scientify 1.12.0 → 1.12.2

package/dist/src/research-subscriptions/prompt.js

@@ -1,6 +1,9 @@
 import { DEFAULT_SCORE_WEIGHTS, REMINDER_HINT_RE, RESEARCH_HINT_RE, SCIENTIFY_SIGNATURE_FOOTER, } from "./constants.js";
 import { formatScoreWeights, resolveCandidatePool } from "./parse.js";
 const RESEARCH_WORKFLOW_VERB_RE = /\b(search|survey|analy[sz]e|filter|track|monitor|update|summari[sz]e|report|plan)\b|检索|调研|筛选|跟踪|追踪|更新|总结|汇报|规划/u;
+const FULLTEXT_OPT_OUT_RE = /\b(metadata[-\s]?only|abstract[-\s]?only|no\s+full[-\s]?text|without\s+full[-\s]?text|quick\s+scan)\b|不需要全文|不用全文|只看摘要|仅摘要|只要元数据|不读全文/u;
+const TOPIC_NOISE_TOKEN_RE = /\b(?:smoke|test|testing|debug|dry[-\s]?run|trial|sandbox|e2e|staging)[-_ ]?\d{0,12}\b/giu;
+const DATE_NOISE_RE = /\b20\d{2}(?:[-_.]?\d{2})?(?:[-_.]?\d{2})?\b/g;
 function normalizeReminderText(raw) {
     let text = raw.trim();
     text = text.replace(/^(please\s+)?remind\s+(me|us|you)\s+(to\s+)?/i, "");
@@ -42,6 +45,37 @@ function deriveResearchTopicFromMessage(message) {
     const normalized = text.trim();
     return normalized.length > 0 ? normalized : message.trim();
 }
+function normalizeRetrievalTopic(topic) {
+    const stripped = topic.replace(TOPIC_NOISE_TOKEN_RE, " ").replace(DATE_NOISE_RE, " ").replace(/\s+/g, " ").trim();
+    return stripped.length > 0 ? stripped : topic.trim();
+}
+function buildVariantKeywords(topic) {
+    const keywords = new Set();
+    const normalized = normalizeRetrievalTopic(topic);
+    const tokens = normalized
+        .toLowerCase()
+        .match(/[\p{L}\p{N}][\p{L}\p{N}_-]{1,47}/gu)
+        ?.map((item) => item.trim())
+        .filter((item) => item.length >= 3) ?? [];
+    if (normalized.length > 0)
+        keywords.add(normalized);
+    if (tokens.length >= 2) {
+        keywords.add(tokens.slice(0, 4).join(" "));
+        keywords.add(tokens.slice(0, 3).join("-"));
+    }
+    for (const token of tokens.slice(0, 8)) {
+        keywords.add(token);
+    }
+    return [...keywords].slice(0, 10);
+}
+function resolveRunProfile(options, effectiveTopic) {
+    if (options.metadataOnly === true)
+        return "fast";
+    const text = `${options.topic ?? ""} ${options.message ?? ""} ${effectiveTopic}`.trim();
+    if (text.length > 0 && FULLTEXT_OPT_OUT_RE.test(text))
+        return "fast";
+    return "strict";
+}
 function buildPreferencePayload(options) {
     const maxPapers = options.maxPapers ?? 5;
     const normalizedSources = options.sources?.map((item) => item.trim().toLowerCase()).filter(Boolean);
@@ -73,9 +107,15 @@ export function buildScheduledTaskMessage(options, scheduleKind, scopeKey) {
     }
     const trimmedTopic = (options.topic ?? promotedTopic)?.trim();
     const effectiveTopic = trimmedTopic || "active project research updates";
+    const retrievalTopic = normalizeRetrievalTopic(effectiveTopic);
+    const variantKeywords = buildVariantKeywords(retrievalTopic);
     const preferences = buildPreferencePayload(options);
+    const runProfile = resolveRunProfile(options, effectiveTopic);
     const projectId = options.projectId?.trim();
-    const candidatePool = resolveCandidatePool(options.candidatePool, preferences.max_papers);
+    const candidatePoolBase = resolveCandidatePool(options.candidatePool, preferences.max_papers);
+    const candidatePool = runProfile === "strict"
+        ? Math.max(candidatePoolBase, Math.min(40, Math.max(20, preferences.max_papers * 4)))
+        : candidatePoolBase;
     const scoreWeights = options.scoreWeights ?? DEFAULT_SCORE_WEIGHTS;
     const scoreWeightsText = formatScoreWeights(scoreWeights);
     const preparePayload = JSON.stringify({
@@ -85,236 +125,144 @@ export function buildScheduledTaskMessage(options, scheduleKind, scopeKey) {
         ...(projectId ? { project_id: projectId } : {}),
         preferences,
     });
-    const recordPaperTemplate = [
-        {
-            id: "arxiv:2501.12345",
-            title: "Paper title",
-            url: "https://arxiv.org/abs/2501.12345",
-            score: 92,
-            reason: "High topical relevance and strong authority.",
-        },
-        {
-            id: "doi:10.1000/xyz123",
-            title: "Paper title 2",
-            url: "https://doi.org/10.1000/xyz123",
-            score: 88,
-            reason: "Novel method with clear practical impact.",
-        },
-    ];
-    const knowledgeStateTemplate = {
