@graphty/graph-io 0.3.25 → 0.3.26

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 (581) hide show
  1. package/README.md +49 -414
  2. package/dist/chunks/children-CL3Cy0ez.js.map +1 -1
  3. package/dist/chunks/choose-BbJI55dx.js +56 -0
  4. package/dist/chunks/choose-BbJI55dx.js.map +1 -0
  5. package/dist/chunks/constants-BCsFsMj4.js +231 -0
  6. package/dist/chunks/constants-BCsFsMj4.js.map +1 -0
  7. package/dist/chunks/{escape-B-tkk_Cl.js → escape-D0g6NNUy.js} +382 -92
  8. package/dist/chunks/escape-D0g6NNUy.js.map +1 -0
  9. package/dist/chunks/export-BTI4yQgy.js +4333 -0
  10. package/dist/chunks/export-BTI4yQgy.js.map +1 -0
  11. package/dist/chunks/exporter-BMqk5oxW.js +3465 -0
  12. package/dist/chunks/exporter-BMqk5oxW.js.map +1 -0
  13. package/dist/chunks/{importer-eUREhBGj.js → exporter-Cra2GYcN.js} +4969 -3201
  14. package/dist/chunks/exporter-Cra2GYcN.js.map +1 -0
  15. package/dist/chunks/{exporter-BGrsWamJ.js → exporter-Dxh231ZF.js} +38 -229
  16. package/dist/chunks/exporter-Dxh231ZF.js.map +1 -0
  17. package/dist/chunks/{exporter-DIeGJXAZ.js → exporter-tne475KK.js} +22 -20
  18. package/dist/chunks/exporter-tne475KK.js.map +1 -0
  19. package/dist/chunks/importer-90YWhJoF.js +2811 -0
  20. package/dist/chunks/importer-90YWhJoF.js.map +1 -0
  21. package/dist/chunks/{importer-D_e7e7LX.js → importer-Bcl1d4xH.js} +398 -145
  22. package/dist/chunks/importer-Bcl1d4xH.js.map +1 -0
  23. package/dist/chunks/{importer-BWY2FFc5.js → importer-BfIsp1f9.js} +255 -77
  24. package/dist/chunks/importer-BfIsp1f9.js.map +1 -0
  25. package/dist/chunks/{importer-zGLo8Dg_.js → importer-C_TEA1zJ.js} +484 -157
  26. package/dist/chunks/importer-C_TEA1zJ.js.map +1 -0
  27. package/dist/chunks/{importer-DET1tg6s.js → importer-DCjOvO7U.js} +1687 -310
  28. package/dist/chunks/importer-DCjOvO7U.js.map +1 -0
  29. package/dist/chunks/{importer-vi3bSdtw.js → importer-DfVu6j59.js} +509 -76
  30. package/dist/chunks/importer-DfVu6j59.js.map +1 -0
  31. package/dist/chunks/{importer-DIrbbnAf.js → importer-Dku_VAIY.js} +585 -226
  32. package/dist/chunks/importer-Dku_VAIY.js.map +1 -0
  33. package/dist/chunks/json-elements-3tnyt5uZ.js +1225 -0
  34. package/dist/chunks/json-elements-3tnyt5uZ.js.map +1 -0
  35. package/dist/chunks/ontology-export-B9Tcf37D.js +357 -0
  36. package/dist/chunks/ontology-export-B9Tcf37D.js.map +1 -0
  37. package/dist/chunks/{records-dbRkxwaq.js → records-CQXT__mY.js} +298 -114
  38. package/dist/chunks/records-CQXT__mY.js.map +1 -0
  39. package/dist/chunks/{text-Dr0Ifpag.js → text-DmcUs5_Q.js} +29 -11
  40. package/dist/chunks/text-DmcUs5_Q.js.map +1 -0
  41. package/dist/chunks/{writer-C7flM-Ih.js → writer-DxjgHwSe.js} +19 -1
  42. package/dist/chunks/writer-DxjgHwSe.js.map +1 -0
  43. package/dist/csv.js +951 -261
  44. package/dist/csv.js.map +1 -1
  45. package/dist/cx.js +6 -3
  46. package/dist/cx2.js +2 -2
  47. package/dist/cys.js +6 -3
  48. package/dist/dot.js +1 -1
  49. package/dist/gexf.js +554 -122
  50. package/dist/gexf.js.map +1 -1
  51. package/dist/gml.js +342 -85
  52. package/dist/gml.js.map +1 -1
  53. package/dist/graph-io.js +1105 -213
  54. package/dist/graph-io.js.map +1 -1
  55. package/dist/graphml.js +3 -2
  56. package/dist/graphml.js.map +1 -1
  57. package/dist/json.js +3 -2
  58. package/dist/neo4j.js +564 -157
  59. package/dist/neo4j.js.map +1 -1
  60. package/dist/obo.js +6 -3
  61. package/dist/pajek.js +1 -1
  62. package/dist/src/children.d.ts +18 -6
  63. package/dist/src/children.d.ts.map +1 -1
  64. package/dist/src/children.js +6 -3
  65. package/dist/src/children.js.map +1 -1
  66. package/dist/src/common/attributes.d.ts +29 -11
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  68. package/dist/src/common/attributes.js +25 -7
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  70. package/dist/src/common/cell-budget.d.ts +9 -2
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  72. package/dist/src/common/cell-budget.js +11 -3
  73. package/dist/src/common/cell-budget.js.map +1 -1
  74. package/dist/src/common/choose.d.ts +19 -0
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  76. package/dist/src/common/choose.js +72 -0
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  78. package/dist/src/common/codes.d.ts +456 -66
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  80. package/dist/src/common/codes.js +458 -66
