@graphty/graph-io 0.3.40 → 0.3.42

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 (210) hide show
  1. package/README.md +2 -0
  2. package/dist/chunks/{children-CL3Cy0ez.js → children-CA4coBi0.js} +36 -27
  3. package/dist/chunks/children-CA4coBi0.js.map +1 -0
  4. package/dist/chunks/{choose-CS3fvGT1.js → choose-DvpbdRuz.js} +2 -2
  5. package/dist/chunks/{choose-CS3fvGT1.js.map → choose-DvpbdRuz.js.map} +1 -1
  6. package/dist/chunks/{constants-DqKZT6cH.js → constants-fT3E8JYY.js} +2 -2
  7. package/dist/chunks/{constants-DqKZT6cH.js.map → constants-fT3E8JYY.js.map} +1 -1
  8. package/dist/chunks/{escape-BJRLd3vJ.js → escape-B62ZGM_a.js} +2 -2
  9. package/dist/chunks/{escape-BJRLd3vJ.js.map → escape-B62ZGM_a.js.map} +1 -1
  10. package/dist/chunks/{export-B-aVCwyG.js → export-rKLeGQMo.js} +404 -243
  11. package/dist/chunks/export-rKLeGQMo.js.map +1 -0
  12. package/dist/chunks/{exporter-6ocL_9x_.js → exporter-8hLNemFk.js} +4 -4
  13. package/dist/chunks/{exporter-6ocL_9x_.js.map → exporter-8hLNemFk.js.map} +1 -1
  14. package/dist/chunks/{exporter-BVXnV9-9.js → exporter-BWwEuOPT.js} +29 -17
  15. package/dist/chunks/exporter-BWwEuOPT.js.map +1 -0
  16. package/dist/chunks/{exporter-Bcp-l4Bo.js → exporter-CpRyHZ3H.js} +574 -475
  17. package/dist/chunks/exporter-CpRyHZ3H.js.map +1 -0
  18. package/dist/chunks/{exporter-SFYkDzD0.js → exporter-yLxKBvLE.js} +23 -20
  19. package/dist/chunks/{exporter-SFYkDzD0.js.map → exporter-yLxKBvLE.js.map} +1 -1
  20. package/dist/chunks/{importer-DcKB97kW.js → importer-BbNb7eNg.js} +111 -71
  21. package/dist/chunks/importer-BbNb7eNg.js.map +1 -0
  22. package/dist/chunks/{importer-D_srHyj6.js → importer-C98dpSH4.js} +5 -5
  23. package/dist/chunks/{importer-D_srHyj6.js.map → importer-C98dpSH4.js.map} +1 -1
  24. package/dist/chunks/{importer-BJlGAOht.js → importer-D794XUTe.js} +3 -3
  25. package/dist/chunks/{importer-BJlGAOht.js.map → importer-D794XUTe.js.map} +1 -1
  26. package/dist/chunks/{importer-AjwOJrn2.js → importer-Dz7tI8Sa.js} +202 -181
  27. package/dist/chunks/importer-Dz7tI8Sa.js.map +1 -0
  28. package/dist/chunks/{importer-DEp_fYjf.js → importer-Ht7LNg8L.js} +92 -64
  29. package/dist/chunks/importer-Ht7LNg8L.js.map +1 -0
  30. package/dist/chunks/{importer-CPqnIY8m.js → importer-WrGRZb0N.js} +42 -29
  31. package/dist/chunks/importer-WrGRZb0N.js.map +1 -0
  32. package/dist/chunks/{importer-BpuS3J8C.js → importer-xZ-3suY1.js} +74 -61
  33. package/dist/chunks/importer-xZ-3suY1.js.map +1 -0
  34. package/dist/chunks/{json-elements-DpO6AXIc.js → json-elements-DKSqpNW1.js} +3 -3
  35. package/dist/chunks/{json-elements-DpO6AXIc.js.map → json-elements-DKSqpNW1.js.map} +1 -1
  36. package/dist/chunks/{ontology-export-50L9DOV4.js → ontology-export-CtRXjg_i.js} +2 -2
  37. package/dist/chunks/{ontology-export-50L9DOV4.js.map → ontology-export-CtRXjg_i.js.map} +1 -1
  38. package/dist/chunks/{records-r3SFHz11.js → records-Cu4bxYOm.js} +69 -36
