diff --git a/LICENSE b/LICENSE new file mode 100644 index 0000000..e72bfdd --- /dev/null +++ b/LICENSE @@ -0,0 +1,674 @@ + GNU GENERAL PUBLIC LICENSE + Version 3, 29 June 2007 + + Copyright (C) 2007 Free Software Foundation, Inc. + Everyone is permitted to copy and distribute verbatim copies + of this license document, but changing it is not allowed. + + Preamble + + The GNU General Public License is a free, copyleft license for +software and other kinds of works. + + The licenses for most software and other practical works are designed +to take away your freedom to share and change the works. By contrast, +the GNU General Public License is intended to guarantee your freedom to +share and change all versions of a program--to make sure it remains free +software for all its users. We, the Free Software Foundation, use the +GNU General Public License for most of our software; it applies also to +any other work released this way by its authors. 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If your program is a subroutine library, you +may consider it more useful to permit linking proprietary applications with +the library. If this is what you want to do, use the GNU Lesser General +Public License instead of this License. But first, please read +. \ No newline at end of file diff --git a/public/analyst-workflow.html b/public/analyst-workflow.html new file mode 100644 index 0000000..5daaaf1 --- /dev/null +++ b/public/analyst-workflow.html @@ -0,0 +1,153 @@ + + + + + +Analytic Workflow Builder – Clean Layout + + + +
+ +
+
+

Analytic Workflow Builder

+ Build, manage, and run conditional query pipelines +
+
+ + + +
+
+ +
+
Pipelines
+
Data
+
Queries
+
Run
+
+ + +
+
+ + +
+ Pipelines +
QA Review
+
Lead Expansion
+
Data Transformation
+ +
+ + +
+
+ Workflow Steps + +
+ +
+ step_1 · ASK → true/false +
+
+ step_2 · SELECT → rows/no rows +
+ +
+ + + + +
+
+ + + + + + + + + + +
+ + + + + diff --git a/public/app/axiolotl-inference.js b/public/app/axiolotl-inference.js index 4da0c59..5fdae12 100644 --- a/public/app/axiolotl-inference.js +++ b/public/app/axiolotl-inference.js @@ -116,6 +116,36 @@ function quadKey(q) { ].join('¦'); } +function quadHasBlankNode(q) { + return q.subject.termType === 'BlankNode' || + q.object.termType === 'BlankNode' || + q.graph.termType === 'BlankNode'; +} + +function looseQuadKey(q) { + const subj = + q.subject.termType === 'BlankNode' + ? 'BlankNode:_' + : `${q.subject.termType}:${q.subject.value}`; + + const obj = + q.object.termType === 'BlankNode' + ? 'BlankNode:_' + : `${q.object.termType}:${q.object.value}:${q.object.language || ''}:${q.object.datatype?.value || ''}`; + + const graph = + q.graph.termType === 'BlankNode' + ? 'BlankNode:_' + : `${q.graph.termType}:${q.graph.value || ''}`; + + return [ + subj, + `${q.predicate.termType}:${q.predicate.value}`, + obj, + graph + ].join('¦'); +} + function canBeSubject(term) { return !!term && (term.termType === 'NamedNode' || term.termType === 'BlankNode'); } @@ -412,7 +442,7 @@ async function inferUntilStable(rules) { // ---- 3) Seed closures from existing dataset ---- let totalAdded = 0; let pass = 0; - const MAX_PASSES = 100; + const MAX_PASSES = 30; const seedSeenBefore = seen.size; processQueues(); @@ -421,6 +451,11 @@ async function inferUntilStable(rules) { inferenceInfo(`[inferUntilStable] Seed closures added ${seedAdded} triples.`); + const rulesFiltered = rules.filter(r => r !== 'subclassof' && r !== 'subpropertyof'); + if (rules.length !