@graphty/graph-io 0.3.40 → 0.3.41

package/dist/src/formats/xgmml/importer.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"importer.d.ts","sourceRoot":"","sources":["../../../../src/formats/xgmml/importer.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;GAYG;AAKH,OAAO,EAMH,KAAK,qBAAqB,EAE7B,MAAM,yBAAyB,CAAC;AAEjC,OAAO,EAAE,mBAAmB,EAAE,MAAM,wBAAwB,CAAC;AAE7D,OAAO,EACH,KAAK,mBAAmB,EACxB,KAAK,kBAAkB,EACvB,KAAK,aAAa,EAElB,KAAK,WAAW,EAEnB,MAAM,gBAAgB,CAAC;AAExB,OAAO,EAAiB,KAAK,aAAa,EAAe,MAAM,eAAe,CAAC;AAC/E,OAAO,EAOH,KAAK,aAAa,EACrB,MAAM,WAAW,CAAC;AAEnB;;;GAGG;AACH,MAAM,WAAW,kBAAmB,SAAQ,kBAAkB,EAAE,mBAAmB;IAC/E;;;;;OAKG;IACH,YAAY,CAAC,EAAE,OAAO,GAAG,SAAS,CAAC;IACnC;;;;OAIG;IACH,gBAAgB,CAAC,EAAE,OAAO,GAAG,SAAS,CAAC;IACvC;;;;OAIG;IACH,oBAAoB,CAAC,EAAE,OAAO,GAAG,SAAS,CAAC;IAC3C;;;;OAIG;IACH,uBAAuB,CAAC,EAAE,OAAO,GAAG,SAAS,CAAC;IAC9C;;;;OAIG;IACH,GAAG,CAAC,EAAE,QAAQ,GAAG,UAAU,GAAG,SAAS,CAAC;CAC3C;AA8BD;;;;;;GAMG;AACH,wBAAgB,eAAe,CAAC,OAAO,EAAE,kBAAkB,GAAG,SAAS,EAAE,SAAS,EAAE,OAAO,GAAG,aAAa,CAiB1G;AAsBD;;;;;;;;GAQG;AACH,wBAAsB,UAAU,CAC5B,KAAK,EAAE,WAAW,EAClB,MAAM,EAAE,mBAAmB,EAC3B,MAAM,EAAE,qBAAqB,EAC7B,OAAO,EAAE,kBAAkB,GAAG,SAAS,GACxC,OAAO,CAAC,aAAa,CAAC,CA6CxB;AAqOD;;;GAGG;AACH,eAAO,MAAM,aAAa,EAAE,aAAa,CAAC,kBAAkB,CAe1D,CAAC"}
+{"version":3,"file":"importer.d.ts","sourceRoot":"","sources":["../../../../src/formats/xgmml/importer.ts"],"names":[],"mappings":"AAAA;;;;;;;;;;;;GAYG;AAKH,OAAO,EAMH,KAAK,qBAAqB,EAE7B,MAAM,yBAAyB,CAAC;AAEjC,OAAO,EAAE,mBAAmB,EAAE,MAAM,wBAAwB,CAAC;AAE7D,OAAO,EACH,KAAK,mBAAmB,EACxB,KAAK,kBAAkB,EACvB,KAAK,aAAa,EAElB,KAAK,WAAW,EAEnB,MAAM,gBAAgB,CAAC;AAExB,OAAO,EAAiB,KAAK,aAAa,EAAe,MAAM,eAAe,CAAC;AAC/E,OAAO,EAOH,KAAK,aAAa,EACrB,MAAM,WAAW,CAAC;AAEnB;;;GAGG;AACH,MAAM,WAAW,kBAAmB,SAAQ,kBAAkB,EAAE,mBAAmB;IAC/E;;;;;OAKG;IACH,YAAY,CAAC,EAAE,OAAO,GAAG,SAAS,CAAC;IACnC;;;;OAIG;IACH,gBAAgB,CAAC,EAAE,OAAO,GAAG,SAAS,CAAC;IACvC;;;;OAIG;IACH,oBAAoB,CAAC,EAAE,OAAO,GAAG,SAAS,CAAC;IAC3C;;;;OAIG;IACH,uBAAuB,CAAC,EAAE,OAAO,GAAG,SAAS,CAAC;IAC9C;;;;OAIG;IACH,GAAG,CAAC,EAAE,QAAQ,GAAG,UAAU,GAAG,SAAS,CAAC;CAC3C;AA8BD;;;;;;GAMG;AACH,wBAAgB,eAAe,CAAC,OAAO,EAAE,kBAAkB,GAAG,SAAS,EAAE,SAAS,EAAE,OAAO,GAAG,aAAa,CAiB1G;AAsBD;;;;;;;;GAQG;AACH,wBAAsB,UAAU,CAC5B,KAAK,EAAE,WAAW,EAClB,MAAM,EAAE,mBAAmB,EAC3B,MAAM,EAAE,qBAAqB,EAC7B,OAAO,EAAE,kBAAkB,GAAG,SAAS,GACxC,OAAO,CAAC,aAAa,CAAC,CAwBxB;AAgRD;;;GAGG;AACH,eAAO,MAAM,aAAa,EAAE,aAAa,CAAC,kBAAkB,CAe1D,CAAC"}

