCode(): int32;
208
+ GetLightHashCode(): int32;
209
+ }
210
+ export declare function ArcStudy_$reflection(): TypeInfo;
211
+ export declare function ArcStudy_$ctor_64321D5B(identifier: string, title?: string, description?: string, submissionDate?: string, publicReleaseDate?: string, publications?: Publication[], contacts?: Person[], studyDesignDescriptors?: OntologyAnnotation[], tables?: ArcTable[], datamap?: DataMap, registeredAssayIdentifiers?: string[], comments?: Comment$[]): ArcStudy;
212
+ export declare class ArcWorkflow {
213
+ "identifier@1151": string;
214
+ investigation: Option<ArcInvestigation>;
215
+ "title@1156": Option<string>;
216
+ "description@1157": Option<string>;
217
+ "subWorkflowIdentifiers@1158": string[];
218
+ "workflowType@1159": Option<OntologyAnnotation>;
219
+ "uri@1160": Option<string>;
220
+ "version@1161": Option<string>;
221
+ "parameters@1162": ProtocolParameter[];
222
+ "components@1163": Component[];
223
+ dataMap: Option<DataMap>;
224
+ "contacts@1165": Person[];
225
+ "comments@1166": Comment$[];
226
+ staticHash: int32;
227
+ constructor(identifier: string, title?: string, description?: string, workflowType?: OntologyAnnotation, uri?: string, version?: string, subWorkflowIdentifiers?: string[], parameters?: ProtocolParameter[], components?: Component[], datamap?: DataMap, contacts?: Person[], comments?: Comment$[]);
228
+ toString(): string;
229
+ Equals(other: any): boolean;
230
+ GetHashCode(): int32;
231
+ }
232
+ export declare function ArcWorkflow_$reflection(): TypeInfo;
233
+ export declare function ArcWorkflow_$ctor_Z3BB02240(identifier: string, title?: string, description?: string, workflowType?: OntologyAnnotation, uri?: string, version?: string, subWorkflowIdentifiers?: string[], parameters?: ProtocolParameter[], components?: Component[], datamap?: DataMap, contacts?: Person[], comments?: Comment$[]): ArcWorkflow;
234
+ export declare class ArcRun extends ArcTables implements Iterable<ArcTable> {
235
+ "identifier@1447": string;
236
+ "title@1451": Option<string>;
237
+ "description@1452": Option<string>;
238
+ investigation: Option<ArcInvestigation>;
239
+ "measurementType@1454": Option<OntologyAnnotation>;
240
+ "technologyType@1455": Option<OntologyAnnotation>;
241
+ "technologyPlatform@1456": Option<OntologyAnnotation>;
242
+ "workflowIdentifiers@1457-1": string[];
243
+ dataMap: Option<DataMap>;
244
+ "performers@1459-1": Person[];
245
+ "comments@1460-1": Comment$[];
246
+ staticHash: int32;
247
+ constructor(identifier: string, title?: string, description?: string, measurementType?: OntologyAnnotation, technologyType?: OntologyAnnotation, technologyPlatform?: OntologyAnnotation, workflowIdentifiers?: string[], tables?: ArcTable[], datamap?: DataMap, performers?: Person[], comments?: Comment$[]);
248
+ get Identifier(): string;
249
+ set Identifier(i: string);
250
+ get Investigation(): ArcInvestigation | undefined;
251
+ set Investigation(i: Option<ArcInvestigation>);
252
+ get Title(): string | undefined;
253
+ set Title(t: Option<string>);
254
+ get Description(): string | undefined;
255
+ set Description(d: Option<string>);
256
+ get MeasurementType(): OntologyAnnotation | undefined;
257
+ set MeasurementType(n: Option<OntologyAnnotation>);
258
+ get TechnologyType(): OntologyAnnotation | undefined;
259
+ set TechnologyType(n: Option<OntologyAnnotation>);
260
+ get TechnologyPlatform(): OntologyAnnotation | undefined;
261
+ set TechnologyPlatform(n: Option<OntologyAnnotation>);
262
+ get WorkflowIdentifiers(): string[];
263
+ set WorkflowIdentifiers(w: string[]);
264
+ get DataMap(): DataMap | undefined;
265
+ set DataMap(n: Option<DataMap>);
266
+ get Performers(): Person[];
267
+ set Performers(n: Person[]);
268
+ get Comments(): Comment$[];
269
+ set Comments(n: Comment$[]);
270
+ get StaticHash(): int32;
271
+ set StaticHash(h: int32);
272
+ static init(identifier: string): ArcRun;
273