== rulesFiltered.length) { + inferenceInfo('[inferUntilStable] SPARQL disabled for subclassof/subpropertyof; using JS closures instead.'); + } + let changed = true; while (changed) { @@ -434,17 +469,19 @@ async function inferUntilStable(rules) { inferenceInfo(`[inferUntilStable] Starting pass ${pass}...`); - const rulesFiltered = rules.filter(r => r !== 'subclassof' && r !== 'subpropertyof'); - if (rules.length !== rulesFiltered.length) { - inferenceInfo('[inferUntilStable] Skipping SPARQL for subclassof/subpropertyof (handled by JS closures)'); - } - for (const rule of rulesFiltered) { const constructQuery = getConstructQueryForRule(rule); if (!constructQuery) continue; const newQuads = await runRuleOnce(rule, rdfjsStore); + const blankCount = newQuads.filter(quadHasBlankNode).length; + const looseCount = new Set(newQuads.map(looseQuadKey)).size; + + inferenceInfo( + `[inferUntilStable] Pass ${pass}, rule "${rule}": raw=${newQuads.length}, withBlank=${blankCount}, looseUnique=${looseCount}` + ); + const batch = []; const batchSeen = new Set(); for (const q of newQuads) { @@ -460,19 +497,22 @@ async function inferUntilStable(rules) { const beforeClosure = seen.size; processQueues(); - const closureAdded = seen.size - beforeClosure; + const propagatedAdded = seen.size - beforeClosure; - const ruleAdded = directAdded + closureAdded; - passAdded += ruleAdded; + const totalRuleAdded = directAdded + propagatedAdded; inferenceInfo( - `[inferUntilStable] Pass ${pass}, rule "${rule}": direct=${directAdded}, propagated=${closureAdded}, total=${ruleAdded}` + `[inferUntilStable] Pass ${pass}, rule "${rule}": direct=${directAdded}, propagated=${propagatedAdded}, total=${totalRuleAdded}` ); + + if (totalRuleAdded > 0) { + passAdded += totalRuleAdded; + totalAdded += totalRuleAdded; + changed = true; + } } if (passAdded > 0) { - totalAdded += passAdded; - changed = true; inferenceInfo(`[inferUntilStable] Completed pass ${pass}: added ${passAdded} triples.`); } else { inferenceInfo(`[inferUntilStable] Completed pass ${pass}: no new triples. Stable.`); @@ -480,6 +520,7 @@ async function inferUntilStable(rules) { } const overlayCount = overlayStore.getQuads(null, null, null, null).length; + inferenceInfo( `[inferUntilStable] Completed inference. Passes=${pass}, total new triples=${totalAdded}, overlay triples=${overlayCount}` ); diff --git a/public/app/axiolotl-query.js b/public/app/axiolotl-query.js index 55c0b7e..710ab58 100644 --- a/public/app/axiolotl-query.js +++ b/public/app/axiolotl-query.js @@ -22,8 +22,6 @@ // toastSuccess // toastError // commonSPARQLPrefixes - // commonMIMEType - // getSelectedOutputMime (depends on commonMIMEType) // downloadText @@ -279,9 +277,17 @@ function handleDownloadPreview(format = 'text/turtle') { // Get user choice of where to save inferred triples function getSaveTarget() { const isNamed = document.getElementById('save-target-named')?.checked; + if (isNamed) { - return { mode: 'named', graphIRI: makeNamedGraphIRI('http://example.org/inferred') }; + const iriForOverlay = document.getElementById('iri-for-save-target')?.value; + + return { + mode: 'named', + // Uses iriForOverlay if it has a value, otherwise generates one + graphIRI: iriForOverlay?.trim() ? iriForOverlay : makeNamedGraphIRI('http://example.org/inferred') + }; } + return { mode: 'default', graphIRI: null }; } @@ -366,7 +372,10 @@ async function exportInferredOverlay() { const ext = ({ 'text/turtle': 'ttl', 'application/n-triples': 'nt', - 'application/n-quads': 'nq' + 'application/n-quads': 'nq', + 'application/trig': 'trig', + 'application/ld+json': 'jsonld', + 'application/rdf+xml': 'rdf' })[mime] || 'ttl'; downloadText(`inferred-${timestampUTC()}.