package/dist/src/formats/xgmml/importer.js

@@ -95,30 +95,14 @@ function booleanOption(name, value, fallback) {
  * @returns the document
  */
 export async function parseXgmml(input, report, common, options) {
-    const repairs = {
-        bareAmpersand: booleanOption("repairBareAmpersands", options?.repairBareAmpersands, false)
-            ? (line) => {
-                report.warning("parse-error", XGMML_ISSUE.AMPERSAND_REPAIRED, "a bare & was read as &", { line });
-            }
-            : undefined,
-        surrogatePair: booleanOption("pairSurrogateReferences", options?.pairSurrogateReferences, false)
-            ? (line) => {
-                report.warning("parse-error", XGMML_ISSUE.SURROGATE_PAIRED, "two surrogate character references were joined into one character", { line });
-            }
-            : undefined,
-    };
+    const repairs = repairsOf(options, report);
     const parser = new XgmmlParser(report);
     const seen = { content: false };
     try {
         await tokenizeXml(watch(textChunks(input, report, { ...common, declaredEncoding: xmlDeclaredEncoding, xml: true }), seen), parser, repairs);
     }
     catch (err) {
-        if (err instanceof XmlSyntaxError) {
-            if (!seen.content) {
-                report.fail(XGMML_ISSUE.EMPTY_INPUT, "the input is empty");
-            }
-            report.fail(XGMML_ISSUE.XML_SYNTAX, err.message, { line: err.line });
-        }
+        failOnSyntax(err, seen.content, report);
         throw err;
     }
     const doc = parser.document();
@@ -127,6 +111,42 @@ export async function parseXgmml(input, report, common, options) {
     }
     return doc;
 }
+/**
+ * The XML repairs the options switch on, each reporting where it repaired.
+ * @param options - the XGMML options
+ * @param report - the report
+ * @returns the repairs
+ */
+function repairsOf(options, report) {
+    return {
+        bareAmpersand: booleanOption("repairBareAmpersands", options?.repairBareAmpersands, false)
+            ? (line) => {
+                report.warning("parse-error", XGMML_ISSUE.AMPERSAND_REPAIRED, "a bare & was read as &", { line });
+            }
+            : undefined,
+        surrogatePair: booleanOption("pairSurrogateReferences", options?.pairSurrogateReferences, false)
+            ? (line) => {
+                report.warning("parse-error", XGMML_ISSUE.SURROGATE_PAIRED, "two surrogate character references were joined into one character", { line });
+            }
+            : undefined,
+    };
+}
+/**
+ * Fail the report on an XML syntax error: an input with no content is empty, any other is
+ * malformed. Any other error is left to the caller.
+ * @param err - the error the tokenizer threw
+ * @param content - whether non-whitespace text was seen
+ * @param report - the report
+ */
+function failOnSyntax(err, content, report) {
+    if (!(err instanceof XmlSyntaxError)) {
+        return;
+    }
+    if (!content) {
+        report.fail(XGMML_ISSUE.EMPTY_INPUT, "the input is empty");
+    }
+    report.fail(XGMML_ISSUE.XML_SYNTAX, err.message, { line: err.line });
+}
 /**
  * Pass text chunks through while noting non-whitespace content.
  * @param chunks - the chunks

package/dist/src/formats/xgmml/importer.js.map

@@ -1 +1 @@
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package/dist/src/sniff.js