  39. package/dist/chunks/records-Cu4bxYOm.js.map +1 -0
  40. package/dist/chunks/{text-Bjfa1xYL.js → text-DHOJXnED.js} +20 -11
  41. package/dist/chunks/text-DHOJXnED.js.map +1 -0
  42. package/dist/csv.js +323 -241
  43. package/dist/csv.js.map +1 -1
  44. package/dist/cx.js +1 -1
  45. package/dist/cx2.js +2 -2
  46. package/dist/cys.js +1 -1
  47. package/dist/dot.js +1 -1
  48. package/dist/gexf.js +195 -97
  49. package/dist/gexf.js.map +1 -1
  50. package/dist/gml.js +170 -149
  51. package/dist/gml.js.map +1 -1
  52. package/dist/graph-io.js +27 -27
  53. package/dist/graphml.js +2 -2
  54. package/dist/json.js +1 -1
  55. package/dist/neo4j.js +103 -65
  56. package/dist/neo4j.js.map +1 -1
  57. package/dist/obo.js +1 -1
  58. package/dist/pajek.js +1 -1
  59. package/dist/src/children.d.ts.map +1 -1
  60. package/dist/src/children.js +50 -27
  61. package/dist/src/children.js.map +1 -1
  62. package/dist/src/common/attributes.d.ts.map +1 -1
  63. package/dist/src/common/attributes.js +86 -42
  64. package/dist/src/common/attributes.js.map +1 -1
  65. package/dist/src/common/input.d.ts.map +1 -1
  66. package/dist/src/common/input.js +358 -184
  67. package/dist/src/common/input.js.map +1 -1
  68. package/dist/src/common/lists.js +30 -15
  69. package/dist/src/common/lists.js.map +1 -1
  70. package/dist/src/common/text.d.ts +7 -0
  71. package/dist/src/common/text.d.ts.map +1 -1
  72. package/dist/src/common/text.js +15 -7
  73. package/dist/src/common/text.js.map +1 -1
  74. package/dist/src/common/zip.d.ts.map +1 -1
  75. package/dist/src/common/zip.js +36 -19
  76. package/dist/src/common/zip.js.map +1 -1
  77. package/dist/src/formats/csv/exporter.d.ts.map +1 -1
  78. package/dist/src/formats/csv/exporter.js +288 -146
  79. package/dist/src/formats/csv/exporter.js.map +1 -1
  80. package/dist/src/formats/csv/importer.d.ts.map +1 -1
  81. package/dist/src/formats/csv/importer.js +129 -80
  82. package/dist/src/formats/csv/importer.js.map +1 -1
  83. package/dist/src/formats/csv/records.d.ts.map +1 -1
  84. package/dist/src/formats/csv/records.js +78 -36
  85. package/dist/src/formats/csv/records.js.map +1 -1
  86. package/dist/src/formats/cys/tables.d.ts.map +1 -1
  87. package/dist/src/formats/cys/tables.js +11 -8
  88. package/dist/src/formats/cys/tables.js.map +1 -1
  89. package/dist/src/formats/dot/tokenizer.d.ts +39 -0
  90. package/dist/src/formats/dot/tokenizer.d.ts.map +1 -1
  91. package/dist/src/formats/dot/tokenizer.js +112 -66
  92. package/dist/src/formats/dot/tokenizer.js.map +1 -1
  93. package/dist/src/formats/gexf/exporter.d.ts.map +1 -1
  94. package/dist/src/formats/gexf/exporter.js +65 -37
  95. package/dist/src/formats/gexf/exporter.js.map +1 -1
  96. package/dist/src/formats/gexf/importer.d.ts.map +1 -1
  97. package/dist/src/formats/gexf/importer.js +138 -50
  98. package/dist/src/formats/gexf/importer.js.map +1 -1
  99. package/dist/src/formats/gml/exporter.d.ts.map +1 -1