+ static create(identifier: string, title?: string, description?: string, measurementType?: OntologyAnnotation, technologyType?: OntologyAnnotation, technologyPlatform?: OntologyAnnotation, workflowIdentifiers?: string[], tables?: ArcTable[], datamap?: DataMap, performers?: Person[], comments?: Comment$[]): ArcRun;
274
+ static make(identifier: string, title: Option<string>, description: Option<string>, measurementType: Option<OntologyAnnotation>, technologyType: Option<OntologyAnnotation>, technologyPlatform: Option<OntologyAnnotation>, workflowIdentifiers: string[], tables: ArcTable[], datamap: Option<DataMap>, performers: Person[], comments: Comment$[]): ArcRun;
275
+ static get FileName(): string;
276
+ get WorkflowIdentifierCount(): int32;
277
+ get WorkflowCount(): int32;
278
+ get Workflows(): ArcWorkflow[];
279
+ get VacantWorkflowIdentifiers(): string[];
280
+ static addTable(table: ArcTable, index?: int32): ((arg0: ArcRun) => ArcRun);
281
+ static addTables(tables: Iterable<ArcTable>, index?: int32): ((arg0: ArcRun) => ArcRun);
282
+ static initTable(tableName: string, index?: int32): ((arg0: ArcRun) => [ArcRun, ArcTable]);
283
+ static initTables(tableNames: Iterable<string>, index?: int32): ((arg0: ArcRun) => ArcRun);
284
+ static getTableAt(index: int32): ((arg0: ArcRun) => ArcTable);
285
+ static getTable(name: string): ((arg0: ArcRun) => ArcTable);
286
+ static updateTableAt(index: int32, table: ArcTable): ((arg0: ArcRun) => ArcRun);
287
+ static setTableAt(index: int32, table: ArcTable): ((arg0: ArcRun) => ArcRun);
288
+ static setTable(name: string, table: ArcTable): ((arg0: ArcRun) => ArcRun);
289
+ static removeTableAt(index: int32): ((arg0: ArcRun) => ArcRun);
290
+ static removeTable(name: string): ((arg0: ArcRun) => ArcRun);
291
+ static mapTableAt(index: int32, updateFun: ((arg0: ArcTable) => void)): ((arg0: ArcRun) => ArcRun);
292
+ static renameTableAt(index: int32, newName: string): ((arg0: ArcRun) => ArcRun);
293
+ static renameTable(name: string, newName: string): ((arg0: ArcRun) => ArcRun);
294
+ static addColumnAt(tableIndex: int32, header: CompositeHeader_$union, cells?: CompositeCell_$union[], columnIndex?: int32, forceReplace?: boolean): ((arg0: ArcRun) => ArcRun);
295
+ static addColumn(tableName: string, header: CompositeHeader_$union, cells?: CompositeCell_$union[], columnIndex?: int32, forceReplace?: boolean): ((arg0: ArcRun) => ArcRun);
296
+ static removeColumnAt(tableIndex: int32, columnIndex: int32): ((arg0: ArcRun) => ArcRun);
297
+ static removeColumn(tableName: string, columnIndex: int32): ((arg0: ArcRun) => ArcRun);
298
+ static updateColumnAt(tableIndex: int32, columnIndex: int32, header: CompositeHeader_$union, cells?: CompositeCell_$union[]): ((arg0: ArcRun) => ArcRun);
299
+ static updateColumn(tableName: string, columnIndex: int32, header: CompositeHeader_$union, cells?: CompositeCell_$union[]): ((arg0: ArcRun) => ArcRun);
300
+ static getColumnAt(tableIndex: int32, columnIndex: int32): ((arg0: ArcRun) => CompositeColumn);
301
+ static getColumn(tableName: string, columnIndex: int32): ((arg0: ArcRun) => CompositeColumn);
302
+ static addRowAt(tableIndex: int32, cells?: CompositeCell_$union[], rowIndex?: int32): ((arg0: ArcRun) => ArcRun);
303
+ static addRow(tableName: string, cells?: CompositeCell_$union[], rowIndex?: int32): ((arg0: ArcRun) => ArcRun);
304
+ static removeRowAt(tableIndex: int32, rowIndex: int32): ((arg0: ArcRun) => ArcRun);
305
+ static removeRow(tableName: string, rowIndex: int32): ((arg0: ArcRun) => ArcRun);
306
+ static updateRowAt(tableIndex: int32, rowIndex: int32, cells: CompositeCell_$union[]): ((arg0: ArcRun) => ArcRun);
307
+ static updateRow(tableName: string, rowIndex: int32, cells: CompositeCell_$union[]): ((arg0: ArcRun) => ArcRun);
308
+ static getRowAt(tableIndex: int32, rowIndex: int32): ((arg0: ArcRun) => CompositeCell_$union[]);
309
+ static getRow(tableName: string, rowIndex: int32): ((arg0: ArcRun) => CompositeCell_$union[]);