${ext}`, text, mime); @@ -417,9 +426,7 @@ function addNewFileRow() { function toggleReasonerButtons() { const useDB = document.getElementById('reasoner-source-indexeddb')?.checked; const saveBtn = document.getElementById('save-inferred-to-db'); - const insertBtn = document.getElementById('insert-inferred-to-endpoint'); if (saveBtn) saveBtn.style.display = useDB ? '' : 'none'; - if (insertBtn) insertBtn.style.display = useDB ? 'none' : ''; } // run at load + when radios change ['reasoner-source-indexeddb','reasoner-source-endpoint'].forEach(id=>{ @@ -430,7 +437,6 @@ toggleReasonerButtons(); // Event handlers document.getElementById('run-inference')?.addEventListener('click', runInference); document.getElementById('save-inferred-to-db')?.addEventListener('click', saveInferredTriplesToDB); -document.getElementById('insert-inferred-to-endpoint')?.addEventListener('click', insertInferredTriplesIntoEndpoint); document.getElementById('export-inferred')?.addEventListener('click', async () => { await exportInferredOverlay(); }); @@ -655,6 +661,17 @@ const $writeOpts = document.getElementById('write-options'); }); }); +const stashInferenceDefaultGraphMode = document.getElementById('save-target-default'); +const stashInferenceNamedGraphMode = document.getElementById('save-target-named'); +const nameSaveTargetEl = document.getElementById('name-save-target'); + +[stashInferenceDefaultGraphMode, stashInferenceNamedGraphMode].forEach(el=>{ + el?.addEventListener('change', ()=>{ + const namedGraphOptionChosen = stashInferenceNamedGraphMode?.checked; + if (nameSaveTargetEl) nameSaveTargetEl.style.display = namedGraphOptionChosen ? 'block' : 'none'; + }); +}); + /** * Validate that query kind matches UI mode. Returns {ok:boolean,reason?:string} * Pure; logs for developer visibility. @@ -1329,6 +1346,27 @@ function renderQueryError(err) { resultsDiv.innerHTML = html; } +// Drop-down id="output-format" has values: Turtle, n-Triples, JSON-LD, RDF/XML +const commonMIMEType = { + 'Turtle': 'text/turtle', + 'n-Triples': 'application/n-triples', + 'JSON-LD': 'application/ld+json', + 'RDF/XML': 'application/rdf+xml', + 'N-Quads': 'application/n-quads', + 'TriG': 'application/trig', + 'SPARQL Results JSON': 'application/sparql-results+json', + 'SPARQL Results XML': 'application/sparql-results+xml', + 'SPARQL Update': 'application/sparql-update', + 'SPARQL Query': 'application/sparql-query', +}; + +// Utility to get selected output MIME type from dropdown +function getSelectedOutputMime() { + const sel = document.getElementById('output-format'); + const label = sel?.value || 'Turtle'; + return commonMIMEType[label] || 'text/turtle'; +} + // Make callable from other modules if they need it window.renderQueryError = renderQueryError; diff --git a/public/app/comunica-indexeddb-bridge.js b/public/app/comunica-indexeddb-bridge.js index bf44bef..bc114e3 100644 --- a/public/app/comunica-indexeddb-bridge.js +++ b/public/app/comunica-indexeddb-bridge.js @@ -781,24 +781,38 @@ async function stashGraphToIndexedDB(graph, mode='default', graphIRI=null, autoB const iri = (mode === 'named') ? (graphIRI || makeNamedGraphIRI(autoBase)) : null; const graphValue = iri || ''; - let prepared; - if (typeof graph.getQuads === 'function') { - prepared = graph.getQuads(null, null, null, null).map(q => ({ - subject: q.subject.value, - subjectType: q.subject.termType, - predicate: q.predicate.value, - predicateType: q.predicate.termType, - object: q.object.value, - objectType: q.object.termType, - objectLang: q.object.language || null, - objectDatatype: q.object.datatype?.value || null, - graph: graphValue || (q.graph.termType === 'DefaultGraph' ? '' : q.graph.value) - })); - await storeTriplesInNamedGraph(prepared); - return { count: prepared.length, graphIRI: iri || '(default graph)' }; + if (!graph || typeof graph.getQuads !