scientify 2.0.0 → 3.0.0

package/dist/src/commands.js

@@ -1,227 +1,111 @@
 import * as fs from "node:fs";
 import * as path from "node:path";
 import * as os from "node:os";
-const WORKSPACE_ROOT = path.join(os.homedir(), ".openclaw", "workspace", "projects");
-function getActiveProject() {
-    const activePath = path.join(WORKSPACE_ROOT, ".active");
-    try {
-        return fs.readFileSync(activePath, "utf-8").trim();
-    }
-    catch {
-        return null;
-    }
-}
-function getProjectMeta(projectId) {
-    const metaPath = path.join(WORKSPACE_ROOT, projectId, "project.json");
-    try {
-        return JSON.parse(fs.readFileSync(metaPath, "utf-8"));
-    }
-    catch {
-        return null;
-    }
-}
-function listProjects() {
+const OPENCLAW_HOME = path.join(os.homedir(), ".openclaw");
+/**
+ * List all research agents from openclaw.json.
+ */
+function listResearchAgents() {
+    const configPath = path.join(OPENCLAW_HOME, "openclaw.json");
     try {
-        return fs
-            .readdirSync(WORKSPACE_ROOT, { withFileTypes: true })
-            .filter((d) => d.isDirectory() && !d.name.startsWith("."))
-            .map((d) => d.name);
+        const config = JSON.parse(fs.readFileSync(configPath, "utf-8"));
+        const agents = config.agents?.list ?? [];
+        return agents
+            .filter((a) => a.id.startsWith("research-"))
+            .map((a) => ({
+            id: a.id,
+            workspace: (a.workspace ?? `~/.openclaw/workspace-${a.id}`).replace("~", os.homedir()),
+        }));
     }
     catch {
         return [];
     }
 }
-function formatSize(bytes) {
-    if (bytes < 1024)
-        return `${bytes}B`;
-    if (bytes < 1024 * 1024)
-        return `${(bytes / 1024).toFixed(1)}KB`;
-    return `${(bytes / (1024 * 1024)).toFixed(1)}MB`;
-}
-function getDirSize(dirPath) {
-    let size = 0;
-    try {
-        const entries = fs.readdirSync(dirPath, { withFileTypes: true });
-        for (const entry of entries) {
-            const fullPath = path.join(dirPath, entry.name);
-            if (entry.isDirectory()) {
-                size += getDirSize(fullPath);
-            }
-            else {
-                size += fs.statSync(fullPath).size;
-            }
-        }
-    }
-    catch {
-        // ignore
-    }
-    return size;
-}
-function countFiles(dirPath, pattern) {
-    let count = 0;
-    try {
-        const entries = fs.readdirSync(dirPath, { withFileTypes: true });
-        for (const entry of entries) {
-            const fullPath = path.join(dirPath, entry.name);
-            if (entry.isDirectory()) {
-                count += countFiles(fullPath, pattern);
-            }
-            else if (!pattern || pattern.test(entry.name)) {
-                count++;
-            }
-        }
-    }
-    catch {
-        // ignore
-    }
-    return count;
-}
-function getKnowledgeStateSummary(projectId) {
-    const file = path.join(WORKSPACE_ROOT, projectId, "knowledge_state", "state.json");
-    if (!fs.existsSync(file))
-        return null;
+function countFiles(dirPath, filter) {
     try {
-        const raw = fs.readFileSync(file, "utf-8");
-        const parsed = JSON.parse(raw);
-        const streams = parsed.streams ?? {};
-        const streamEntries = Object.values(streams);
-        let totalRuns = 0;
-        let totalHypotheses = 0;
-        let totalPaperNotes = 0;
-        let recentFullTextReadCount = 0;
-        let recentNotFullTextReadCount = 0;
-        let lastRunAtMs = 0;
-        let lastStatus;
-        for (const stream of streamEntries) {
-            totalRuns += Number.isFinite(stream.totalRuns) ? Math.max(0, Math.floor(stream.totalRuns)) : 0;
-            totalHypotheses += Number.isFinite(stream.totalHypotheses)
-                ? Math.max(0, Math.floor(stream.totalHypotheses))
-                : 0;
-            totalPaperNotes += Array.isArray(stream.paperNotes) ? stream.paperNotes.length : 0;
-            recentFullTextReadCount += Number.isFinite(stream.recentFullTextReadCount)
-                ? Math.max(0, Math.floor(stream.recentFullTextReadCount))
-                : 0;
-            recentNotFullTextReadCount += Number.isFinite(stream.recentNotFullTextReadCount)
-                ? Math.max(0, Math.floor(stream.recentNotFullTextReadCount))
-                : 0;