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  82. package/dist/src/common/compare.d.ts +81 -0
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  84. package/dist/src/common/compare.js +394 -0
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  86. package/dist/src/common/cx-export.d.ts +123 -0
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  88. package/dist/src/common/cx-export.js +334 -0
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  90. package/dist/src/common/declared-types.d.ts +22 -2
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  94. package/dist/src/common/direction.d.ts +74 -50
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  96. package/dist/src/common/direction.js +47 -27
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  98. package/dist/src/common/escape.d.ts +21 -9
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  100. package/dist/src/common/escape.js +33 -17
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  102. package/dist/src/common/export.d.ts +144 -32
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  104. package/dist/src/common/export.js +216 -42
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  106. package/dist/src/common/format.d.ts +23 -1
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  108. package/dist/src/common/format.js +26 -1
  109. package/dist/src/common/format.js.map +1 -1
  110. package/dist/src/common/ids.d.ts +9 -2
  111. package/dist/src/common/ids.d.ts.map +1 -1
  112. package/dist/src/common/ids.js +6 -2
  113. package/dist/src/common/ids.js.map +1 -1
  114. package/dist/src/common/input.d.ts +122 -28
  115. package/dist/src/common/input.d.ts.map +1 -1
  116. package/dist/src/common/input.js +890 -124
  117. package/dist/src/common/input.js.map +1 -1
  118. package/dist/src/common/json-elements.d.ts +144 -20
  119. package/dist/src/common/json-elements.d.ts.map +1 -1
  120. package/dist/src/common/json-elements.js +868 -188
  121. package/dist/src/common/json-elements.js.map +1 -1
  122. package/dist/src/common/line-format.d.ts +90 -0
  123. package/dist/src/common/line-format.d.ts.map +1 -0
  124. package/dist/src/common/line-format.js +185 -0
  125. package/dist/src/common/line-format.js.map +1 -0
  126. package/dist/src/common/lists.d.ts +6 -1
  127. package/dist/src/common/lists.d.ts.map +1 -1
  128. package/dist/src/common/lists.js +2 -0
  129. package/dist/src/common/lists.js.map +1 -1
  130. package/dist/src/common/ontology-export.d.ts +167 -0
  131. package/dist/src/common/ontology-export.d.ts.map +1 -0
  132. package/dist/src/common/ontology-export.js +359 -0
  133. package/dist/src/common/ontology-export.js.map +1 -0
  134. package/dist/src/common/ontology.d.ts +25 -3
  135. package/dist/src/common/ontology.d.ts.map +1 -1
  136. package/dist/src/common/ontology.js +30 -9
  137. package/dist/src/common/ontology.js.map +1 -1
  138. package/dist/src/common/options.d.ts +62 -12
  139. package/dist/src/common/options.d.ts.map +1 -1
  140. package/dist/src/common/options.js +89 -11
  141. package/dist/src/common/options.js.map +1 -1
  142. package/dist/src/common/plural.d.ts +31 -0
  143. package/dist/src/common/plural.d.ts.map +1 -0
  144. package/dist/src/common/plural.js +46 -0
  145. package/dist/src/common/plural.js.map +1 -0
  146. package/dist/src/common/report.d.ts +72 -14
  147. package/dist/src/common/report.d.ts.map +1 -1
  148. package/dist/src/common/report.js +146 -22
  149. package/dist/src/common/report.js.map +1 -1
  150. package/dist/src/common/temporal.d.ts +22 -5
  151. package/dist/src/common/temporal.d.ts.map +1 -1
  152. package/dist/src/common/temporal.js +13 -2
  153. package/dist/src/common/temporal.js.map +1 -1
  154. package/dist/src/common/text.d.ts +39 -23
  155. package/dist/src/common/text.d.ts.map +1 -1
  156. package/dist/src/common/text.js +51 -21
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  158. package/dist/src/common/weights.d.ts +37 -4
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  160. package/dist/src/common/weights.js +61 -2
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  162. package/dist/src/common/writer.d.ts +19 -3
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  164. package/dist/src/common/writer.js +30 -2
  165. package/dist/src/common/writer.js.map +1 -1