  100. package/dist/src/formats/gml/exporter.js +51 -35
  101. package/dist/src/formats/gml/exporter.js.map +1 -1
  102. package/dist/src/formats/gml/importer.d.ts.map +1 -1
  103. package/dist/src/formats/gml/importer.js +103 -58
  104. package/dist/src/formats/gml/importer.js.map +1 -1
  105. package/dist/src/formats/gml/syntax.d.ts.map +1 -1
  106. package/dist/src/formats/gml/syntax.js +17 -8
  107. package/dist/src/formats/gml/syntax.js.map +1 -1
  108. package/dist/src/formats/graphml/exporter.d.ts.map +1 -1
  109. package/dist/src/formats/graphml/exporter.js +34 -24
  110. package/dist/src/formats/graphml/exporter.js.map +1 -1
  111. package/dist/src/formats/graphml/importer.d.ts.map +1 -1
  112. package/dist/src/formats/graphml/importer.js +17 -13
  113. package/dist/src/formats/graphml/importer.js.map +1 -1
  114. package/dist/src/formats/graphml/tree.js +23 -14
  115. package/dist/src/formats/graphml/tree.js.map +1 -1
  116. package/dist/src/formats/graphml/yfiles.d.ts.map +1 -1
  117. package/dist/src/formats/graphml/yfiles.js +22 -10
  118. package/dist/src/formats/graphml/yfiles.js.map +1 -1
  119. package/dist/src/formats/json/dialect.d.ts.map +1 -1
  120. package/dist/src/formats/json/dialect.js +54 -20
  121. package/dist/src/formats/json/dialect.js.map +1 -1
  122. package/dist/src/formats/json/exporter.d.ts.map +1 -1
  123. package/dist/src/formats/json/exporter.js +38 -21
  124. package/dist/src/formats/json/exporter.js.map +1 -1
  125. package/dist/src/formats/json/importer.d.ts.map +1 -1
  126. package/dist/src/formats/json/importer.js +536 -343
  127. package/dist/src/formats/json/importer.js.map +1 -1
  128. package/dist/src/formats/json/obographs.js +29 -17
  129. package/dist/src/formats/json/obographs.js.map +1 -1
  130. package/dist/src/formats/neo4j/exporter.d.ts.map +1 -1
  131. package/dist/src/formats/neo4j/exporter.js +73 -43
  132. package/dist/src/formats/neo4j/exporter.js.map +1 -1
  133. package/dist/src/formats/neo4j/header.d.ts.map +1 -1
  134. package/dist/src/formats/neo4j/header.js +37 -16
  135. package/dist/src/formats/neo4j/header.js.map +1 -1
  136. package/dist/src/formats/neo4j/importer.d.ts.map +1 -1
  137. package/dist/src/formats/neo4j/importer.js +21 -11
  138. package/dist/src/formats/neo4j/importer.js.map +1 -1
  139. package/dist/src/formats/obo/exporter.d.ts.map +1 -1
  140. package/dist/src/formats/obo/exporter.js +18 -7
  141. package/dist/src/formats/obo/exporter.js.map +1 -1
  142. package/dist/src/formats/pajek/exporter.d.ts.map +1 -1
  143. package/dist/src/formats/pajek/exporter.js +142 -73
  144. package/dist/src/formats/pajek/exporter.js.map +1 -1
  145. package/dist/src/formats/pajek/importer.d.ts.map +1 -1
  146. package/dist/src/formats/pajek/importer.js +26 -15
  147. package/dist/src/formats/pajek/importer.js.map +1 -1
  148. package/dist/src/formats/pajek/syntax.d.ts.map +1 -1
  149. package/dist/src/formats/pajek/syntax.js +85 -58