-        core_papers: [
-            {
-                id: "arxiv:2501.12345",
-                title: "Paper title",
-                url: "https://arxiv.org/abs/2501.12345",
-                source: "arxiv",
-                score: 92,
-                reason: "High topical relevance and strong authority.",
-                summary: "One-line core takeaway.",
-                evidence_ids: ["arxiv:2501.12345"],
-                full_text_read: true,
-                read_status: "fulltext",
-                full_text_source: "arxiv_pdf",
-                full_text_ref: "https://arxiv.org/pdf/2501.12345.pdf",
-                domain: "machine learning",
-                subdomains: ["parameter-efficient fine-tuning", "large language models"],
-                cross_domain_links: ["systems optimization"],
-                research_goal: "Improve adaptation quality while keeping trainable parameters very small.",
-                approach: "Introduce low-rank adapters and train only adapter matrices.",
-                methodology_design: "Compare with full fine-tuning across multiple model scales/tasks.",
-                key_contributions: ["Low-rank adaptation module design", "Parameter/memory efficiency evidence"],
-                practical_insights: ["Rank choice strongly affects stability and quality tradeoff"],
-                must_understand_points: ["Why low-rank decomposition works in adaptation layers"],
-                limitations: ["Task-specific rank sensitivity"],
-                key_evidence_spans: ["Eq.(3) shows ...", "Section 4 reports ..."],
-                evidence_anchors: [
-                    {
-                        section: "Method",
-                        locator: "Eq.(3)",
-                        claim: "Low-rank decomposition reduces trainable parameters drastically.",
-                        quote: "W = W0 + BA where rank(B,A) << d",
-                    },
-                ],
-            },
-        ],
-        exploration_papers: [
-            {
-                id: "doi:10.1000/xyz123",
-                title: "Paper title 2",
-                url: "https://doi.org/10.1000/xyz123",
-                source: "openalex",
-                score: 88,
-                reason: "Novel method with clear practical impact.",
-                full_text_read: false,
-                read_status: "metadata",
-                unread_reason: "Full text not accessible in this run.",
-            },
-        ],
-        exploration_trace: [
-            {
-                query: "P2D battery model physics-informed agent",
-                source: "arxiv",
-                candidates: 20,
-                filtered_to: 3,
-                filtered_out_reasons: ["off-topic", "weak authority"],
-                result_count: 3,
-            },
-        ],
-        knowledge_changes: [
-            {
-                type: "NEW",
-                statement: "New method/insight discovered in this run.",
-                evidence_ids: ["arxiv:2501.12345"],
-                topic: "example-topic",
-            },
-        ],
-        knowledge_updates: [
-            {
-                topic: "example-topic",
-                op: "append",
-                content: "Update knowledge base with this run's key finding.",
-                confidence: "medium",
-                evidence_ids: ["arxiv:2501.12345"],
-            },
-        ],
-        hypotheses: [
-            {
-                statement: "Potential hypothesis triggered by current changes.",
-                trigger: "TREND",
-                dependency_path: ["Prior unresolved question", "New supporting evidence"],
-                novelty: 3.5,
-                feasibility: 3.2,
-                impact: 4.1,
-                evidence_ids: ["arxiv:2501.12345"],
-                validation_status: "unchecked",
-                validation_notes: "Optional: run openreview_lookup or additional search before promotion.",
-                validation_evidence: [],
-            },
-        ],
-        run_log: {
-            model: "model-name",
-            duration_ms: 1200,
-            temp_full_text_dir: "/tmp/scientify-fulltext/run-123",
-            temp_files_downloaded: 3,
-            temp_cleanup_status: "done",
-            full_text_attempted: 3,
-            full_text_completed: 2,
-            notes: "short run note",