  166. package/dist/src/common/xml.d.ts +125 -9
  167. package/dist/src/common/xml.d.ts.map +1 -1
  168. package/dist/src/common/xml.js +400 -83
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  170. package/dist/src/common/zip.d.ts +44 -4
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  172. package/dist/src/common/zip.js +134 -5
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  174. package/dist/src/formats/csv/exporter.d.ts +80 -24
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  178. package/dist/src/formats/csv/header.d.ts +38 -9
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  190. package/dist/src/formats/csv/records.d.ts +95 -10
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@@ -41,8 +41,8 @@ import { parseTemporal, type TemporalValue, timeTextCompanion } from "./temporal
41
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  /**
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  * What an importer knows about a declared attribute.
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- * Consumed by the per-format importers and exporters under src/formats.
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  * @public
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+ * @category Plugin helpers
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  */
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  export interface AttributeDeclarationInput {
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  /** The declaring format. */
@@ -73,8 +73,8 @@ export interface AttributeDeclarationInput {
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  /**
75
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  * A non-fatal problem with a declaration, for the importer to record as a warning.
76
- * Consumed by the per-format importers and exporters under src/formats.
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  * @public
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+ * @category Plugin helpers
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  */
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  export interface DeclarationIssue {
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  /** The issue category. */
@@ -87,8 +87,8 @@ export interface DeclarationIssue {
87
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  /**
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  * A declared attribute: the ColumnDecl to push, the spec to parse values with, and what to report.
90
- * Consumed by the per-format importers and exporters under src/formats.
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  * @public
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+ * @category Plugin helpers
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  export interface DeclaredAttribute {
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  /** The declaration for declareNodeColumn / declareEdgeColumn. */
@@ -105,20 +105,30 @@ export interface DeclaredAttribute {
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  readonly issues: readonly DeclarationIssue[];
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  }
107
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108
- /** Issue code: the declared type is not one the format defines; the column is kept as string. */
108
+ /**
109
+ * The declared type is not one the format defines; the column is kept as string.
110
+ * @category Issue and loss codes
111
+ */
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112
  export const UNKNOWN_TYPE_CODE = UNKNOWN_ATTR_TYPE_CODE;
110
- /** Issue code: the column was renamed `<name>#<id>` because the name was taken (design section 5.6). */
113
+ /**
114
+ * The column was renamed `<name>#<id>` because the name was taken.
115
+ * @category Issue and loss codes
116
+ */
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  export const RENAMED_CODE = COLUMN_RENAMED_CODE;
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113
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  export { BAD_DEFAULT_CODE, BAD_OPTIONS_CODE, PRECISION_CODE, ROLE_TAKEN_CODE };
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- /** Rows sampled before the dict heuristic decides (design section 5.4). */
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+ /**
122
+ * Rows sampled before the dict heuristic decides (design section 5.4).