@@ -275,39 +275,54 @@ function skeletonOf(text) {
     }
     const root = {};
     for (const key of rootKeys) {
-        switch (key) {
-            case "graph":
-            case "options":
-                root[key] = objectOf(keys.get(key));
-                break;
-            case "graphs": {
-                // the keys of any node or edge of the first graph: OBO Graphs or JGF (design 1.6)
-                const nodes = keys.get("graphs[0].nodes[]");
-                const edges = keys.get("graphs[0].edges[]");
-                const graph = {};
-                if (nodes !== undefined) {
-                    graph.nodes = [objectOf(nodes)];
-                }
-                if (edges !== undefined) {
-                    graph.edges = [objectOf(edges)];
-                }
-                root[key] = nodes === undefined && edges === undefined ? [] : [graph];
-                break;
-            }
-            case "nodes":
-            case "edges":
-            case "links": {
-                const first = keys.get(`${key}[0]`);
-                root[key] = first === undefined ? [] : [objectOf(first)];
-                break;
-            }
-            default:
-                root[key] = true;
-                break;
-        }
+        root[key] = placeholderOf(key, keys);
     }
     return root;
 }
+/**
+ * The placeholder value of a root key: the shape the dialect rule tests that key for.
+ * @param key - the root key
+ * @param keys - the key sets by path
+ * @returns the placeholder
+ */
+function placeholderOf(key, keys) {
+    switch (key) {
+        case "graph":
+        case "options":
+            return objectOf(keys.get(key));
+        case "graphs":
+            return graphsPlaceholder(keys);
+        case "nodes":
+        case "edges":
+        case "links": {
+            const first = keys.get(`${key}[0]`);
+            return first === undefined ? [] : [objectOf(first)];
+        }
+        default:
+            return true;
+    }
+}
+/**
+ * The placeholder of `graphs`: the keys of any node or edge of the first graph, which tell OBO
+ * Graphs from JGF (design 1.6).
+ * @param keys - the key sets by path
+ * @returns `[]` when neither was seen, else one graph holding them
+ */
+function graphsPlaceholder(keys) {
+    const nodes = keys.get("graphs[0].nodes[]");
+    const edges = keys.get("graphs[0].edges[]");
+    if (nodes === undefined && edges === undefined) {
+        return [];
+    }
+    const graph = {};
+    if (nodes !== undefined) {
+        graph.nodes = [objectOf(nodes)];
+    }
+    if (edges !== undefined) {
+        graph.edges = [objectOf(edges)];
+    }
+    return [graph];
+}
 /**
  * An object holding placeholder values for a key set: `{}` for the keys the rule tests with
  * isJsonObject (`attributes`, `data`), `true` otherwise.
@@ -341,32 +356,6 @@ function scanKeys(text) {
     const counts = [];
     let pendingKey = null;
     let expectingKey = false;
-    const pathOf = () => {
-        const depth = kinds.length;
-        if (depth === 1) {
-            return kinds[0] === "object" ? "" : null;
-        }
-        if (depth === 2 && kinds[0] === "array" && kinds[1] === "object" && labels[1] === "0") {
-            return "nodes[0]";
-        }
-        if (depth === 2 && kinds[0] === "object" && kinds[1] === "object") {
-            return labels[1] === "graph" || labels[1] === "options" ? labels[1] : null;
-        }
-        if (depth === 5 &&
-            kinds.join() === "object,array,object,array,object" &&
-            labels[1] === "graphs" &&