310
+ static setPerformers(performers: Person[], run: ArcRun): ArcRun;
311
+ Copy(): ArcRun;
312
+ UpdateBy(run: ArcRun, onlyReplaceExisting?: boolean, appendSequences?: boolean): void;
313
+ toString(): string;
314
+ AddToInvestigation(investigation: ArcInvestigation): void;
315
+ RemoveFromInvestigation(): void;
316
+ StructurallyEquals(other: ArcRun): boolean;
317
+ ReferenceEquals(other: ArcRun): boolean;
318
+ Equals(other: any): boolean;
319
+ GetLightHashCode(): int32;
320
+ GetHashCode(): int32;
321
+ }
322
+ export declare function ArcRun_$reflection(): TypeInfo;
323
+ export declare function ArcRun_$ctor_Z38E7054B(identifier: string, title?: string, description?: string, measurementType?: OntologyAnnotation, technologyType?: OntologyAnnotation, technologyPlatform?: OntologyAnnotation, workflowIdentifiers?: string[], tables?: ArcTable[], datamap?: DataMap, performers?: Person[], comments?: Comment$[]): ArcRun;
324
+ export declare class ArcInvestigation {
325
+ "identifier@1928": string;
326
+ "title@1929": Option<string>;
327
+ "description@1930": Option<string>;
328
+ "submissionDate@1931": Option<string>;
329
+ "publicReleaseDate@1932": Option<string>;
330
+ "ontologySourceReferences@1933-1": OntologySourceReference[];
331
+ "publications@1934-1": Publication[];
332
+ "contacts@1935-1": Person[];
333
+ "assays@1936-1": ArcAssay[];
334
+ "studies@1937-1": ArcStudy[];
335
+ "workflows@1938-1": ArcWorkflow[];
336
+ "runs@1939-1": ArcRun[];
337
+ "registeredStudyIdentifiers@1940-1": string[];
338
+ "comments@1941-1": Comment$[];
339
+ "remarks@1942-1": Remark[];
340
+ staticHash: int32;
341
+ "init@1899": int32;
342
+ constructor(identifier: string, title?: string, description?: string, submissionDate?: string, publicReleaseDate?: string, ontologySourceReferences?: OntologySourceReference[], publications?: Publication[], contacts?: Person[], assays?: ArcAssay[], studies?: ArcStudy[], workflows?: ArcWorkflow[], runs?: ArcRun[], registeredStudyIdentifiers?: string[], comments?: Comment$[], remarks?: Remark[]);
343
+ get Identifier(): string;
344
+ set Identifier(i: string);
345
+ get Title(): string | undefined;
346
+ set Title(n: Option<string>);
347
+ get Description(): string | undefined;
348
+ set Description(n: Option<string>);
349
+ get SubmissionDate(): string | undefined;
350
+ set SubmissionDate(n: Option<string>);
351
+ get PublicReleaseDate(): string | undefined;
352
+ set PublicReleaseDate(n: Option<string>);
353
+ get OntologySourceReferences(): OntologySourceReference[];
354
+ set OntologySourceReferences(n: OntologySourceReference[]);
355
+ get Publications(): Publication[];
356
+ set Publications(n: Publication[]);
357
+ get Contacts(): Person[];
358
+ set Contacts(n: Person[]);
359
+ get Assays(): ArcAssay[];
360
+ set Assays(n: ArcAssay[]);
361
+ get Studies(): ArcStudy[];
362
+ set Studies(n: ArcStudy[]);
363
+ get Workflows(): ArcWorkflow[];
364
+ set Workflows(n: ArcWorkflow[]);
365
+ get Runs(): ArcRun[];
366
+ set Runs(n: ArcRun[]);
367
+ get RegisteredStudyIdentifiers(): string[];
368
+ set RegisteredStudyIdentifiers(n: string[]);
369
+ get Comments(): Comment$[];
370
+ set Comments(n: Comment$[]);
371
+ get Remarks(): Remark[];
372
+ set Remarks(n: Remark[]);
373
+ get StaticHash(): int32;
374
+ set StaticHash(h: int32);
375
+ static get FileName(): string;
376
+ static init(identifier: string): ArcInvestigation;
377
+ static create(identifier: string, title?: string, description?: string, submissionDate?: string, publicReleaseDate?: string, ontologySourceReferences?: OntologySourceReference[], publications?: Publication[], contacts?: Person[], assays?: ArcAssay[], studies?: ArcStudy[], workflows?: ArcWorkflow[], runs?: ArcRun[], registeredStudyIdentifiers?: string[], comments?: Comment$[], remarks?: Remark[]): ArcInvestigation;
378