123
+ * @category Plugin helpers
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+ */
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  export const DICT_SAMPLE_ROWS = 1024;
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  /**
119
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  * @param input - what the file declares
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+ * @category Plugin helpers
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  */
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  export function declareAttribute(input: AttributeDeclarationInput): DeclaredAttribute {
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  const issues: DeclarationIssue[] = [];
@@ -208,6 +218,7 @@ export function declareAttribute(input: AttributeDeclarationInput): DeclaredAttr
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  * @param spec - the declared type
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  * @param listSyntax - the list syntax
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  * @returns the value to push (a boolean, a number, a string, a JSON value or an array)
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+ * @category Plugin helpers
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  */
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  export function parseDeclaredValue(text: string, spec: DeclaredTypeSpec, listSyntax: ListSyntax): unknown {
213
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  if (spec.list) {
@@ -222,6 +233,7 @@ export function parseDeclaredValue(text: string, spec: DeclaredTypeSpec, listSyn
222
233
  * @param text - the value text
223
234
  * @param spec - a scalar temporal spec
224
235
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236
+ * @category Plugin helpers
225
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  */
226
238
  export function parseDeclaredTemporal(text: string, spec: DeclaredTypeSpec): TemporalValue {
227
239
  if (spec.temporal === null || spec.list) {
@@ -241,6 +253,7 @@ const INTEGER_TEXT = /^[+-]?[0-9]+$/;
241
253
  * @param spec - the declared type
242
254
  * @param text - the value text (trimmed or not)
243
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  * @returns true when the importer should record a `precision` issue
256
+ * @category Plugin helpers
244
257
  */
245
258
  export function losesPrecision(spec: DeclaredTypeSpec, text: string): boolean {
246
259
  if (!spec.precision) {
@@ -260,6 +273,7 @@ export function losesPrecision(spec: DeclaredTypeSpec, text: string): boolean {
260
273
  * @param domain - node or edge
261
274
  * @param decl - the declaration
262
275
  * @returns the column handle
276
+ * @category Plugin helpers
263
277
  */
264
278
  export function declareOn(sink: GraphSink, domain: "node" | "edge", decl: ColumnDecl): ColumnHandle {
265
279
  return domain === "node" ? sink.declareNodeColumn(decl) : sink.declareEdgeColumn(decl);
@@ -267,8 +281,8 @@ export function declareOn(sink: GraphSink, domain: "node" | "edge", decl: Column
267
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268
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  /**
269
283
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270
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271
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285
+ * @category Plugin helpers
272
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  */
273
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  export interface ResolvedDeclaration {
274
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  /** The column handle. */
@@ -282,11 +296,10 @@ export interface ResolvedDeclaration {
282
296
  }
283
297
 
284
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  /**
285
- * The io rule of design section 5.6 in one place, so every importer agrees: declare a column on
299
+ * The column naming rule in one place, so every importer agrees: declare a column on
286
300
  * the sink and, when the sink already holds the name with another shape (an earlier import, a
287
301
  * caller's column), rename it `<name>#<origin.id>` (a counter when the source has no id) and
288
- * record W_COLUMN_RENAMED (coercion); when the table already holds the role (design section 5.5:
289
- * at most one column per role), declare without the role and record W_ROLE_TAKEN (coercion). The
302
+ * record W_COLUMN_RENAMED (coercion); when the table already holds the role, declare without the role and record W_ROLE_TAKEN (coercion). The
290
303
  * same shape under the same name returns the existing handle, as the sink does.
291
304
  * @param sink - the sink
292
305
  * @param domain - node or edge
@@ -294,6 +307,7 @@ export interface ResolvedDeclaration {
294
307
  * @param report - the report the coercion issues are recorded in
295
308
  * @param where - the line and element, when known
296
309
  * @returns the handle and the declaration as applied
310
+ * @category Plugin helpers
297
311
  */
298
312
  export function declareResolved(
299
313
  sink: GraphSink,
@@ -345,7 +359,7 @@ export function declareResolved(
345
359
  }
346
360
 
347
361
  /**
348
- * Declare the companion text column of a temporal column (design section 5.1). A table holds at
362
+ * Declare the companion text column of a temporal column. A table holds at
349
363
  * most one column per role, so when another companion already carries `timeText` this one is
350
364
  * declared without the role (reported once per table); exporters find every companion through
351
365
  * `extra.for`.