-        },
-    };
+    const strictRunLogTemplate = runProfile === "strict"
+        ? {
+            required_core_papers: Math.max(1, Math.min(preferences.max_papers, 3)),
+            required_full_text_coverage_pct: 80,
+        }
+        : {};
     const recordTemplate = JSON.stringify({
         action: "record",
         scope: scopeKey,
         topic: effectiveTopic,
         ...(projectId ? { project_id: projectId } : {}),
+        run_profile: runProfile,
+        run_id: "run-<unique-id>",
         status: "ok",
-        papers: recordPaperTemplate,
-        knowledge_state: knowledgeStateTemplate,
+        papers: [{ id: "arxiv:2501.12345", title: "Paper title", url: "https://arxiv.org/abs/2501.12345" }],
+        knowledge_state: {
+            core_papers: [
+                {
+                    id: "arxiv:2501.12345",
+                    title: "Paper title",
+                    url: "https://arxiv.org/abs/2501.12345",
+                    full_text_read: true,
+                    domain: "machine learning",
+                    subdomains: ["parameter-efficient fine-tuning"],
+                    research_goal: "one-sentence goal",
+                    approach: "one-sentence approach",
+                    methodology_design: "one-sentence method setup",
+                    key_contributions: ["contribution 1", "contribution 2"],
+                    practical_insights: ["insight 1"],
+                    must_understand_points: ["must-understand 1"],
+                    limitations: ["limitation 1"],
+                    evidence_anchors: [
+                        {
+                            section: "Method",
+                            locator: "Eq.(3)",
+                            claim: "key claim",
+                            quote: "short quote from paper",
+                        },
+                    ],
+                },
+            ],
+            knowledge_changes: [{ type: "NEW", statement: "one concrete change", evidence_ids: ["arxiv:2501.12345"] }],
+            run_log: { run_profile: runProfile, notes: "short run note", ...strictRunLogTemplate },
+        },
     });
-    const recordFallbackTemplate = JSON.stringify({
+    const recordDegradedTemplate = JSON.stringify({
         action: "record",
         scope: scopeKey,
         topic: effectiveTopic,
         ...(projectId ? { project_id: projectId } : {}),
-        status: "fallback_representative",
-        papers: recordPaperTemplate,
+        run_profile: runProfile,
+        run_id: "run-<unique-id>-degraded",
+        status: "degraded_quality",
+        papers: [{ id: "arxiv:2501.12345", title: "Paper title", url: "https://arxiv.org/abs/2501.12345" }],
         knowledge_state: {
-            ...knowledgeStateTemplate,
-            run_log: {
-                model: "model-name",
-                duration_ms: 1300,
-                degraded: true,
-                temp_full_text_dir: "/tmp/scientify-fulltext/run-123",
-                temp_files_downloaded: 1,
-                temp_cleanup_status: "done",
-                full_text_attempted: 1,
-                full_text_completed: 0,
-                notes: "Fallback pass was used because incremental pass had no unseen papers.",
-            },
+            run_log: { run_profile: runProfile, degraded: true, notes: "quality not fully met in this run", ...strictRunLogTemplate },
         },
-        note: "No unseen papers this cycle; delivered best representative papers instead.",
+        note: "selected papers persisted with degraded quality",
     });
     const recordEmptyTemplate = JSON.stringify({
         action: "record",
         scope: scopeKey,
         topic: effectiveTopic,
         ...(projectId ? { project_id: projectId } : {}),
+        run_profile: runProfile,
+        run_id: "run-20260309T103000Z-empty",
         status: "empty",
         papers: [],
         knowledge_state: {
-            core_papers: [],
-            exploration_papers: [],
-            exploration_trace: [],
-            knowledge_changes: [],
-            knowledge_updates: [],
-            hypotheses: [],
-            run_log: {
-                model: "model-name",
-                temp_cleanup_status: "not_needed",
-                notes: "No suitable paper found in this cycle.",
-            },