+ static make(identifier: string, title: Option<string>, description: Option<string>, submissionDate: Option<string>, publicReleaseDate: Option<string>, ontologySourceReferences: OntologySourceReference[], publications: Publication[], contacts: Person[], assays: ArcAssay[], studies: ArcStudy[], workflows: ArcWorkflow[], runs: ArcRun[], registeredStudyIdentifiers: string[], comments: Comment$[], remarks: Remark[]): ArcInvestigation;
379
+ get AssayCount(): int32;
380
+ get AssayIdentifiers(): string[];
381
+ get UnregisteredAssays(): ArcAssay[];
382
+ AddAssay(assay: ArcAssay, registerIn?: ArcStudy[]): void;
383
+ static addAssay(assay: ArcAssay, registerIn?: ArcStudy[]): ((arg0: ArcInvestigation) => ArcInvestigation);
384
+ InitAssay(assayIdentifier: string, registerIn?: ArcStudy[]): ArcAssay;
385
+ static initAssay(assayIdentifier: string, registerIn?: ArcStudy[]): ((arg0: ArcInvestigation) => ArcAssay);
386
+ DeleteAssayAt(index: int32): void;
387
+ static deleteAssayAt(index: int32): ((arg0: ArcInvestigation) => ArcInvestigation);
388
+ DeleteAssay(assayIdentifier: string): void;
389
+ static deleteAssay(assayIdentifier: string): ((arg0: ArcInvestigation) => ArcInvestigation);
390
+ RemoveAssayAt(index: int32): void;
391
+ static removeAssayAt(index: int32): ((arg0: ArcInvestigation) => ArcInvestigation);
392
+ RemoveAssay(assayIdentifier: string): void;
393
+ static removeAssay(assayIdentifier: string): ((arg0: ArcInvestigation) => ArcInvestigation);
394
+ RenameAssay(oldIdentifier: string, newIdentifier: string): void;
395
+ static renameAssay(oldIdentifier: string, newIdentifier: string): ((arg0: ArcInvestigation) => ArcInvestigation);
396
+ SetAssayAt(index: int32, assay: ArcAssay): void;
397
+ static setAssayAt(index: int32, assay: ArcAssay): ((arg0: ArcInvestigation) => ArcInvestigation);
398
+ SetAssay(assayIdentifier: string, assay: ArcAssay): void;
399
+ static setAssay(assayIdentifier: string, assay: ArcAssay): ((arg0: ArcInvestigation) => ArcInvestigation);
400
+ GetAssayIndex(assayIdentifier: string): int32;
401
+ static getAssayIndex(assayIdentifier: string): ((arg0: ArcInvestigation) => int32);
402
+ GetAssayAt(index: int32): ArcAssay;
403
+ static getAssayAt(index: int32): ((arg0: ArcInvestigation) => ArcAssay);
404
+ GetAssay(assayIdentifier: string): ArcAssay;
405
+ static getAssay(assayIdentifier: string): ((arg0: ArcInvestigation) => ArcAssay);
406
+ TryGetAssay(assayIdentifier: string): Option<ArcAssay>;
407
+ static tryGetAssay(assayIdentifier: string): ((arg0: ArcInvestigation) => Option<ArcAssay>);
408
+ ContainsAssay(assayIdentifier: string): boolean;
409
+ static containsAssay(assayIdentifier: string): ((arg0: ArcInvestigation) => boolean);
410
+ get RegisteredStudyIdentifierCount(): int32;
411
+ get RegisteredStudies(): ArcStudy[];
412
+ get RegisteredStudyCount(): int32;
413
+ get VacantStudyIdentifiers(): string[];
414
+ get StudyCount(): int32;
415
+ get StudyIdentifiers(): string[];
416
+ get UnregisteredStudies(): ArcStudy[];
417
+ AddStudy(study: ArcStudy): void;
418
+ static addStudy(study: ArcStudy): ((arg0: ArcInvestigation) => ArcInvestigation);
419
+ InitStudy(studyIdentifier: string): ArcStudy;
420
+ static initStudy(studyIdentifier: string): ((arg0: ArcInvestigation) => [ArcInvestigation, ArcStudy]);
421
+ RegisterStudy(studyIdentifier: string): void;
422
+ static registerStudy(studyIdentifier: string): ((arg0: ArcInvestigation) => ArcInvestigation);
423
+ AddRegisteredStudy(study: ArcStudy): void;
424
+ static addRegisteredStudy(study: ArcStudy): ((arg0: ArcInvestigation) => ArcInvestigation);
425
+ DeleteStudyAt(index: int32): void;
426
+ static deleteStudyAt(index: int32): ((arg0: ArcInvestigation) => ArcInvestigation);
427
+ DeleteStudy(studyIdentifier: string): void;
428
+ static deleteStudy(studyIdentifier: string): ((arg0: ArcInvestigation) => ArcInvestigation);
429
+ RemoveStudyAt(index: int32): void;
430
+ static removeStudyAt(index: int32): ((arg0: ArcInvestigation) => ArcInvestigation);