@@ -354,6 +368,7 @@ export function declareResolved(
354
368
  * @param companion - the declaration from declareAttribute()
355
369
  * @param report - the report the role loss is recorded in; when omitted the loss is silent
356
370
  * @returns the column handle
371
+ * @category Plugin helpers
357
372
  */
358
373
  export function declareCompanion(
359
374
  sink: GraphSink,
@@ -383,6 +398,7 @@ export function declareCompanion(
383
398
  * @param sink - the sink
384
399
  * @param domain - node or edge
385
400
  * @returns a predicate over column names
401
+ * @category Plugin helpers
386
402
  */
387
403
  export function takenIn(sink: GraphSink, domain: "node" | "edge"): (name: string) => boolean {
388
404
  return (name: string): boolean =>
@@ -396,6 +412,7 @@ export function takenIn(sink: GraphSink, domain: "node" | "edge"): (name: string
396
412
  * @param id - the source id (the attribute id or key id); null falls back to a counter
397
413
  * @param taken - whether a name is already used in the table
398
414
  * @returns a free name
415
+ * @category Plugin helpers
399
416
  */
400
417
  export function uniqueColumnName(name: string, id: string | null, taken: (name: string) => boolean): string {
401
418
  if (!taken(name)) {
@@ -417,6 +434,7 @@ export function uniqueColumnName(name: string, id: string | null, taken: (name:
417
434
  * The dict heuristic of design section 5.4 for an untyped string column: observe values until the
418
435
  * sample is full; the column is a dict when the distinct count stays below half the rows, a string
419
436
  * otherwise. The importer buffers the sampled values and declares the column on the decision.
437
+ * @category Plugin helpers
420
438
  */
421
439
  export class DictHeuristic {
422
440
  private readonly distinct = new Set<string>();
@@ -17,9 +17,13 @@ import {
17
17
  } from "@graphty/graph-format";
18
18
 
19
19
  import { describe } from "./options.js";
20
+ import { plural } from "./plural.js";
20
21
  import { ImportReportBuilder } from "./report.js";
21
22
 
22
- /** The issue code of an import stopped for allocating too many empty attribute slots. */
23
+ /**
24
+ * Import stopped for allocating too many empty attribute slots.
25
+ * @category Issue and loss codes
26
+ */
23
27
  export const TOO_MANY_EMPTY_CELLS_CODE = "E_TOO_MANY_EMPTY_CELLS";
24
28
 
25
29
  /** The default limit: 2^24 empty slots, about 130 MB of f64 columns. */
@@ -30,6 +34,7 @@ const DEFAULT_MAX_EMPTY_CELLS = 2 ** 24;
30
34
  * @param value - the caller's value
31
35
  * @returns a non-negative integer or Infinity
32
36
  * @throws GraphFormatError E_UNSUPPORTED for anything else
37
+ * @category Plugin helpers
33
38
  */
34
39
  export function maxEmptyCellsOption(value: unknown): number {
35
40
  if (value === undefined) {
@@ -45,7 +50,10 @@ export function maxEmptyCellsOption(value: unknown): number {
45
50
  );
46
51
  }
47
52
 
48
- /** A GraphBuilder that throws an ImportError once its attribute columns hold too many empty slots. */
53
+ /**
54
+ * A GraphBuilder that throws an ImportError once its attribute columns hold too many empty slots.
55
+ * @category Plugin helpers
56
+ */
49
57
  export class CellBudgetBuilder extends GraphBuilder {
50
58
  private readonly nodeColumns = new Set<number>();
51
59
  private readonly edgeColumns = new Set<number>();
@@ -159,7 +167,7 @@ export class CellBudgetBuilder extends GraphBuilder {
159
167
  new ImportReportBuilder(this.format, Infinity).fail(
160
168
  TOO_MANY_EMPTY_CELLS_CODE,
161
169
  `the attributes are too sparse: ${this.nodeColumns.size} node and ${this.edgeColumns.size} edge ` +
162
- `attribute column(s) over ${this.nodeBound} node(s) and ${this.edgeBound} edge(s) would ` +
170
+ `attribute columns over ${this.nodeBound} node${plural(this.nodeBound)} and ${this.edgeBound} edge${plural(this.edgeBound)} would ` +
163
171
  `allocate more than ${this.maxEmptyCells} slots that hold no value; pass a larger ` +
164
172
  `maxEmptyCells (or Infinity) to read the file anyway`,
165
173
  undefined,
@@ -0,0 +1,89 @@
1
+ /**
2
+ * The graph choice of an importer that can read every graph of a file (importAll) but has no cheap
3
+ * listing: `graphIndex` / `graphName` passed to its import() directly, as the registry would honor
4
+ * them, so a caller with its own builder is not silently given the first graph.