+            run_log: { run_profile: runProfile, notes: "No suitable paper found in this cycle.", ...strictRunLogTemplate },
         },
         note: "No suitable paper found in incremental pass and fallback representative pass.",
     });
+    const variantHintLine = variantKeywords.length > 0 ? `- Expansion keywords: ${variantKeywords.join(", ")}` : "- Expansion keywords: (none)";
     if (scheduleKind === "at") {
         return [
             `/research-pipeline Run a focused literature study on \"${effectiveTopic}\" and return up to ${preferences.max_papers} high-value representative papers.`,
             "",
-            "Mandatory workflow:",
-            `1) Call tool \`scientify_literature_state\` with: ${preparePayload}`,
-            "2) Read `memory_hints` from prepare result. Treat preferred keywords/sources as positive ranking priors, and avoided ones as negative priors.",
-            `3) Build a candidate pool of around ${candidatePool} papers when possible, matching returned preferences (sources/recency).`,
-            `4) Score each candidate with weighted dimensions (${scoreWeightsText}). Each dimension is 0-100, then compute weighted average score.`,
-            `5) Apply memory prior adjustment to the score (up-rank preferred keyword/source matches; down-rank avoided matches).`,
-            `6) Select top ${preferences.max_papers} papers.`,
-            "7) Create a temporary local directory for full text (for example `/tmp/scientify-fulltext/<run-id>`). Download full text for selected core papers when possible (arXiv PDF/source first, then DOI OA PDF if available).",
-            "8) Read full text with `paper_browser` in sections (method, experiments, limitations). Extract structured fields per paper: `domain`, `subdomains`, `cross_domain_links`, `research_goal`, `approach`, `methodology_design`, `key_contributions`, `practical_insights`, `must_understand_points`, `limitations`, and `evidence_anchors`.",
-            "9) For papers without full text, explicitly set `full_text_read=false` and provide `unread_reason`.",
-            `10) Call \`scientify_literature_state\` to persist selected papers and knowledge_state details using this JSON shape: ${recordTemplate}`,
-            "11) `knowledge_state.core_papers` must include all selected papers with id/title/url/score/reason and structured reading fields (not placeholders).",
-            "12) `knowledge_state.knowledge_changes` and `knowledge_state.knowledge_updates` must reflect this run's actual findings and include `evidence_ids` whenever available.",
-            "13) Quality targets must be met: core full-text coverage >= 80%, evidence-binding rate >= 90% (key conclusions backed by section+locator+quote), citation error rate < 2%.",
-            "14) Without sufficient full-text evidence, do not keep high-confidence conclusions; downgrade confidence explicitly.",
-            "15) For hypotheses, include at least one `evidence_ids` entry and a concrete `dependency_path` when applicable. Prioritize evidence from full-text-read papers.",
-            "16) If a hypothesis is high-impact, optionally run `openreview_lookup` or additional literature search and fill `validation_status`/`validation_notes`/`validation_evidence`.",
-            "17) After recording state, clean temporary full-text files. Put cleanup outcome in `run_log.temp_cleanup_status` (`done|partial|failed|not_needed`) and optional `temp_cleanup_note`.",
-            "18) Keep `run_log.notes` factual (candidate count, filtering reason, fallback/no-fallback).",
-            "19) In user-facing output, always include a numbered paper list with title + direct source URL + one-line value. Never claim papers were selected without listing links.",
-            "20) Do not display raw score/reason unless explicitly requested.",
-            "21) If nothing suitable is found, still call record with empty papers using:",
+            "Workflow (simple, Markdown-first):",
+            "1) Complete 5 steps in this turn: retrieve -> filter -> read -> save metadata -> update knowledge/hypothesis.",
+            "2) First call prepare:",
+            `${preparePayload}`,
+            `3) Build candidate pool around ${candidatePool}; select up to ${preferences.max_papers} credible papers.`,
+            `   - Retrieval topic (normalized): ${retrievalTopic}`,
+            `   ${variantHintLine}`,