431
+ RemoveStudy(studyIdentifier: string): void;
432
+ static removeStudy(studyIdentifier: string): ((arg0: ArcInvestigation) => ArcInvestigation);
433
+ RenameStudy(oldIdentifier: string, newIdentifier: string): void;
434
+ static renameStudy(oldIdentifier: string, newIdentifier: string): ((arg0: ArcInvestigation) => ArcInvestigation);
435
+ SetStudyAt(index: int32, study: ArcStudy): void;
436
+ static setStudyAt(index: int32, study: ArcStudy): ((arg0: ArcInvestigation) => ArcInvestigation);
437
+ SetStudy(studyIdentifier: string, study: ArcStudy): void;
438
+ static setStudy(studyIdentifier: string, study: ArcStudy): ((arg0: ArcInvestigation) => ArcInvestigation);
439
+ GetStudyIndex(studyIdentifier: string): int32;
440
+ static getStudyIndex(studyIdentifier: string): ((arg0: ArcInvestigation) => int32);
441
+ GetStudyAt(index: int32): ArcStudy;
442
+ static getStudyAt(index: int32): ((arg0: ArcInvestigation) => ArcStudy);
443
+ GetStudy(studyIdentifier: string): ArcStudy;
444
+ static getStudy(studyIdentifier: string): ((arg0: ArcInvestigation) => ArcStudy);
445
+ TryGetStudy(studyIdentifier: string): Option<ArcStudy>;
446
+ static tryGetStudy(studyIdentifier: string): ((arg0: ArcInvestigation) => Option<ArcStudy>);
447
+ ContainsStudy(studyIdentifier: string): boolean;
448
+ static containsStudy(studyIdentifier: string): ((arg0: ArcInvestigation) => boolean);
449
+ RegisterAssayAt(studyIndex: int32, assayIdentifier: string): void;
450
+ static registerAssayAt(studyIndex: int32, assayIdentifier: string): ((arg0: ArcInvestigation) => ArcInvestigation);
451
+ RegisterAssay(studyIdentifier: string, assayIdentifier: string): void;
452
+ static registerAssay(studyIdentifier: string, assayIdentifier: string): ((arg0: ArcInvestigation) => ArcInvestigation);
453
+ DeregisterAssayAt(studyIndex: int32, assayIdentifier: string): void;
454
+ static deregisterAssayAt(studyIndex: int32, assayIdentifier: string): ((arg0: ArcInvestigation) => ArcInvestigation);
455
+ DeregisterAssay(studyIdentifier: string, assayIdentifier: string): void;
456
+ static deregisterAssay(studyIdentifier: string, assayIdentifier: string): ((arg0: ArcInvestigation) => ArcInvestigation);
457
+ DeregisterStudy(studyIdentifier: string): void;
458
+ static deregisterStudy(studyIdentifier: string): ((arg0: ArcInvestigation) => ArcInvestigation);
459
+ get WorkflowCount(): int32;
460
+ get WorkflowIdentifiers(): string[];
461
+ GetWorkflowIndex(workflowIdentifier: string): int32;
462
+ static getWorkflowIndex(workflowIdentifier: string): ((arg0: ArcInvestigation) => int32);
463
+ AddWorkflow(workflow: ArcWorkflow): void;
464
+ static addWorkflow(workflow: ArcWorkflow): ((arg0: ArcInvestigation) => ArcInvestigation);
465
+ InitWorkflow(workflowIdentifier: string): ArcWorkflow;
466
+ static initWorkflow(workflowIdentifier: string): ((arg0: ArcInvestigation) => ArcWorkflow);
467
+ DeleteWorkflowAt(index: int32): void;
468
+ static deleteWorkflowAt(index: int32): ((arg0: ArcInvestigation) => ArcInvestigation);
469
+ DeleteWorkflow(workflowIdentifier: string): void;
470
+ static deleteWorkflow(workflowIdentifier: string): ((arg0: ArcInvestigation) => ArcInvestigation);
471
+ GetWorkflowAt(index: int32): ArcWorkflow;
472
+ static getWorkflowAt(index: int32): ((arg0: ArcInvestigation) => ArcWorkflow);
473
+ GetWorkflow(workflowIdentifier: string): ArcWorkflow;
474
+ static getWorkflow(workflowIdentifier: string): ((arg0: ArcInvestigation) => ArcWorkflow);
475
+ TryGetWorkflow(workflowIdentifier: string): Option<ArcWorkflow>;
476
+ static tryGetWorkflow(workflowIdentifier: string): ((arg0: ArcInvestigation) => Option<ArcWorkflow>);
477
+ ContainsWorkflow(workflowIdentifier: string): boolean;
478
+ static containsWorkflow(workflowIdentifier: string): ((arg0: ArcInvestigation) => boolean);
479
+ SetWorkflowAt(index: int32, workflow: ArcWorkflow): void;
480
+ SetWorkflow(workflowIdentifier: string, workflow: ArcWorkflow): void;