  150. package/dist/src/formats/pajek/syntax.js.map +1 -1
  151. package/dist/src/formats/xgmml/emit.d.ts +7 -0
  152. package/dist/src/formats/xgmml/emit.d.ts.map +1 -1
  153. package/dist/src/formats/xgmml/emit.js +79 -40
  154. package/dist/src/formats/xgmml/emit.js.map +1 -1
  155. package/dist/src/formats/xgmml/exporter.d.ts.map +1 -1
  156. package/dist/src/formats/xgmml/exporter.js +38 -12
  157. package/dist/src/formats/xgmml/exporter.js.map +1 -1
  158. package/dist/src/formats/xgmml/importer.d.ts.map +1 -1
  159. package/dist/src/formats/xgmml/importer.js +38 -18
  160. package/dist/src/formats/xgmml/importer.js.map +1 -1
  161. package/dist/src/sniff.js +109 -57
  162. package/dist/src/sniff.js.map +1 -1
  163. package/dist/xgmml.js +2 -2
  164. package/package.json +2 -2
  165. package/src/children.ts +54 -27
  166. package/src/common/attributes.ts +118 -49
  167. package/src/common/input.ts +439 -197
  168. package/src/common/lists.ts +29 -15
  169. package/src/common/text.ts +24 -15
  170. package/src/common/zip.ts +47 -18
  171. package/src/formats/csv/exporter.ts +377 -175
  172. package/src/formats/csv/importer.ts +155 -84
  173. package/src/formats/csv/records.ts +90 -35
  174. package/src/formats/cys/tables.ts +11 -10
  175. package/src/formats/dot/tokenizer.ts +118 -68
  176. package/src/formats/gexf/exporter.ts +67 -36
  177. package/src/formats/gexf/importer.ts +173 -63
  178. package/src/formats/gml/exporter.ts +78 -82
  179. package/src/formats/gml/importer.ts +119 -68
  180. package/src/formats/gml/syntax.ts +18 -8
  181. package/src/formats/graphml/exporter.ts +44 -24
  182. package/src/formats/graphml/importer.ts +18 -11
  183. package/src/formats/graphml/tree.ts +22 -12
  184. package/src/formats/graphml/yfiles.ts +23 -10
  185. package/src/formats/json/dialect.ts +61 -22
  186. package/src/formats/json/exporter.ts +40 -21
  187. package/src/formats/json/importer.ts +701 -385
  188. package/src/formats/json/obographs.ts +35 -15
  189. package/src/formats/neo4j/exporter.ts +79 -41
  190. package/src/formats/neo4j/header.ts +50 -16
  191. package/src/formats/neo4j/importer.ts +21 -10
  192. package/src/formats/obo/exporter.ts +34 -17
  193. package/src/formats/pajek/exporter.ts +180 -117
  194. package/src/formats/pajek/importer.ts +27 -15
  195. package/src/formats/pajek/syntax.ts +99 -58
  196. package/src/formats/xgmml/emit.ts +88 -40
  197. package/src/formats/xgmml/exporter.ts +40 -12
  198. package/src/formats/xgmml/importer.ts +45 -23
  199. package/src/sniff.ts +115 -59
  200. package/dist/chunks/children-CL3Cy0ez.js.map +0 -1
  201. package/dist/chunks/export-B-aVCwyG.js.map +0 -1
  202. package/dist/chunks/exporter-BVXnV9-9.js.map +0 -1
  203. package/dist/chunks/exporter-Bcp-l4Bo.js.map +0 -1
  204. package/dist/chunks/importer-AjwOJrn2.js.map +0 -1
  205. package/dist/chunks/importer-BpuS3J8C.js.map +0 -1
  206. package/dist/chunks/importer-CPqnIY8m.js.map +0 -1