-            const runAt = Number.isFinite(stream.lastRunAtMs) ? Math.floor(stream.lastRunAtMs) : 0;
-            if (runAt >= lastRunAtMs) {
-                lastRunAtMs = runAt;
-                lastStatus = stream.lastStatus;
-            }
-        }
-        return {
-            totalRuns,
-            totalHypotheses,
-            totalPaperNotes,
-            recentFullTextReadCount,
-            recentNotFullTextReadCount,
-            ...(lastRunAtMs > 0 ? { lastRunAtMs } : {}),
-            ...(lastStatus ? { lastStatus } : {}),
-            streamCount: streamEntries.length,
-        };
+        const entries = fs.readdirSync(dirPath);
+        return filter ? entries.filter(filter).length : entries.length;
     }
     catch {
-        return null;
+        return 0;
     }
 }
 /**
- * /research-status - Show workspace status
+ * /research-status - Show workspace status for all research agents
  */
 export function handleResearchStatus(_ctx) {
-    const activeProject = getActiveProject();
-    const projects = listProjects();
-    let output = "📁 **Research Workspace Status**\n\n";
-    output += `Root: \`${WORKSPACE_ROOT}\`\n`;
-    output += `Active: ${activeProject ? `**${activeProject}**` : "(none)"}\n\n`;
-    if (activeProject) {
-        const knowledgeSummary = getKnowledgeStateSummary(activeProject);
-        if (knowledgeSummary) {
-            output += "**Knowledge State (active project):**\n";
-            output += `- streams: ${knowledgeSummary.streamCount}\n`;
-            output += `- total runs: ${knowledgeSummary.totalRuns}\n`;
-            output += `- total hypotheses: ${knowledgeSummary.totalHypotheses}\n`;
-            output += `- total paper notes: ${knowledgeSummary.totalPaperNotes}\n`;
-            output += `- recent full-text-read papers: ${knowledgeSummary.recentFullTextReadCount}\n`;
-            output += `- recent not-full-text-read papers: ${knowledgeSummary.recentNotFullTextReadCount}\n`;
-            output += `- last status: ${knowledgeSummary.lastStatus ?? "(unknown)"}\n`;
-            output += `- last run: ${knowledgeSummary.lastRunAtMs ? new Date(knowledgeSummary.lastRunAtMs).toISOString() : "(none)"}\n\n`;
-        }
-    }
-    if (projects.length === 0) {
-        output += "_No projects found. Use /idea-generation to create one._";
-    }
-    else {
-        output += "**Projects:**\n";
-        for (const proj of projects) {
-            const isActive = proj === activeProject;
-            const papersCount = countFiles(path.join(WORKSPACE_ROOT, proj, "papers"));
-            const ideasCount = countFiles(path.join(WORKSPACE_ROOT, proj, "ideas"), /\.md$/);
-            let reposCount = 0;
-            try {
-                const reposDir = path.join(WORKSPACE_ROOT, proj, "repos");
-                if (fs.existsSync(reposDir)) {
-                    reposCount = fs
-                        .readdirSync(reposDir, { withFileTypes: true })
-                        .filter((d) => d.isDirectory()).length;
-                }
-            }
-            catch {
-                // ignore
-            }
-            const marker = isActive ? "● " : "  ";
-            output += `${marker}\`${proj}\` (papers: ${papersCount}, ideas: ${ideasCount}, repos: ${reposCount})\n`;
+    const agents = listResearchAgents();
+    if (agents.length === 0) {
+        return { text: "No research projects found. Use `openclaw research init <id>` to create one." };
+    }
+    let output = "**Research Projects**\n\n";
+    for (const agent of agents) {
+        const projectId = agent.id.replace("research-", "");
+        const w = agent.workspace;
+        const papersCount = countFiles(path.join(w, "papers"), (f) => f.endsWith(".tex") || f.endsWith(".pdf"));
+        const ideasCount = countFiles(path.join(w, "ideas"), (f) => f.endsWith(".md"));
+        const topicCount = countFiles(path.join(w, "knowledge"), (f) => f.startsWith("topic-"));
+        const hypothesisCount = countFiles(path.join(w, "ideas"), (f) => f.startsWith("hyp-"));
+        let currentDay = 0;
+        try {
+            const config = JSON.parse(fs.readFileSync(path.join(w, "config.json"), "utf-8"));
+            currentDay = config.currentDay ?? 0;
         }
+        catch { /* not yet bootstrapped */ }
+        output += `**${projectId}** (Day ${currentDay})\n`;
+        output += `  Workspace: \`${w}\`\n`;