-            labels[2] === "0" &&
-            (labels[3] === "nodes" || labels[3] === "edges")) {
-            return labels[3] === "nodes" ? "graphs[0].nodes[]" : "graphs[0].edges[]";
-        }
-        if (depth === 3 && kinds[0] === "object" && kinds[1] === "array" && kinds[2] === "object") {
-            const section = labels[1];
-            if ((section === "nodes" || section === "edges" || section === "links") && labels[2] === "0") {
-                return `${section}[0]`;
-            }
-        }
-        return null;
-    };
     let i = 0;
     const n = text.length;
     while (i < n) {
@@ -404,7 +393,7 @@ function scanKeys(text) {
         }
         else if (ch === ":") {
             if (pendingKey !== null) {
-                const path = pathOf();
+                const path = keyPathOf(kinds, labels);
                 if (path !== null) {
                     let set = found.get(path);
                     if (set === undefined) {
@@ -427,6 +416,69 @@ function scanKeys(text) {
     }
     return found;
 }
+/**
+ * The watched path of the innermost open object, from the container stack.
+ * @param kinds - the kind of each open container, outermost first
+ * @param labels - the key or index each open container sits under
+ * @returns the path, or null when keys there are not watched
+ */
+function keyPathOf(kinds, labels) {
+    switch (kinds.length) {
+        case 1:
+            return kinds[0] === "object" ? "" : null;
+        case 2:
+            return nestedObjectPath(kinds, labels);
+        case 3:
+            return sectionElementPath(kinds, labels);
+        case 5:
+            return graphsMemberPath(kinds, labels);
+        default:
+            return null;
+    }
+}
+/**
+ * At depth 2: the first element of a top-level array, or the `graph` / `options` object.
+ * @param kinds - the kind of each open container, outermost first
+ * @param labels - the key or index each open container sits under
+ * @returns the path, or null
+ */
+function nestedObjectPath(kinds, labels) {
+    if (kinds[0] === "array" && kinds[1] === "object" && labels[1] === "0") {
+        return "nodes[0]";
+    }
+    if (kinds[0] === "object" && kinds[1] === "object") {
+        return labels[1] === "graph" || labels[1] === "options" ? labels[1] : null;
+    }
+    return null;
+}
+/**
+ * At depth 3: the first element of the root's `nodes`, `edges` or `links` array.
+ * @param kinds - the kind of each open container, outermost first
+ * @param labels - the key or index each open container sits under
+ * @returns the path, or null
+ */
+function sectionElementPath(kinds, labels) {
+    if (kinds[0] !== "object" || kinds[1] !== "array" || kinds[2] !== "object" || labels[2] !== "0") {
+        return null;
+    }
+    const section = labels[1];
+    return section === "nodes" || section === "edges" || section === "links" ? `${section}[0]` : null;
+}
+/**
+ * At depth 5: any node or edge of the first graph of the root's `graphs` array.
+ * @param kinds - the kind of each open container, outermost first
+ * @param labels - the key or index each open container sits under
+ * @returns the path, or null
+ */
+function graphsMemberPath(kinds, labels) {
+    if (kinds.join() !== "object,array,object,array,object" || labels[1] !== "graphs" || labels[2] !== "0") {
+        return null;
+    }
+    if (labels[3] === "nodes") {
+        return "graphs[0].nodes[]";
+    }
+    return labels[3] === "edges" ? "graphs[0].edges[]" : null;
+}
 /**
  * The index of the closing quote of a JSON string starting after its opening quote.
  * @param text - the text