  207. package/dist/chunks/importer-DEp_fYjf.js.map +0 -1
  208. package/dist/chunks/importer-DcKB97kW.js.map +0 -1
  209. package/dist/chunks/records-r3SFHz11.js.map +0 -1
  210. package/dist/chunks/text-Bjfa1xYL.js.map +0 -1
@@ -1,6 +1,6 @@
1
1
  import { GraphFormatError, INVALID_INDEX } from "@graphty/graph-format";
2
- import { S as SINK_OPTION_CODE, O as OPTION_IGNORED_CODE, R as ROLE_TAKEN_CODE, ay as RENAMED_CODE, I as ID_MERGED_CODE, i as DANGLING_REFERENCE_CODE, g as UNKNOWN_ELEMENT_CODE, o as DUPLICATE_ATTRIBUTE_CODE, n as DUPLICATE_NODE_CODE, a3 as BAD_VALUE_CODE, t as MISSING_ID_CODE, w as UNKNOWN_ENCODING_CODE, x as ENCODING_FALLBACK_CODE, y as INVALID_ENCODING_CODE, z as INVALID_UTF8_CODE, E as EMPTY_INPUT_CODE, F as ELEMENT_ISSUE, G as INPUT_ISSUE, al as resolveImportOptions, a8 as ImportReportBuilder, ao as reportSinkOptions, an as reportUnusedOptions, am as throwIfAborted, b as plural, a1 as declareResolved, ar as IdCoercer, aq as DirectionResolver, $ as agree, az as LineReader, c as capabilities, L as LOSS, au as ROLE_ASSUMED_CODE, aA as NODE_ORDER_CODE, aB as GRAPH_COLUMN_AS_METADATA_CODE, aC as TYPEDEF_NODES_CODE, aD as RELATION_ASSUMED_CODE, at as COLUMN_AS_PROPERTY_VALUE_CODE, r as resolveExportOptions, p as pairFolding, e as explicitWeights, av as formatNumber } from "./export-B-aVCwyG.js";
3
- import { S as SYNONYM_SCOPES, O as OBO_NODE_COLUMNS, o as oboColumnDecl, P as PLACEHOLDER_COLUMN, f as framelessNodes, m as movedNodes, s as slotColumn, c as capabilityNotes, e as emptyColumnNotes, a as cellOf, F as FRAME_KINDS$1, U as UNWRITTEN_ROLES, n as notePropertyColumn, b as fitsVocabulary, i as isQualifierRecord, t as textOf } from "./ontology-export-50L9DOV4.js";
2
+ import { S as SINK_OPTION_CODE, O as OPTION_IGNORED_CODE, R as ROLE_TAKEN_CODE, ay as RENAMED_CODE, I as ID_MERGED_CODE, i as DANGLING_REFERENCE_CODE, g as UNKNOWN_ELEMENT_CODE, o as DUPLICATE_ATTRIBUTE_CODE, n as DUPLICATE_NODE_CODE, a3 as BAD_VALUE_CODE, t as MISSING_ID_CODE, w as UNKNOWN_ENCODING_CODE, x as ENCODING_FALLBACK_CODE, y as INVALID_ENCODING_CODE, z as INVALID_UTF8_CODE, E as EMPTY_INPUT_CODE, F as ELEMENT_ISSUE, G as INPUT_ISSUE, al as resolveImportOptions, a8 as ImportReportBuilder, ao as reportSinkOptions, an as reportUnusedOptions, am as throwIfAborted, b as plural, a1 as declareResolved, ar as IdCoercer, aq as DirectionResolver, $ as agree, az as LineReader, c as capabilities, L as LOSS, au as ROLE_ASSUMED_CODE, aA as NODE_ORDER_CODE, aB as GRAPH_COLUMN_AS_METADATA_CODE, aC as TYPEDEF_NODES_CODE, aD as RELATION_ASSUMED_CODE, at as COLUMN_AS_PROPERTY_VALUE_CODE, r as resolveExportOptions, p as pairFolding, e as explicitWeights, av as formatNumber } from "./export-rKLeGQMo.js";
3
+ import { S as SYNONYM_SCOPES, O as OBO_NODE_COLUMNS, o as oboColumnDecl, P as PLACEHOLDER_COLUMN, f as framelessNodes, m as movedNodes, s as slotColumn, c as capabilityNotes, e as emptyColumnNotes, a as cellOf, F as FRAME_KINDS$1, U as UNWRITTEN_ROLES, n as notePropertyColumn, b as fitsVocabulary, i as isQualifierRecord, t as textOf } from "./ontology-export-CtRXjg_i.js";