== 'function') { + throw new Error('stashGraphToIndexedDB expected an N3.Store or compatible RDF/JS source'); } - throw new Error('stashGraphToIndexedDB expected an N3.Store or compatible RDF/JS source'); + const prepared = graph.getQuads(null, null, null, null).map((q, i) => { + const row = { + subject: q.subject?.value ?? '', + subjectType: q.subject?.termType ?? '', + predicate: q.predicate?.value ?? '', + predicateType: q.predicate?.termType ?? '', + object: q.object?.value ?? '', + objectType: q.object?.termType ?? '', + objectLang: q.object?.language || null, + objectDatatype: q.object?.datatype?.value || null, + graph: graphValue || (q.graph?.termType === 'DefaultGraph' ? '' : (q.graph?.value ?? '')) + }; + + if ( + typeof row.subject !== 'string' || + typeof row.predicate !== 'string' || + typeof row.object !== 'string' || + typeof row.graph !== 'string' + ) { + console.error('[stashGraphToIndexedDB] Invalid prepared row at index', i, row, q); + throw new Error(`Invalid prepared row at index ${i}`); + } + + return row; + }); + + await storeTriplesInNamedGraph(prepared); + return { count: prepared.length, graphIRI: iri || '(default graph)' }; } diff --git a/public/app/indexeddb-triplestore.js b/public/app/indexeddb-triplestore.js index 7c40cdc..68e8a68 100644 --- a/public/app/indexeddb-triplestore.js +++ b/public/app/indexeddb-triplestore.js @@ -457,35 +457,70 @@ async function initTripleStore() { /** * Adds RDF triples to the IndexedDB triple store. - * @param {Array} triples - Array of rdflib.js triple objects. + * Accepts either: + * 1) term-based quads/statements (subject.value, predicate.value, etc.) + * 2) already-flattened row objects (subject, predicate, object, graph as strings) + * @param {Array} triples */ async function storeTriplesInNamedGraph(triples) { try { - if (debuggingConsoleEnabled) { console.info(`[storeTriplesInNamedGraph] Adding ${triples.length} triples to IndexedDB`); } + if (debuggingConsoleEnabled) { + console.info(`[storeTriplesInNamedGraph] Adding ${triples.length} triples to IndexedDB`); + } + const db = await initTripleStore(); const tx = db.transaction(STORE_NAME, 'readwrite'); const store = tx.objectStore(STORE_NAME); + for (const t of triples) { - await store.put({ - subject: t.subject.value, - subjectType: t.subject.termType, // "NamedNode" | "BlankNode" - predicate: t.predicate.value, - predicateType: t.predicate.termType, // should be "NamedNode" - object: t.object.value, - objectType: t.object.termType, // "NamedNode" | "BlankNode" | "Literal" - objectLang: t.object.lang || null, - objectDatatype: t.object.datatype?.value || null, - graph: normalizeIriString(t.graph?.value || t.why?.value || '') - }); + const row = { + subject: typeof t.subject === 'string' ? t.subject : (t.subject?.value ?? ''), + subjectType: t.subjectType ?? t.subject?.termType ?? '', + predicate: typeof t.predicate === 'string' ? t.predicate : (t.predicate?.value ?? ''), + predicateType: t.predicateType ?? t.predicate?.termType ?? '', + object: typeof t.object === 'string' ? t.object : (t.object?.value ?? ''), + objectType: t.objectType ?? t.object?.termType ?? '', + objectLang: t.objectLang ?? t.object?.lang ?? t.object?.language ?? null, + objectDatatype: t.objectDatatype ?? t.object?.datatype?.value ?? null, + graph: normalizeIriString( + typeof t.graph === 'string' + ? t.graph + : (t.graph?.value || t.why?.value || '') + ) + }; + + // Cheap defensive check so the real bad row is obvious + if ( + typeof row.subject !