+        output += `  Topics: ${topicCount} | Hypotheses: ${hypothesisCount} | Papers: ${papersCount} | Ideas: ${ideasCount}\n\n`;
     }
     return { text: output };
 }
 /**
- * /papers - List downloaded papers
+ * /papers - List downloaded papers in a research agent workspace
  */
 export function handlePapers(ctx) {
-    const projectId = ctx.args?.trim() || getActiveProject();
-    if (!projectId) {
-        return { text: "❌ No active project. Use: `/papers <project-id>`" };
+    const agent = resolveAgent(ctx.args?.trim());
+    if (!agent) {
+        return { text: "No research project found. Use `openclaw research init <id>` to create one." };
     }
-    const papersDir = path.join(WORKSPACE_ROOT, projectId, "papers");
+    const papersDir = path.join(agent.workspace, "papers");
     if (!fs.existsSync(papersDir)) {
-        return { text: `📄 **Papers in ${projectId}**\n\n_No papers directory found._` };
+        return { text: `No papers directory in project ${agent.id}.` };
     }
-    let output = `📄 **Papers in ${projectId}**\n\n`;
-    const entries = fs.readdirSync(papersDir, { withFileTypes: true });
+    const downloadsDir = path.join(papersDir, "_downloads");
+    let output = `**Papers — ${agent.id.replace("research-", "")}**\n\n`;
     let hasItems = false;
-    for (const entry of entries) {
-        if (entry.isDirectory()) {
-            const paperDir = path.join(papersDir, entry.name);
-            const texFiles = fs.readdirSync(paperDir).filter((f) => f.endsWith(".tex"));
-            output += `  [tex] \`${entry.name}\` (${texFiles.length} files)\n`;
-            hasItems = true;
-        }
-        else if (entry.name.endsWith(".pdf")) {
-            const size = formatSize(fs.statSync(path.join(papersDir, entry.name)).size);
-            output += `  [pdf] \`${entry.name.replace(".pdf", "")}\` (${size})\n`;
-            hasItems = true;
+    try {
+        const entries = fs.readdirSync(downloadsDir, { withFileTypes: true });
+        for (const entry of entries) {
+            if (entry.isDirectory()) {
+                const texCount = fs.readdirSync(path.join(downloadsDir, entry.name)).filter((f) => f.endsWith(".tex")).length;
+                output += `  [tex] \`${entry.name}\` (${texCount} files)\n`;
+                hasItems = true;
+            }
+            else if (entry.name.endsWith(".pdf")) {
+                output += `  [pdf] \`${entry.name.replace(".pdf", "")}\`\n`;
+                hasItems = true;
+            }
         }
     }
-    if (!hasItems) {
+    catch { /* empty */ }
+    if (!hasItems)
         output += "_No papers downloaded yet._";
-    }
     return { text: output };
 }
 /**
- * /ideas - List generated ideas
+ * /ideas - List generated ideas in a research agent workspace
  */
 export function handleIdeas(ctx) {
-    const projectId = ctx.args?.trim() || getActiveProject();
-    if (!projectId) {
-        return { text: "❌ No active project. Use: `/ideas <project-id>`" };
+    const agent = resolveAgent(ctx.args?.trim());
+    if (!agent) {
+        return { text: "No research project found. Use `openclaw research init <id>` to create one." };
     }
-    const ideasDir = path.join(WORKSPACE_ROOT, projectId, "ideas");
+    const ideasDir = path.join(agent.workspace, "ideas");
     if (!fs.existsSync(ideasDir)) {
-        return { text: `💡 **Ideas in ${projectId}**\n\n_No ideas directory found._` };
+        return { text: `No ideas in project ${agent.id.replace("research-", "")}.` };
     }
-    let output = `💡 **Ideas in ${projectId}**\n\n`;
     const files = fs.readdirSync(ideasDir).filter((f) => f.endsWith(".md"));
+    let output = `**Ideas — ${agent.id.replace("research-", "")}**\n\n`;
     if (files.length === 0) {
         output += "_No ideas generated yet._";
     }
@@ -231,97 +115,42 @@ export function handleIdeas(ctx) {
             const titleMatch = content.match(/^#\s+(.+)$/m);
             const title = titleMatch ? titleMatch[1] : file;
             const isSelected = file === "selected_idea.md";
-            const marker = isSelected ? "⭐ " : "   ";
-            output += `${marker}\`${file.padEnd(22)}\` ${title}\n`;
+            const marker = isSelected ? "* " : "  ";
+            output += `${marker}\`${file}\` ${title}\n`;
         }
     }
     return { text: output };
 }
 /**
- * /projects - List all research projects