4
4
  import { j as joinText, e as encodeChunks } from "./writer-DxjgHwSe.js";
5
5
  const ESCAPES = Object.freeze({
6
6
  n: "\n",
@@ -2673,6 +2673,25 @@ function keptObo(snapshot) {
2673
2673
  ) : [];
2674
2674
  return { header: clauses(record.header), typedefs, unknownFrames };
2675
2675
  }
2676
+ function noteFrameKinds(snapshot, rows, kinds, note) {
2677
+ if (rows.length > 0 && !snapshot.nodes.has("type")) {
2678
+ note(
2679
+ OBO_LOSS.TYPE_GAINED,
2680
+ `${rows.length} node${plural(rows.length)} ${agree(rows.length, "is", "are")} written as [Term] frames and ${agree(rows.length, "reads", "read")} back with the type Term in a new node column "type"`,
2681
+ null,
2682
+ rows.length
2683
+ );
2684
+ }
2685
+ const typedefNodes = rows.filter((i) => kinds[i] === "Typedef").length;
2686
+ if (typedefNodes > 0) {
2687
+ note(
2688
+ OBO_LOSS.TYPEDEF_NODES,
2689
+ `${typedefNodes} node${plural(typedefNodes)} ${agree(typedefNodes, "is", "are")} written as [Typedef] frames; they read back as nodes only when imported with typedefs: "nodes", and then after the other nodes, with the [Typedef] frames that declare the relations`,
2690
+ "type",
2691
+ typedefNodes
2692
+ );
2693
+ }
2694
+ }
2676
2695
  function plan(snapshot, options) {
2677
2696
  const common = resolveExportOptions(options);
2678
2697
  const obo = resolveOboOptions(options);
@@ -2708,23 +2727,7 @@ function plan(snapshot, options) {
2708
2727
  }
2709
2728
  }
2710
2729
  const { kinds, type } = planKinds(snapshot, frameless);
2711
- if (rows.length > 0 && !snapshot.nodes.has("type")) {
2712
- note(
2713
- OBO_LOSS.TYPE_GAINED,
2714
- `${rows.length} node${plural(rows.length)} ${agree(rows.length, "is", "are")} written as [Term] frames and ${agree(rows.length, "reads", "read")} back with the type Term in a new node column "type"`,
2715
- null,
2716
- rows.length
2717
- );
2718
- }
2719
- const typedefNodes = rows.filter((i) => kinds[i] === "Typedef").length;
2720
- if (typedefNodes > 0) {
2721
- note(
2722
- OBO_LOSS.TYPEDEF_NODES,
2723
- `${typedefNodes} node${plural(typedefNodes)} ${agree(typedefNodes, "is", "are")} written as [Typedef] frames; they read back as nodes only when imported with typedefs: "nodes", and then after the other nodes, with the [Typedef] frames that declare the relations`,
2724
- "type",
2725
- typedefNodes
2726
- );
2727
- }
2730
+ noteFrameKinds(snapshot, rows, kinds, note);
2728
2731
  const kept = keptObo(snapshot);
2729
2732
  const scopes = synonymTypeScopes(kept.header);
2730
2733
  const labelSlot = slotColumn(snapshot.nodes, "label", "name");
@@ -3487,4 +3490,4 @@ export {
3487
3490
  oboImporter as c,
3488
3491
  oboExporter as o
3489
3492
  };
3490
- //# sourceMappingURL=exporter-SFYkDzD0.js.map
3493
+ //# sourceMappingURL=exporter-yLxKBvLE.js.map