+            "   - Filter policy: semantic relevance, not exact string match; include important variants and aliases.",
+            "   - If core candidates < 3, relax filters and rerun with broader query terms before declaring empty.",
+            `4) Reading policy: ${runProfile === "strict" ? "full-text required by default (strict)." : "metadata-only allowed (explicit opt-out detected)."}`,
+            "   - Never drop a relevant paper only because full text failed; keep it with full_text_read=false and unread_reason.",
+            "5) User-facing answer MUST be concise Markdown:",
+            "   - Selected papers (numbered, title + URL + one-line value)",
+            "   - Read status (fulltext vs metadata)",
+            "   - For each selected paper: domain/subdomains + goal + approach + methodology + contributions + insights + limitations",
+            "   - Knowledge updates (NEW/CONFIRM/REVISE/BRIDGE)",
+            "   - Hypothesis decision (generated or not + reason)",
+            "   - If trigger signals are present (e.g. NEW>=2, or NEW+REVISE>=2, or BRIDGE present), propose 1 grounded hypothesis with >=2 evidence_ids and dependency_path>=2",
+            "6) Persist once via `scientify_literature_state.record` using MINIMAL JSON only:",
+            `${recordTemplate}`,
+            "7) If papers exist but quality is partial, persist `degraded_quality` (do not skip record):",
+            `${recordDegradedTemplate}`,
+            "8) Use `empty` only when no paper is selected after both primary and broadened fallback retrieval:",
             `${recordEmptyTemplate}`,
-            "Then respond: `No new literature found.`",
+            "9) After record, call status and include `run_id`/`latest_run_id`.",
+            "Never write placeholders like 'not provided'/'N/A' in core_papers fields. If unavailable, omit the field or set unread_reason.",
+            "Do not output large JSON to users; JSON is for tool call only.",
         ].join("\n");
     }
     return [
         `/research-pipeline Run an incremental literature check focused on \"${effectiveTopic}\".`,
         "",
-        "Mandatory workflow:",
-        `1) Call tool \`scientify_literature_state\` with: ${preparePayload}`,
-        "2) Read `memory_hints` from prepare result. Use them as quiet personalization priors in ranking (not user-facing).",
-        "3) Treat `exclude_paper_ids` as hard dedupe constraints. Do not push papers whose IDs are already in that list.",
-        `4) Incremental pass: build a candidate pool of around ${candidatePool} unseen papers when possible, following preferences (sources/recency).`,
-        `5) Score each candidate with weighted dimensions (${scoreWeightsText}). Each dimension is 0-100, then compute weighted average score.`,
-        "6) Apply memory prior adjustment to the score (up-rank preferred keyword/source matches; down-rank avoided matches).",
-        `7) Select at most ${preferences.max_papers} top-ranked unseen papers.`,
-        "8) Create a temporary local directory for full text (for example `/tmp/scientify-fulltext/<run-id>`). Download full text for selected core papers when possible (arXiv first, then DOI OA if available).",
-        "9) Read full text with `paper_browser` and fill structured paper fields: `domain`, `subdomains`, `cross_domain_links`, `research_goal`, `approach`, `methodology_design`, `key_contributions`, `practical_insights`, `must_understand_points`, `limitations`, and `evidence_anchors`.",
-        "10) If full text cannot be read, set `full_text_read=false` with explicit `unread_reason`.",
-        `11) If selected > 0, call \`scientify_literature_state\` with status \`ok\` using: ${recordTemplate}`,
-        "12) `knowledge_state.core_papers` must contain all selected papers with id/title/url/score/reason and structured reading fields; `exploration_trace` should include query/source/candidates/filtered_to/filter reasons when available.",
-        "13) `knowledge_state.knowledge_changes` and `knowledge_state.hypotheses` should include evidence_ids (and dependency_path for hypotheses) whenever available, preferably from full-text-read papers.",
-        "14) Quality targets must be met: core full-text coverage >= 80%, evidence-binding rate >= 90% (key conclusions backed by section+locator+quote), citation error rate < 2%.",
-        "15) Without sufficient full-text evidence, do not keep high-confidence conclusions; downgrade confidence explicitly.",