+ * /projects - List all research projects (alias for /research-status)
  */
 export function handleProjects(_ctx) {
-    const activeProject = getActiveProject();
-    const projects = listProjects();
-    let output = "📂 **Research Projects**\n\n";
-    if (projects.length === 0) {
-        output += "_No projects found._";
-    }
-    else {
-        for (const proj of projects) {
-            const isActive = proj === activeProject;
-            const meta = getProjectMeta(proj);
-            const marker = isActive ? "● " : "  ";
-            output += `${marker}**${proj}**\n`;
-            if (meta?.name)
-                output += `    name: ${meta.name}\n`;
-            if (meta?.created)
-                output += `    created: ${meta.created}\n`;
-            if (meta?.topics?.length)
-                output += `    topics: ${meta.topics.join(", ")}\n`;
-        }
-    }
-    return { text: output };
+    return handleResearchStatus(_ctx);
 }
 /**
- * /project-switch <project-id> - Switch to a different project
+ * /project-switch - No longer needed (each agent has its own workspace)
  */
-export function handleProjectSwitch(ctx) {
-    const projectId = ctx.args?.trim();
-    if (!projectId) {
-        return { text: "❌ Usage: `/project-switch <project-id>`" };
-    }
-    const projectPath = path.join(WORKSPACE_ROOT, projectId);
-    if (!fs.existsSync(projectPath)) {
-        return { text: `❌ Project '${projectId}' not found.` };
-    }
-    fs.mkdirSync(WORKSPACE_ROOT, { recursive: true });
-    fs.writeFileSync(path.join(WORKSPACE_ROOT, ".active"), projectId);
-    return { text: `✓ Switched to project '**${projectId}**'` };
+export function handleProjectSwitch(_ctx) {
+    return { text: "Project switching is no longer needed. Each research agent has its own workspace. Use `openclaw research list` to see all projects." };
 }
 /**
- * /project-delete <project-id> - Delete a research project
+ * /project-delete - Delete via CLI instead
  */
-export function handleProjectDelete(ctx) {
-    const args = ctx.args?.trim() || "";
-    const hasForce = args.includes("--force");
-    // Extract project ID by removing the --force flag
-    const projectId = args.replace(/--force/g, "").trim();
-    if (!projectId) {
-        return { text: "❌ Usage: `/project-delete <project-id>`" };
-    }
-    const projectPath = path.join(WORKSPACE_ROOT, projectId);
-    if (!fs.existsSync(projectPath)) {
-        return { text: `❌ Project '${projectId}' not found.` };
-    }
-    const size = formatSize(getDirSize(projectPath));
-    const papersCount = countFiles(path.join(projectPath, "papers"));
-    const ideasCount = countFiles(path.join(projectPath, "ideas"), /\.md$/);
-    // For safety, we'll return info and ask for confirmation
-    // Note: Plugin commands don't support interactive confirmation,
-    // so we provide a force flag via the args
-    if (!hasForce) {
-        return {
-            text: `⚠️ **About to delete:**\n\n` +
-                `- Project: \`${projectId}\`\n` +
-                `- Papers: ${papersCount}\n` +
-                `- Ideas: ${ideasCount}\n` +
-                `- Size: ${size}\n\n` +
-                `To confirm, use: \`/project-delete ${projectId} --force\``,
-        };
-    }
-    // Clear active if this is the active project
-    const activeProject = getActiveProject();
-    if (activeProject === projectId) {
-        try {
-            fs.unlinkSync(path.join(WORKSPACE_ROOT, ".active"));
-        }
-        catch {
-            // ignore
-        }
+export function handleProjectDelete(_ctx) {
+    return { text: "Use `openclaw research delete <id>` to delete a research project." };
+}
+/**
+ * Resolve which research agent to use.
+ * If an arg is given, match by project id; otherwise use the first (or only) agent.
+ */
+function resolveAgent(arg) {
+    const agents = listResearchAgents();
+    if (agents.length === 0)
+        return null;
+    if (arg) {
+        const agentId = arg.startsWith("research-") ? arg : `research-${arg}`;
+        return agents.find((a) => a.id === agentId) ?? null;
     }
-    // Delete the project directory
-    fs.rmSync(projectPath, { recursive: true, force: true });
-    return { text: `✓ Deleted project '**${projectId}**'` };
+    return agents[0] ?? null;
 }
 //# sourceMappingURL=commands.js.map