== 'string' || + typeof row.predicate !== 'string' || + typeof row.object !== 'string' || + typeof row.graph !== 'string' + ) { + console.error('[storeTriplesInNamedGraph] Invalid row:', row, t); + throw new Error('Invalid triple row for IndexedDB storage.'); + } + + await store.put(row); } + await tx.done; - try { window?.dispatchEvent(new CustomEvent('triples-changed', { detail: { db: DB_NAME, store: STORE_NAME, type: 'put' } })); } catch { } - if (debuggingConsoleEnabled) { console.info('[storeTriplesInNamedGraph] Triples successfully stored.'); } + + try { + window?.dispatchEvent(new CustomEvent('triples-changed', { + detail: { db: DB_NAME, store: STORE_NAME, type: 'put' } + })); + } catch {} + + if (debuggingConsoleEnabled) { + console.info('[storeTriplesInNamedGraph] Triples successfully stored.'); + } } catch (error) { - if (debuggingConsoleEnabled) { console.error('[storeTriplesInNamedGraph] Error storing triples:', error); } + if (debuggingConsoleEnabled) { + console.error('[storeTriplesInNamedGraph] Error storing triples:', error); + } throw error; } -}; +} /** * Retrieves all triples from the triple store. diff --git a/public/app/semantic-core.js b/public/app/semantic-core.js index 8fac21c..80c6845 100644 --- a/public/app/semantic-core.js +++ b/public/app/semantic-core.js @@ -270,27 +270,6 @@ async function handleFileUpload(file) { } } -// Drop-down id="output-format" has values: Turtle, n-Triples, JSON-LD, RDF/XML -const commonMIMEType = { - 'Turtle': 'text/turtle', - 'n-Triples': 'application/n-triples', - 'JSON-LD': 'application/ld+json', - 'RDF/XML': 'application/rdf+xml', - 'N-Quads': 'application/n-quads', - 'TriG': 'application/trig', - 'SPARQL Results JSON': 'application/sparql-results+json', - 'SPARQL Results XML': 'application/sparql-results+xml', - 'SPARQL Update': 'application/sparql-update', - 'SPARQL Query': 'application/sparql-query', -}; - -// Utility to get selected output MIME type from dropdown -function getSelectedOutputMime() { - const sel = document.getElementById('output-format'); - const label = sel?.value || 'Turtle'; - return commonMIMEType[label] || 'text/turtle'; -} - /** * Download text as a file (e.g. Turtle or N-Triples). * @param {string} filename diff --git a/public/index.html b/public/index.html index f21d86a..cdae35a 100644 --- a/public/index.html +++ b/public/index.html @@ -5,6 +5,13 @@ Axiolotl - SPARQL Query and Inference Tool + + + + + + + @@ -1562,16 +1569,19 @@

Save Inferred Output

Triples or Quads:
+

Export File:

diff --git a/public/styles/axiolotl.css b/public/styles/axiolotl.css index 963f2a3..07d8816 100644 --- a/public/styles/axiolotl.css +++ b/public/styles/axiolotl.css @@ -370,7 +370,7 @@ button.prefix-button { .inference-console { width: 100%; - min-height: 7em; /* about 5 lines */ + min-height: 12em; resize: vertical; font-family: monospace; white-space: pre-wrap; @@ -581,6 +581,7 @@ button.prefix-button { /* Better query textarea sizing */ #sparql-query, #rdf-preview { + min-height: 12em; font-size: 1.5rem; box-sizing: border-box; }