481
+ static setWorkflow(workflowIdentifier: string, workflow: ArcWorkflow): ((arg0: ArcInvestigation) => ArcInvestigation);
482
+ static setWorkflowAt(index: int32, workflow: ArcWorkflow): ((arg0: ArcInvestigation) => ArcInvestigation);
483
+ get RunCount(): int32;
484
+ get RunIdentifiers(): string[];
485
+ GetRunIndex(runIdentifier: string): int32;
486
+ static getRunIndex(runIdentifier: string): ((arg0: ArcInvestigation) => int32);
487
+ AddRun(run: ArcRun): void;
488
+ static addRun(run: ArcRun): ((arg0: ArcInvestigation) => ArcInvestigation);
489
+ InitRun(runIdentifier: string): ArcRun;
490
+ static initRun(runIdentifier: string): ((arg0: ArcInvestigation) => ArcRun);
491
+ DeleteRunAt(index: int32): void;
492
+ static deleteRunAt(index: int32): ((arg0: ArcInvestigation) => ArcInvestigation);
493
+ DeleteRun(runIdentifier: string): void;
494
+ static deleteRun(runIdentifier: string): ((arg0: ArcInvestigation) => ArcInvestigation);
495
+ GetRunAt(index: int32): ArcRun;
496
+ static getRunAt(index: int32): ((arg0: ArcInvestigation) => ArcRun);
497
+ GetRun(runIdentifier: string): ArcRun;
498
+ static getRun(runIdentifier: string): ((arg0: ArcInvestigation) => ArcRun);
499
+ TryGetRun(runIdentifier: string): Option<ArcRun>;
500
+ static tryGetRun(runIdentifier: string): ((arg0: ArcInvestigation) => Option<ArcRun>);
501
+ ContainsRun(runIdentifier: string): boolean;
502
+ static containsRun(runIdentifier: string): ((arg0: ArcInvestigation) => boolean);
503
+ SetRunAt(index: int32, run: ArcRun): void;
504
+ SetRun(runIdentifier: string, run: ArcRun): void;
505
+ static setRunAt(index: int32, run: ArcRun): ((arg0: ArcInvestigation) => ArcInvestigation);
506
+ static setRun(runIdentifier: string, run: ArcRun): ((arg0: ArcInvestigation) => ArcInvestigation);
507
+ GetAllPersons(): Person[];
508
+ GetAllPublications(): Publication[];
509
+ DeregisterMissingAssays(): void;
510
+ static deregisterMissingAssays(): ((arg0: ArcInvestigation) => ArcInvestigation);
511
+ UpdateIOTypeByEntityID(): void;
512
+ Copy(): ArcInvestigation;
513
+ StructurallyEquals(other: ArcInvestigation): boolean;
514
+ ReferenceEquals(other: ArcInvestigation): boolean;
515
+ toString(): string;
516
+ Equals(other: any): boolean;
517
+ GetHashCode(): int32;
518
+ GetLightHashCode(): int32;
519
+ }
520
+ export declare function ArcInvestigation_$reflection(): TypeInfo;
521
+ export declare function ArcInvestigation_$ctor_Z67823F6C(identifier: string, title?: string, description?: string, submissionDate?: string, publicReleaseDate?: string, ontologySourceReferences?: OntologySourceReference[], publications?: Publication[], contacts?: Person[], assays?: ArcAssay[], studies?: ArcStudy[], workflows?: ArcWorkflow[], runs?: ArcRun[], registeredStudyIdentifiers?: string[], comments?: Comment$[], remarks?: Remark[]): ArcInvestigation;
522
+ export declare function ArcTypesAux_ErrorMsgs_unableToFindAssayIdentifier<$a, $b>(assayIdentifier: $a, investigationIdentifier: $b): string;
523
+ export declare function ArcTypesAux_ErrorMsgs_unableToFindStudyIdentifier<$a, $b>(studyIdentifer: $a, investigationIdentifier: $b): string;
524
+ export declare function ArcTypesAux_ErrorMsgs_unableToFindWorkflowIdentifier<$a, $b>(workflowIdentifier: $a, investigationIdentifier: $b): string;
525
+ export declare function ArcTypesAux_ErrorMsgs_unableToFindRunIdentifier<$a, $b>(runIdentifier: $a, investigationIdentifier: $b): string;
526
+ /**
527
+ * Must be unique in one study
528
+ */
529
+ export declare function ArcWorkflow__get_Identifier(this$: ArcWorkflow): string;
530
+ /**
531
+ * Must be unique in one study
532
+ */
533
+ export declare function ArcWorkflow__set_Identifier_Z721C83C5(this$: ArcWorkflow, i: string): void;
534
+ export declare function ArcWorkflow__get_Investigation(this$: ArcWorkflow): Option<ArcInvestigation>;
535
+ export declare function ArcWorkflow__set_Investigation_Z1E102E3E(this$: ArcWorkflow, a: Option<ArcInvestigation>): void;