package/dist/src/commands.js.map

@@ -1 +1 @@
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+{"version":3,"file":"commands.js","sourceRoot":"","sources":["../../src/commands.ts"],"names":[],"mappings":"AAAA,OAAO,KAAK,EAAE,MAAM,SAAS,CAAC;AAC9B,OAAO,KAAK,IAAI,MAAM,WAAW,CAAC;AAClC,OAAO,KAAK,EAAE,MAAM,SAAS,CAAC;AAG9B,MAAM,aAAa,GAAG,IAAI,CAAC,IAAI,CAAC,EAAE,CAAC,OAAO,EAAE,EAAE,WAAW,CAAC,CAAC;AAO3D;;GAEG;AACH,SAAS,kBAAkB;IACzB,MAAM,UAAU,GAAG,IAAI,CAAC,IAAI,CAAC,aAAa,EAAE,eAAe,CAAC,CAAC;IAC7D,IAAI,CAAC;QACH,MAAM,MAAM,GAAG,IAAI,CAAC,KAAK,CAAC,EAAE,CAAC,YAAY,CAAC,UAAU,EAAE,OAAO,CAAC,CAAC,CAAC;QAChE,MAAM,MAAM,GAAI,MAAM,CAAC,MAA+D,EAAE,IAAI,IAAI,EAAE,CAAC;QACnG,OAAO,MAAM;aACV,MAAM,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,EAAE,CAAC,UAAU,CAAC,WAAW,CAAC,CAAC;aAC3C,GAAG,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC;YACX,EAAE,EAAE,CAAC,CAAC,EAAE;YACR,SAAS,EAAE,CAAC,CAAC,CAAC,SAAS,IAAI,yBAAyB,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,OAAO,CAAC,GAAG,EAAE,EAAE,CAAC,OAAO,EAAE,CAAC;SACvF,CAAC,CAAC,CAAC;IACR,CAAC;IAAC,MAAM,CAAC;QACP,OAAO,EAAE,CAAC;IACZ,CAAC;AACH,CAAC;AAED,SAAS,UAAU,CAAC,OAAe,EAAE,MAAkC;IACrE,IAAI,CAAC;QACH,MAAM,OAAO,GAAG,EAAE,CAAC,WAAW,CAAC,OAAO,CAAC,CAAC;QACxC,OAAO,MAAM,CAAC,CAAC,CAAC,OAAO,CAAC,MAAM,CAAC,MAAM,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,OAAO,CAAC,MAAM,CAAC;IACjE,CAAC;IAAC,MAAM,CAAC;QACP,OAAO,CAAC,CAAC;IACX,CAAC;AACH,CAAC;AAED;;GAEG;AACH,MAAM,UAAU,oBAAoB,CAAC,IAA0B;IAC7D,MAAM,MAAM,GAAG,kBAAkB,EAAE,CAAC;IAEpC,IAAI,MAAM,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;QACxB,OAAO,EAAE,IAAI,EAAE,8EAA8E,EAAE,CAAC;IAClG,CAAC;IAED,IAAI,MAAM,GAAG,2BAA2B,CAAC;IAEzC,KAAK,MAAM,KAAK,IAAI,MAAM,EAAE,CAAC;QAC3B,MAAM,SAAS,GAAG,KAAK,CAAC,EAAE,CAAC,OAAO,CAAC,WAAW,EAAE,EAAE,CAAC,CAAC;QACpD,MAAM,CAAC,GAAG,KAAK,CAAC,SAAS,CAAC;QAE1B,MAAM,WAAW,GAAG,UAAU,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC,EAAE,QAAQ,CAAC,EAAE,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,QAAQ,CAAC,MAAM,CAAC,IAAI,CAAC,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC,CAAC;QACxG,MAAM,UAAU,GAAG,UAAU,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC,EAAE,OAAO,CAAC,EAAE,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,QAAQ,CAAC,KAAK,CAAC,CAAC,CAAC;QAC/E,MAAM,UAAU,GAAG,UAAU,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC,EAAE,WAAW,CAAC,EAAE,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,UAAU,CAAC,QAAQ,CAAC,CAAC,CAAC;QACxF,MAAM,eAAe,GAAG,UAAU,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC,EAAE,OAAO,CAAC,EAAE,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,UAAU,CAAC,MAAM,CAAC,CAAC,CAAC;QAEvF,IAAI,UAAU,GAAG,CAAC,CAAC;QACnB,IAAI,CAAC;YACH,MAAM,MAAM,GAAG,IAAI,CAAC,KAAK,CAAC,EAAE,CAAC,YAAY,CAAC,IAAI,CAAC,IAAI,CAAC,CAAC,EAAE,aAAa,CAAC,EAAE,OAAO,CAAC,CAAC,CAAC;YACjF,UAAU,GAAG,MAAM,CAAC,UAAU,IAAI,CAAC,CAAC;QACtC,CAAC;QAAC,MAAM,CAAC,CAAC,0BAA0B,CAAC,CAAC;QAEtC,MAAM,IAAI,KAAK,SAAS,WAAW,UAAU,KAAK,CAAC;QACnD,MAAM,IAAI,kBAAkB,CAAC,MAAM,CAAC;QACpC,MAAM,IAAI,aAAa,UAAU,kBAAkB,eAAe,cAAc,WAAW,aAAa,UAAU,MAAM,CAAC;IAC3H,CAAC;IAED,OAAO,EAAE,IAAI,EAAE,MAAM,EAAE,CAAC;AAC1B,CAAC;AAED;;GAEG;AACH,MAAM,UAAU,YAAY,CAAC,GAAyB;IACpD,MAAM,KAAK,GAAG,YAAY,CAAC,GAAG,CAAC,IAAI,EAAE,IAAI,EAAE,CAAC,CAAC;IAC7C,IAAI,CAAC,KAAK,EAAE,CAAC;QACX,OAAO,EAAE,IAAI,EAAE,6EAA6E,EAAE,CAAC;IACjG,CAAC;IAED,MAAM,SAAS,GAAG,IAAI,CAAC,IAAI,CAAC,KAAK,CAAC,SAAS,EAAE,QAAQ,CAAC,CAAC;IACvD,IAAI,CAAC,EAAE,CAAC,UAAU,CAAC,SAAS,CAAC,EAAE,CAAC;QAC9B,OAAO,EAAE,IAAI,EAAE,kCAAkC,KAAK,CAAC,EAAE,GAAG,EAAE,CAAC;IACjE,CAAC;IAED,MAAM,YAAY,GAAG,IAAI,CAAC,IAAI,CAAC,SAAS,EAAE,YAAY,CAAC,CAAC;IACxD,IAAI,MAAM,GAAG,cAAc,KAAK,CAAC,EAAE,CAAC,OAAO,CAAC,WAAW,EAAE,EAAE,CAAC,QAAQ,CAAC;IACrE,IAAI,QAAQ,GAAG,KAAK,CAAC;IAErB,IAAI,CAAC;QACH,MAAM,OAAO,GAAG,EAAE,CAAC,WAAW,CAAC,YAAY,EAAE,EAAE,aAAa,EAAE,IAAI,EAAE,CAAC,CAAC;QACtE,KAAK,MAAM,KAAK,IAAI,OAAO,EAAE,CAAC;YAC5B,IAAI,KAAK,CAAC,WAAW,EAAE,EAAE,CAAC;gBACxB,MAAM,QAAQ,GAAG,EAAE,CAAC,WAAW,CAAC,IAAI,CAAC,IAAI,CAAC,YAAY,EAAE,KAAK,CAAC,IAAI,CAAC,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,QAAQ,CAAC,MAAM,CAAC,CAAC,CAAC,MAAM,CAAC;gBAC9G,MAAM,IAAI,aAAa,KAAK,CAAC,IAAI,OAAO,QAAQ,WAAW,CAAC;gBAC5D,QAAQ,GAAG,IAAI,CAAC;YAClB,CAAC;iBAAM,IAAI,KAAK,CAAC,IAAI,CAAC,QAAQ,CAAC,MAAM,CAAC,EAAE,CAAC;gBACvC,MAAM,IAAI,aAAa,KAAK,CAAC,IAAI,CAAC,OAAO,CAAC,MAAM,EAAE,EAAE,CAAC,MAAM,CAAC;gBAC5D,QAAQ,GAAG,IAAI,CAAC;YAClB,CAAC;QACH,CAAC;IACH,CAAC;IAAC,MAAM,CAAC,CAAC,WAAW,CAAC,CAAC;IAEvB,IAAI,CAAC,QAAQ;QAAE,MAAM,IAAI,6BAA6B,CAAC;IACvD,OAAO,EAAE,IAAI,EAAE,MAAM,EAAE,CAAC;AAC1B,CAAC;AAED;;GAEG;AACH,MAAM,UAAU,WAAW,CAAC,GAAyB;IACnD,MAAM,KAAK,GAAG,YAAY,CAAC,GAAG,CAAC,IAAI,EAAE,IAAI,EAAE,CAAC,CAAC;IAC7C,IAAI,CAAC,KAAK,EAAE,CAAC;QACX,OAAO,EAAE,IAAI,EAAE,6EAA6E,EAAE,CAAC;IACjG,CAAC;IAED,MAAM,QAAQ,GAAG,IAAI,CAAC,IAAI,CAAC,KAAK,CAAC,SAAS,EAAE,OAAO,CAAC,CAAC;IACrD,IAAI,CAAC,EAAE,CAAC,UAAU,CAAC,QAAQ,CAAC,EAAE,CAAC;QAC7B,OAAO,EAAE,IAAI,EAAE,uBAAuB,KAAK,CAAC,EAAE,CAAC,OAAO,CAAC,WAAW,EAAE,EAAE,CAAC,GAAG,EAAE,CAAC;IAC/E,CAAC;IAED,MAAM,KAAK,GAAG,EAAE,CAAC,WAAW,CAAC,QAAQ,CAAC,CAAC,MAAM,CAAC,CAAC,CAAC,EAAE,EAAE,CAAC,CAAC,CAAC,QAAQ,CAAC,KAAK,CAAC,CAAC,CAAC;IACxE,IAAI,MAAM,GAAG,aAAa,KAAK,CAAC,EAAE,CAAC,OAAO,CAAC,WAAW,EAAE,EAAE,CAAC,QAAQ,CAAC;IAEpE,IAAI,KAAK,CAAC,MAAM,KAAK,CAAC,EAAE,CAAC;QACvB,MAAM,IAAI,2BAA2B,CAAC;IACxC,CAAC;SAAM,CAAC;QACN,KAAK,MAAM,IAAI,IAAI,KAAK,EAAE,CAAC;YACzB,MAAM,OAAO,GAAG,EAAE,CAAC,YAAY,CAAC,IAAI,CAAC,IAAI,CAAC,QAAQ,EAAE,IAAI,CAAC,EAAE,OAAO,CAAC,CAAC;YACpE,MAAM,UAAU,GAAG,OAAO,CAAC,KAAK,CAAC,aAAa,CAAC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package/dist/src/templates/bootstrap.d.ts.map