-        "16) For top hypotheses, optionally validate risk via `openreview_lookup` and fill `validation_status`/`validation_notes`/`validation_evidence`.",
-        "17) If incremental selection is empty, run one fallback representative pass (ignore `exclude_paper_ids` once) and select best representative papers.",
-        `18) If fallback returns papers, call \`scientify_literature_state\` with status \`fallback_representative\` using: ${recordFallbackTemplate}`,
-        "19) After recording state, clean temporary full-text files and set `run_log.temp_cleanup_status` accordingly (`done|partial|failed|not_needed`).",
-        "20) If papers are selected (incremental or fallback), output a numbered list with title + direct source URL + one-line value for each pushed paper.",
-        "21) Output a compact progress report for this cycle: what changed, what matters, and a concrete plan for the next 1 hour.",
-        "22) Keep user-facing output concise; do not expose raw score/reason unless explicitly requested.",
-        "23) If both incremental and fallback passes are empty, call record with empty papers using:",
+        "Workflow (simple, Markdown-first):",
+        "1) Complete 5 steps in this turn: retrieve -> filter -> read -> save metadata -> update knowledge/hypothesis.",
+        "2) First call prepare:",
+        `${preparePayload}`,
+        `3) Build candidate pool around ${candidatePool}; select up to ${preferences.max_papers} credible unseen papers.`,
+        `4) Rank with weights (${scoreWeightsText}), while respecting memory hints and dedupe.`,
+        `   - Retrieval topic (normalized): ${retrievalTopic}`,
+        `   ${variantHintLine}`,
+        "   - Filter policy: semantic relevance, not exact string match; include major method variants.",
+        "   - If selected core papers < 3, broaden query and rerun once before returning empty.",
+        `5) Reading policy: ${runProfile === "strict" ? "full-text required by default (strict)." : "metadata-only allowed (explicit opt-out detected)."}`,
+        "   - Never drop a relevant paper only because full text failed; keep it with full_text_read=false and unread_reason.",
+        "6) User-facing answer MUST be concise Markdown:",
+        "   - Selected papers (numbered, title + URL + one-line value)",
+        "   - Read status (fulltext vs metadata)",
+        "   - For each selected paper: domain/subdomains + goal + approach + methodology + contributions + insights + limitations",
+        "   - Knowledge updates (NEW/CONFIRM/REVISE/BRIDGE)",
+        "   - Hypothesis decision (generated or not + reason)",
+        "   - If trigger signals are present (e.g. NEW>=2, or NEW+REVISE>=2, or BRIDGE present), propose 1 grounded hypothesis with >=2 evidence_ids and dependency_path>=2",
+        "7) Persist once via `scientify_literature_state.record` using MINIMAL JSON only:",
+        `${recordTemplate}`,
+        "8) If papers exist but quality is partial, persist `degraded_quality` (do not skip record):",
+        `${recordDegradedTemplate}`,
+        "9) If both incremental and broadened fallback passes are empty, persist empty:",
         `${recordEmptyTemplate}`,
-        "24) Then still return a useful progress status with next-hour actions (instead of only a generic reminder).",
+        "10) After record, call status and include `run_id`/`latest_run_id` for traceability.",
+        "Never write placeholders like 'not provided'/'N/A' in core_papers fields. If unavailable, omit the field or set unread_reason.",
+        "Do not output large JSON to users; JSON is for tool call only.",
     ].join("\n");
 }
 export function formatUsage() {
@@ -336,6 +284,7 @@ export function formatUsage() {
         "- `/research-subscribe daily 08:00 --topic \"LLM alignment\"`",
         "- `/research-subscribe daily 08:00 --topic \"LLM alignment\" --max-papers 5 --sources arxiv,openalex`",
         "- `/research-subscribe daily 08:00 --topic \"LLM alignment\" --candidate-pool 12 --score-weights relevance:45,novelty:20,authority:25,actionability:10`",
+        "- `/research-subscribe daily 08:00 --topic \"LLM alignment\" --metadata-only`",
         "- `/research-subscribe at 1m --message \"Time to drink coffee.\"`",
         "- `/research-subscribe daily 09:00 --no-deliver`",
     ].join("\n");