536
+ export declare function ArcWorkflow__get_Title(this$: ArcWorkflow): Option<string>;
537
+ export declare function ArcWorkflow__set_Title_6DFDD678(this$: ArcWorkflow, t: Option<string>): void;
538
+ export declare function ArcWorkflow__get_Description(this$: ArcWorkflow): Option<string>;
539
+ export declare function ArcWorkflow__set_Description_6DFDD678(this$: ArcWorkflow, d: Option<string>): void;
540
+ export declare function ArcWorkflow__get_SubWorkflowIdentifiers(this$: ArcWorkflow): string[];
541
+ export declare function ArcWorkflow__set_SubWorkflowIdentifiers_70A00D82(this$: ArcWorkflow, s: string[]): void;
542
+ export declare function ArcWorkflow__get_WorkflowType(this$: ArcWorkflow): Option<OntologyAnnotation>;
543
+ export declare function ArcWorkflow__set_WorkflowType_279AAFF2(this$: ArcWorkflow, w: Option<OntologyAnnotation>): void;
544
+ export declare function ArcWorkflow__get_URI(this$: ArcWorkflow): Option<string>;
545
+ export declare function ArcWorkflow__set_URI_6DFDD678(this$: ArcWorkflow, u: Option<string>): void;
546
+ export declare function ArcWorkflow__get_Version(this$: ArcWorkflow): Option<string>;
547
+ export declare function ArcWorkflow__set_Version_6DFDD678(this$: ArcWorkflow, v: Option<string>): void;
548
+ export declare function ArcWorkflow__get_Parameters(this$: ArcWorkflow): ProtocolParameter[];
549
+ export declare function ArcWorkflow__set_Parameters_10749ED2(this$: ArcWorkflow, p: ProtocolParameter[]): void;
550
+ export declare function ArcWorkflow__get_Components(this$: ArcWorkflow): Component[];
551
+ export declare function ArcWorkflow__set_Components_Z3A507DDE(this$: ArcWorkflow, c: Component[]): void;
552
+ export declare function ArcWorkflow__get_DataMap(this$: ArcWorkflow): Option<DataMap>;
553
+ export declare function ArcWorkflow__set_DataMap_51F1E59E(this$: ArcWorkflow, dm: Option<DataMap>): void;
554
+ export declare function ArcWorkflow__get_Contacts(this$: ArcWorkflow): Person[];
555
+ export declare function ArcWorkflow__set_Contacts_Z7E0D1CA3(this$: ArcWorkflow, c: Person[]): void;
556
+ export declare function ArcWorkflow__get_Comments(this$: ArcWorkflow): Comment$[];
557
+ export declare function ArcWorkflow__set_Comments_149C14BB(this$: ArcWorkflow, c: Comment$[]): void;
558
+ export declare function ArcWorkflow__get_StaticHash(this$: ArcWorkflow): int32;
559
+ export declare function ArcWorkflow__set_StaticHash_Z524259A4(this$: ArcWorkflow, s: int32): void;
560
+ export declare function ArcWorkflow_init_Z721C83C5(identifier: string): ArcWorkflow;
561
+ export declare function ArcWorkflow_create_Z3BB02240(identifier: string, title?: string, description?: string, workflowType?: OntologyAnnotation, uri?: string, version?: string, subWorkflowIdentifiers?: string[], parameters?: ProtocolParameter[], components?: Component[], datamap?: DataMap, contacts?: Person[], comments?: Comment$[]): ArcWorkflow;
562
+ export declare function ArcWorkflow_make(identifier: string, title: Option<string>, description: Option<string>, workflowType: Option<OntologyAnnotation>, uri: Option<string>, version: Option<string>, subWorkflowIdentifiers: string[], parameters: ProtocolParameter[], components: Component[], datamap: Option<DataMap>, contacts: Person[], comments: Comment$[]): ArcWorkflow;
563
+ export declare function ArcWorkflow_get_FileName(): string;
564
+ /**
565
+ * Returns the count of registered subWorkflow *identifiers*. This is not necessarily the same as the count of registered subWorkflows, as not all identifiers correspond to an existing subWorkflow.
566
+ */
567
+ export declare function ArcWorkflow__get_SubWorkflowIdentifiersCount(this$: ArcWorkflow): int32;
568
+ /**
569
+ * Returns the count of registered subWorkflows. This is not necessarily the same as the count of registered subWorkflow *identifiers*, as not all identifiers correspond to an existing subWorkflow.