@@ -1 +1 @@
-{"version":3,"file":"bootstrap.d.ts","sourceRoot":"","sources":["../../../src/templates/bootstrap.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,wBAAgB,iBAAiB,CAAC,WAAW,EAAE,MAAM,GAAG,MAAM,CA6C7D;AAED,wBAAgB,YAAY,CAAC,WAAW,EAAE,MAAM,GAAG,MAAM,CAexD;AAED,wBAAgB,cAAc,IAAI,MAAM,CAqFvC"}
+{"version":3,"file":"bootstrap.d.ts","sourceRoot":"","sources":["../../../src/templates/bootstrap.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,wBAAgB,iBAAiB,CAAC,WAAW,EAAE,MAAM,GAAG,MAAM,CAqC7D;AAED,wBAAgB,YAAY,CAAC,WAAW,EAAE,MAAM,GAAG,MAAM,CAaxD;AAED,wBAAgB,cAAc,IAAI,MAAM,CAiFvC"}

package/dist/src/templates/bootstrap.js

@@ -12,14 +12,14 @@ export function renderBootstrapMd(projectName) {
 1. 向用户问好，说明你是课题「${projectName}」的研究 agent，请用户描述研究方向
 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
-3. 向用户确认以上配置，接受调整
+   - 建议的 arXiv 分类（如 cs.LG, cs.AI），如果研究方向不属于 arXiv 覆盖范围则留空
+   - 建议的文献来源偏好（arXiv、OpenAlex、或两者兼用）
+3. 与用户讨论研究方向的边界和重点，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
+   - 更新 SOUL.md：填写研究方向、核心域各字段
+   - 生成 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）
+   - 如果是，执行 /metabolism 完成首轮文献检索和知识库构建（Day 0 模式）
 6. 删除本文件（BOOTSTRAP.md）
 
 ## config.json 模板
@@ -27,25 +27,17 @@ export function renderBootstrapMd(projectName) {
 \`\`\`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}",
+  "keywords": ["关键词1", "关键词2"],
+  "arxivCategories": ["cs.LG"],
+  "sources": ["arxiv", "openalex"],
   "currentDay": 0,
+  "processed_ids": [],
   "createdAt": "${new Date().toISOString()}"
 }
 \`\`\`
+
+> **注意：** \`arxivCategories\` 和 \`sources\` 根据研究领域灵活配置。
+> 自然科学、社会科学等非 CS 领域可将 \`arxivCategories\` 设为 \`[]\`，主要依赖 OpenAlex。
 `;
 }
 export function renderSoulMd(projectName) {
@@ -58,10 +50,8 @@ export function renderSoulMd(projectName) {
 