5
+ */
6
+
7
+ import { GraphBuilder, type GraphSink } from "@graphty/graph-format";
8
+
9
+ import {
10
+ type CommonImportOptions,
11
+ type GraphChoiceOptions,
12
+ type GraphImporter,
13
+ type ImportInput,
14
+ type ImportReport,
15
+ } from "../types.js";
16
+ import { chooseGraph } from "./options.js";
17
+ import { ImportReportBuilder } from "./report.js";
18
+
19
+ /**
20
+ * Read the graph `graphIndex` or `graphName` chooses into the sink: every graph is read once into a
21
+ * scratch builder to learn the names (E_GRAPH_NOT_FOUND lists them), then the input again with the
22
+ * chosen graph going to the sink.
23
+ * @param importer - the importer, which has importAll()
24
+ * @param input - the input
25
+ * @param sink - the caller's sink
26
+ * @param options - the import options, with the choice
27
+ * @returns the chosen graph's report
28
+ */
29
+ export async function importChosenGraph<O>(
30
+ importer: GraphImporter<O>,
31
+ input: ImportInput,
32
+ sink: GraphSink,
33
+ options: (O & CommonImportOptions & GraphChoiceOptions) | undefined,
34
+ ): Promise<ImportReport> {
35
+ const importAll = importer.importAll?.bind(importer);
36
+ if (importAll === undefined) {
37
+ return importer.import(input, sink, options);
38
+ }
39
+ const replay = await replayable(input);
40
+ const scratch: GraphBuilder[] = [];
41
+ await importAll(replay, (i) => (scratch[i] = new GraphBuilder({ directed: false })), {
42
+ ...options,
43
+ onProgress: undefined,
44
+ } as O & CommonImportOptions);
45
+ const names = scratch.map((b) => {
46
+ try {
47
+ return b.freeze().meta.name;
48
+ } catch {
49
+ return null;
50
+ }
51
+ });
52
+ const chosen = chooseGraph(names, options, new ImportReportBuilder(importer.format, 0));
53
+ const reports = await importAll(
54
+ replay,
55
+ (i) => (i === chosen ? sink : new GraphBuilder({ directed: false })),
56
+ options,
57
+ );
58
+ return reports[chosen];
59
+ }
60
+
61
+ /**
62
+ * The input as a string or bytes that can be read twice.
63
+ * @param input - the input
64
+ * @returns the same text or bytes, or the stream's bytes
65
+ */
66
+ async function replayable(input: ImportInput): Promise<string | Uint8Array> {
67
+ if (typeof input === "string" || input instanceof Uint8Array) {
68
+ return input;
69
+ }
70
+ const parts: Uint8Array[] = [];
71
+ const encoder = new TextEncoder();
72
+ if (typeof (input as ReadableStream<Uint8Array>).getReader === "function") {
73
+ const reader = (input as ReadableStream<Uint8Array>).getReader();
74
+ for (let r = await reader.read(); !r.done; r = await reader.read()) {
75
+ parts.push(r.value);
76
+ }
77
+ } else {
78
+ for await (const chunk of input as AsyncIterable<string | Uint8Array>) {
79
+ parts.push(typeof chunk === "string" ? encoder.encode(chunk) : chunk);
80
+ }
81
+ }
82
+ const out = new Uint8Array(parts.reduce((n, p) => n + p.byteLength, 0));
83
+ let offset = 0;
84
+ for (const part of parts) {
85
+ out.set(part, offset);
86
+ offset += part.byteLength;
87
+ }
88
+ return out;
89
+ }