570
+ */
571
+ export declare function ArcWorkflow__get_SubWorkflowCount(this$: ArcWorkflow): int32;
572
+ /**
573
+ * Returns all subWorkflows registered in this workflow, that correspond to an existing subWorkflow object in the associated investigation.
574
+ */
575
+ export declare function ArcWorkflow__get_SubWorkflows(this$: ArcWorkflow): ArcWorkflow[];
576
+ /**
577
+ * Returns all registered subWorkflow identifiers that do not correspond to an existing subWorkflow object in the associated investigation.
578
+ */
579
+ export declare function ArcWorkflow__get_VacantSubWorkflowIdentifiers(this$: ArcWorkflow): string[];
580
+ /**
581
+ * Add subWorkflow to investigation and register it to workflow.
582
+ */
583
+ export declare function ArcWorkflow__AddSubWorkflow_Z1C75CB0E(this$: ArcWorkflow, subWorkflow: ArcWorkflow): void;
584
+ export declare function ArcWorkflow_addSubWorkflow_Z1C75CB0E(subWorkflow: ArcWorkflow): ((arg0: ArcWorkflow) => ArcWorkflow);
585
+ export declare function ArcWorkflow__InitSubWorkflow_Z721C83C5(this$: ArcWorkflow, subWorkflowIdentifier: string): ArcWorkflow;
586
+ export declare function ArcWorkflow_initSubWorkflow_Z721C83C5(subWorkflowIdentifier: string): ((arg0: ArcWorkflow) => [ArcWorkflow, ArcWorkflow]);
587
+ export declare function ArcWorkflow__RegisterSubWorkflow_Z721C83C5(this$: ArcWorkflow, subWorkflowIdentifier: string): void;
588
+ export declare function ArcWorkflow_registerSubWorkflow_Z721C83C5(subWorkflowIdentifier: string): ((arg0: ArcWorkflow) => ArcWorkflow);
589
+ export declare function ArcWorkflow__DeregisterSubWorkflow_Z721C83C5(this$: ArcWorkflow, subWorkflowIdentifier: string): void;
590
+ export declare function ArcWorkflow_deregisterSubWorkflow_Z721C83C5(subWorkflowIdentifier: string): ((arg0: ArcWorkflow) => ArcWorkflow);
591
+ export declare function ArcWorkflow__GetRegisteredSubWorkflow_Z721C83C5(this$: ArcWorkflow, subWorkflowIdentifier: string): ArcWorkflow;
592
+ export declare function ArcWorkflow_getRegisteredSubWorkflow_Z721C83C5(subWorkflowIdentifier: string): ((arg0: ArcWorkflow) => ArcWorkflow);
593
+ export declare function ArcWorkflow_getRegisteredSubWorkflows(): ((arg0: ArcWorkflow) => ArcWorkflow[]);
594
+ /**
595
+ * Returns ArcSubWorkflows registered in workflow, or if no parent exists, initializies new ArcSubWorkflow from identifier.
596
+ */
597
+ export declare function ArcWorkflow__GetRegisteredSubWorkflowsOrIdentifier(this$: ArcWorkflow): ArcWorkflow[];
598
+ /**
599
+ * Returns ArcSubWorkflows registered in workflow, or if no parent exists, initializies new ArcSubWorkflow from identifier.
600
+ */
601
+ export declare function ArcWorkflow_getRegisteredSubWorkflowsOrIdentifier(): ((arg0: ArcWorkflow) => ArcWorkflow[]);
602
+ /**
603
+ * Copies ArcStudy object without the pointer to the parent ArcInvestigation
604
+ *
605
+ * This copy does only contain the identifiers of the registered ArcAssays and not the actual objects.
606
+ *
607
+ * In order to copy the ArcAssays as well, use the Copy() method of the ArcInvestigation.
608
+ */
609
+ export declare function ArcWorkflow__Copy_6FCE9E49(this$: ArcWorkflow, copyInvestigationRef: Option<boolean>): ArcWorkflow;
610
+ export declare function ArcWorkflow__StructurallyEquals_Z1C75CB0E(this$: ArcWorkflow, other: ArcWorkflow): boolean;
611
+ /**
612
+ * Use this function to check if this ArcWorkflow and the input ArcWorkflow refer to the same object.
613
+ *
614
+ * If true, updating one will update the other due to mutability.
615
+ */
616
+ export declare function ArcWorkflow__ReferenceEquals_1680536E(this$: ArcWorkflow, other: ArcStudy): boolean;
617
+ export declare function ArcWorkflow__GetLightHashCode(this$: ArcWorkflow): int32;
618
+ //# sourceMappingURL=ArcTypes.d.ts.map