 ## 核心域
 关键词: {由 BOOTSTRAP 流程填写}
-arXiv 分类: {由 BOOTSTRAP 流程填写}
-
-## 监测带
-相邻领域: {由 BOOTSTRAP 流程填写}
+arXiv 分类: {由 BOOTSTRAP 流程填写，不适用则留空}
+文献来源: {arXiv / OpenAlex / 两者兼用}
 `;
 }
 export function renderAgentsMd() {
@@ -75,34 +65,29 @@ 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
-├── survey/                      # /research-collect outputs
-│   ├── search_terms.json
-│   └── report.md
-├── papers/                      # 下载的论文
-│   ├── _downloads/              # 原始下载
-│   ├── _meta/                   # 元数据 {arxiv_id}.json
-│   └── {direction}/             # 按方向分类
-├── repos/                       # 参考代码仓库
-├── notes/                       # /research-survey: 逐篇深度笔记
-│   └── paper_{arxiv_id}.md
-├── ideas/                       # /idea-generation outputs
-├── review/                      # /write-review-paper outputs
-├── survey_res.md                # /research-survey: 方法对比报告
-├── plan_res.md                  # /research-plan: 实现计划
-├── project/                     # /research-implement: 代码实现
-├── ml_res.md                    # /research-implement: 执行报告
-├── iterations/                  # /research-review: 审查迭代
-│   └── judge_v*.md
-├── experiment_res.md            # /research-experiment: 实验报告
-└── skills/                      # workspace skills (metabolism 等)
+├── config.json                  # 项目配置（关键词、分类、当前天数）
+│
+├── papers/                      # 文献区：下载的论文
+│   ├── {arxiv_id}/              # arXiv 论文源文件
+│   └── {doi_slug}.pdf           # PDF 文件
+│
+├── knowledge/                   # 知识区：持久知识状态
+│   ├── _index.md                # 全景索引
+│   └── topic-*.md               # 主题文件（上限 50）
+│
+├── ideas/                       # 想法区：假设与研究想法
+│   ├── hyp-*.md                 # 生成的假设
+│   └── selected_idea.md         # 选中的研究想法
+│
+├── experiments/                 # 实验代码区
+│   ├── run.py                   # 入口脚本
+│   ├── requirements.txt
+│   └── results/                 # 实验结果
+│
+├── log/                         # 运行日志
+│   └── {YYYY-MM-DD}.md
+│
+└── skills/                      # workspace skills
 \`\`\`
 
 ## Session Context
@@ -140,12 +125,13 @@ $W/
 
 | Skill | Primary Outputs |
 |-------|-----------------|
-| /research-collect | survey/, papers/ |
-| /research-survey | notes/paper_*.md, survey_res.md |
+| /metabolism | Day 0: config.json, knowledge/ / Day 1+: papers/, knowledge/, ideas/hyp-*.md, log/ |
+| /research-collect | papers/ |
+| /research-survey | knowledge/, survey_res.md |
 | /research-plan | plan_res.md |
-| /research-implement | project/, ml_res.md |
-| /research-review | iterations/judge_v*.md |
-| /research-experiment | experiment_res.md |
+| /research-implement | experiments/ |
+| /research-review | experiments/review/ |
+| /research-experiment | experiments/results/ |
 | /idea-generation | ideas/ |
 | /write-review-paper | review/ |
 `;

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+{"version":3,"file":"bootstrap.js","sourceRoot":"","sources":["../../../src/templates/bootstrap.ts"],"names":[],"mappings":"AAAA;;;GAGG;AAEH,MAAM,UAAU,iBAAiB,CAAC,WAAmB;IACnD,OAAO;;YAEG,WAAW;;;;kBAIL,WAAW;;;;;;;;;;;;;;;;;kBAiBX,WAAW;;;;;;kBAMX,IAAI,IAAI,EAAE,CAAC,WAAW,EAAE;;;;;;CAMzC,CAAC;AACF,CAAC;AAED,MAAM,UAAU,YAAY,CAAC,WAAmB;IAC9C,OAAO,qBAAqB,WAAW;;OAElC,WAAW;;;;;;;;;CASjB,CAAC;AACF,CAAC;AAED,MAAM,UAAU,cAAc;IAC5B,OAAO;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;;CA+ER,CAAC;AACF,CAAC"}

package/dist/src/types.d.ts

@@ -1,16 +1,8 @@
 /**
  * Re-export SDK types and derive types not directly exported.
- *
- * OpenClaw plugin-entry exports OpenClawPluginApi, PluginCommandContext,
- * PluginLogger, etc. — but not PluginRuntime, PluginCommandResult, or
- * RunCommandResult. We derive those from the exported interfaces.
  */
-import type { OpenClawPluginApi, PluginCommandContext, PluginLogger, OpenClawPluginCommandDefinition } from "openclaw/plugin-sdk/plugin-entry";
-export type { OpenClawPluginApi, PluginCommandContext, PluginLogger, OpenClawPluginCommandDefinition, };
-/** Derived from OpenClawPluginApi["runtime"] */
-export type PluginRuntime = OpenClawPluginApi["runtime"];
+import type { OpenClawPluginApi, PluginCommandContext, OpenClawPluginCommandDefinition } from "openclaw/plugin-sdk/plugin-entry";
+export type { OpenClawPluginApi, PluginCommandContext };
 /** Derived from the return type of command handlers */
 export type PluginCommandResult = Awaited<ReturnType<OpenClawPluginCommandDefinition["handler"]>>;
-/** Derived from runtime.system.runCommandWithTimeout return type */
-export type RunCommandResult = Awaited<ReturnType<PluginRuntime["system"]["runCommandWithTimeout"]>>;
 //# sourceMappingURL=types.d.ts.map

package/dist/src/types.d.ts.map

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