package/dist/src/sniff.js.map

@@ -1 +1 @@
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package/dist/xgmml.js

@@ -1,5 +1,5 @@
-import { X, a, x } from "./chunks/importer-DEp_fYjf.js";
-import { x as x2 } from "./chunks/exporter-BVXnV9-9.js";
+import { X, a, x } from "./chunks/importer-DviEsHy4.js";
+import { x as x2 } from "./chunks/exporter-D8r1N2dU.js";
 export {
   X as XGMML_ISSUE,
   a as XGMML_LOSS,

package/package.json

@@ -1,6 +1,6 @@
 {
   "name": "@graphty/graph-io",
-  "version": "0.3.40",
+  "version": "0.3.41",
   "description": "Read and write 13 graph file formats (JSON, GraphML, GEXF, CSV, GML, DOT, Pajek, Neo4j CSV, XGMML, CX2, CX, OBO, Cytoscape sessions) as @graphty/graph-format snapshots",
   "author": "Adam Powers <apowers@ato.ms>",
   "type": "module",
@@ -121,7 +121,7 @@
   },
   "homepage": "https://graphty.app/docs/graph-io/",
   "dependencies": {
-    "@graphty/graph-format": "^1.4.1"
+    "@graphty/graph-format": "^1.4.2"
   },
   "peerDependencies": {
     "@graphty/graph-format": "^1.0.0"

package/src/common/attributes.ts

@@ -326,29 +326,12 @@ export function declareResolved(
                 throw err;
             }
             if (err.code === "E_COLUMN_EXISTS" && !renamed) {
-                const taken = takenIn(sink, domain);
-                const id = current.origin?.id ?? null;
-                const name = uniqueColumnName(current.name, id, taken);
-                report.warning(
-                    "coercion",
-                    COLUMN_RENAMED_CODE,
-                    `${domain} column "${current.name}" renamed to "${name}": the sink already holds that name with another shape`,
-                    { ...where, element: where?.element ?? current.name },
-                );
-                current = { ...current, name };
+                current = renameColumn(sink, domain, current, report, where);
                 renamed = true;
                 continue;
             }
             if (err.code === "E_DUPLICATE_ROLE" && current.role !== undefined && !roleDropped) {
-                const holder = typeof err.details.holder === "string" ? err.details.holder : "another column";
-                report.warning(
-                    "coercion",
-                    ROLE_TAKEN_CODE,
-                    `${domain} column "${current.name}" loses the ${current.role} role: "${holder}" already holds it`,
-                    { ...where, element: where?.element ?? current.name },
-                );
-                const { role: _role, ...withoutRole } = current;
-                current = withoutRole;
+                current = dropRole(err, domain, current, current.role, report, where);
                 roleDropped = true;
                 continue;
             }
@@ -357,6 +340,63 @@ export function declareResolved(
     }
 }
 
+/**
+ * The declaration under a name the sink does not hold yet, recording W_COLUMN_RENAMED.
+ * @param sink - the sink
+ * @param domain - node or edge
+ * @param decl - the declaration whose name clashed
+ * @param report - the report
+ * @param where - the line and element, when known
+ * @returns the renamed declaration
+ */
+function renameColumn(
+    sink: GraphSink,
+    domain: "node" | "edge",
+    decl: ColumnDecl,
+    report: ImportReportBuilder,
+    where: IssueLocation | undefined,
+): ColumnDecl {
+    const taken = takenIn(sink, domain);
+    const id = decl.origin?.id ?? null;
+    const name = uniqueColumnName(decl.name, id, taken);
+    report.warning(
+        "coercion",
+        COLUMN_RENAMED_CODE,
+        `${domain} column "${decl.name}" renamed to "${name}": the sink already holds that name with another shape`,
+        { ...where, element: where?.element ?? decl.name },
+    );
+    return { ...decl, name };
+}
+
+/**
+ * The declaration without the role another column holds, recording W_ROLE_TAKEN.
+ * @param err - the sink's E_DUPLICATE_ROLE error
+ * @param domain - node or edge
+ * @param decl - the declaration whose role clashed
+ * @param role - its role
+ * @param report - the report
+ * @param where - the line and element, when known
+ * @returns the declaration without its role
+ */
+function dropRole(
+    err: GraphFormatError,
+    domain: "node" | "edge",
+    decl: ColumnDecl,
+    role: ColumnRole,
+    report: ImportReportBuilder,
+    where: IssueLocation | undefined,
+): ColumnDecl {
+    const holder = typeof err.details.holder === "string" ? err.details.holder : "another column";
+    report.warning(
+        "coercion",
+        ROLE_TAKEN_CODE,
+        `${domain} column "${decl.name}" loses the ${role} role: "${holder}" already holds it`,
+        { ...where, element: where?.element ?? decl.name },
+    );
+    const { role: _role, ...withoutRole } = decl;
+    return withoutRole;
+}
+
 /**
  * Declare the companion text column of a temporal column. A table holds at
  * most one column per role, so when another companion already carries `timeText` this one is