package/dist/src/research-subscriptions/prompt.js.map

@@ -1 +1 @@
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package/dist/src/research-subscriptions/types.d.ts

@@ -54,6 +54,7 @@ export type SubscriptionOptions = {
     channelOverride?: string;
     toOverride?: string;
     projectId?: string;
+    metadataOnly?: boolean;
     noDeliver: boolean;
     topic?: string;
     message?: string;

package/dist/src/research-subscriptions/types.d.ts.map

@@ -1 +1 @@
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package/dist/src/templates/bootstrap.d.ts.map

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package/dist/src/templates/bootstrap.js

@@ -13,36 +13,25 @@ export function renderBootstrapMd(projectName) {
 2. 根据用户回答，提取：
    - 核心域关键词（3-5 个）
    - 建议的 arXiv 分类（如 cs.LG, cs.AI）
-   - 建议的监测带相邻领域分类
+   - 建议的跨域探索方向（反射带）
 3. 向用户确认以上配置，接受调整
 4. 确认后执行以下写入操作：
    - 更新 SOUL.md：填写研究方向、核心域、监测带各字段
-   - 生成 metabolism/config.json（参考下方模板）
-5. 询问用户是否立即执行 Day 0（构建初始知识状态 K(T0)）
-   - 如果是，使用 arxiv_search 按配置的关键词检索论文，执行 skills/metabolism/SKILL.md 中的四步循环
+   - 生成 task.json（记录 topic / mode / created）
+5. 询问用户是否立即执行首轮研究（持续研究引擎）
+   - 如果是，执行 prepare -> collect/filter -> reflect -> record -> status
+   - 研究状态写入 knowledge_state/
 6. 删除本文件（BOOTSTRAP.md）
 
-## config.json 模板
+## task.json 模板
 
 \`\`\`json
 {
   "projectId": "${projectName}",
-  "coreQuery": {
-    "keywords": ["关键词1", "关键词2"],
-    "arxivCategories": ["cs.LG"],
-    "dateMode": "daily-new"
-  },
-  "monitorZone": {
-    "categories": ["相邻领域分类"],
-    "enabled": true
-  },
-  "heartbeat": {
-    "cronExpression": "0 6 * * *",
-    "timezone": "Asia/Shanghai",
-    "enabled": true
-  },
-  "agentId": "research-${projectName}",
-  "currentDay": 0,
+  "topic": "由用户确认后的研究主题",
+  "coreKeywords": ["关键词1", "关键词2"],
+  "monitorKeywords": ["跨域探索关键词"],
+  "mode": "continuous-research-engine",
   "createdAt": "${new Date().toISOString()}"
 }
 \`\`\`
@@ -75,14 +64,13 @@ export function renderAgentsMd() {
 $W/
 ├── SOUL.md                      # 身份 + 研究方向
 ├── AGENTS.md                    # 本文档
-├── metabolism/                  # 知识新陈代谢
-│   ├── config.json              # 项目配置（关键词、分类、heartbeat）
-│   ├── knowledge/               # K(t) 持久知识状态
-│   │   ├── _index.md            # 全景索引
-│   │   └── topic-*.md           # 主题文件（上限 50）
-│   ├── diffs/                   # 每日 diff 报告
-│   ├── hypotheses/              # 生成的假设
-│   └── log/                     # 运行日志
+├── knowledge_state/             # 持续研究状态真源（唯一）
+│   ├── knowledge/
+│   ├── daily_changes/
+│   ├── hypotheses/
+│   ├── logs/
+│   ├── state.json
+│   └── events.jsonl
 ├── survey/                      # /research-collect outputs
 │   ├── search_terms.json
 │   └── report.md
@@ -102,14 +90,13 @@ $W/
 ├── iterations/                  # /research-review: 审查迭代
 │   └── judge_v*.md
 ├── experiment_res.md            # /research-experiment: 实验报告
-└── skills/                      # workspace skills (metabolism 等)
 \`\`\`
 
 ## Session Context
 
 你可能在不同类型的 session 中被唤醒：
 - **Main session**：与人类直接对话，可触发 research-pipeline 等编排 skill
-- **Cron session**：定时触发，执行周期性任务（如每日 metabolism）
+- **Cron session**：定时触发，执行周期性研究心跳
 - **Spawn session**：被 main session 调度（sessions_spawn），执行一次性重任务
 
 任务指令会在 session 启动时注入，按指令执行即可。
@@ -123,7 +110,7 @@ $W/
 产出文件一旦写入不修改，除非用户明确要求。例外：\`project/\` 在 implement-review 迭代中可变。
 
 ### Knowledge File Rules
-- knowledge/ 下的文件是持久知识状态，修改需谨慎
+- knowledge_state/ 下的文件是持久知识状态，修改需谨慎
 - 每次修改必须先读取当前内容再更新
 - _index.md 是全景索引，必须与 topic 文件保持同步
 - topic 文件数上限 50，低活跃主题应合并归档

package/dist/src/templates/bootstrap.js.map

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