npm - helixlife-expert-cli - Versions diffs - 0.2.0 → 0.3.1 - Mend

helixlife-expert-cli 0.2.0 → 0.3.1

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.

Files changed (112) hide show

package/cli/dist/modules/shared/workflow-app/command.js CHANGED Viewed

@@ -1,8 +1,9 @@
 // 工作流 params / run 两个命令体的共享实现。
 // 文献调研、课题方案（临床研究 / 生信方案）等专家只需提供各自的工作流定义。
-import { readFileSync, writeFileSync } from "node:fs";
-import { join } from "node:path";
-import { createStderrProgress, getUserDownloadsDir, helixlifeError, helixlifeErrorCode, printOutput, renderListAsMarkdown, resolveUserPath, sanitizeFilename, } from "../../../core/index.js";
+import { createHash } from "node:crypto";
+import { existsSync, mkdirSync, readFileSync, statSync, writeFileSync } from "node:fs";
+import { basename, join } from "node:path";
+import { createStderrProgress, getHelixlifeOutputDir, getHelixlifeStateDir, helixlifeError, helixlifeErrorCode, printOutput, pruneStaleStateFiles, renderListAsMarkdown, resolveUserPath, sanitizeFilename, } from "../../../core/index.js";
 import { wrapWorkbenchResult } from "../result-wrapper.js";
 import { fetchWorkflowAppName, fetchWorkflowConfig } from "./api.js";
 import { componentLabel, prepareQuery } from "./form.js";
@@ -129,43 +130,104 @@ function readInputsFile(path) {
     }
     return parsed;
 }
-/** 完整结果落盘到下载目录，避免长正文只存在于终端回显里 */
+/** 完整结果落盘（下载目录；Open-Science 下为会话 handoff），避免长正文只存在于终端回显里 */
 function writeResultMarkdown(text, workflow) {
     const stamp = new Date()
         .toISOString()
         .replace(/[-:TZ.]/g, "")
         .slice(0, 14);
     const filename = `${sanitizeFilename(`${workflow.source}_${workflow.title}_${stamp}`)}.md`;
-    const mdPath = join(getUserDownloadsDir(), filename);
+    const outputDir = getHelixlifeOutputDir();
+    mkdirSync(outputDir, { recursive: true });
+    const mdPath = join(outputDir, filename);
     writeFileSync(mdPath, text, "utf8");
     return { mdPath, mdSize: Buffer.byteLength(text, "utf8") };
 }
+export const WORKFLOW_RUN_FRESH_HINT = "忽略本会话内相同入参的已完成结果，强制重新生成";
+// 同入参结果复用窗口：覆盖「后台任务结果未取回 → Agent 原样重提」的场景，又不至于长期挡住重新生成
+const RUN_REUSE_MAX_AGE_MS = 2 * 60 * 60 * 1000;
+export function runRecordPath(source, query) {
+    const fields = Object.keys(query)
+        .sort()
+        .map((id) => [id, query[id].type, query[id].content]);
+    const fingerprint = createHash("sha256")
+        .update(JSON.stringify({ source, fields }))
+        .digest("hex")
+        .slice(0, 32);
+    return join(getHelixlifeStateDir("workflow-runs"), `${fingerprint}.json`);
+}
+function loadReusableRun(recordPath) {
+    try {
+        const record = JSON.parse(readFileSync(recordPath, "utf8"));
+        if (Date.now() - record.savedAt > RUN_REUSE_MAX_AGE_MS ||
+            !existsSync(record.mdPath) ||
+            !statSync(record.mdPath).isFile()) {
+            return undefined;
+        }
+        return record;
+    }
+    catch {
+        return undefined;
+    }
+}
+async function saveRunRecord(recordPath, record) {
+    try {
+        const dir = getHelixlifeStateDir("workflow-runs");
+        mkdirSync(dir, { recursive: true });
+        await pruneStaleStateFiles(dir);
+        writeFileSync(recordPath, JSON.stringify(record), "utf8");
+    }
+    catch {
+        /* 复用记录写失败不影响本次结果 */
+    }
+}
 /** 执行工作流：读入参 → 校验 → SSE 执行 → 落盘并输出 */
 export async function runWorkflowRun(options) {
     const { workflow } = options;
     const inputs = readInputsFile(options.inputsFile);
     const config = await fetchWorkflowConfig(workflow.source);
     const query = prepareQuery(config.components, inputs, workflow.anyOf);
-    const appName = (await fetchWorkflowAppName(workflow.source)) ?? workflow.name;
-    const progress = createStderrProgress(true);
-    progress.start(`正在执行 ${workflow.source} ${workflow.title}…`);
+    const recordPath = runRecordPath(workflow.source, query);
+    const reused = options.fresh ? undefined : loadReusableRun(recordPath);
     let result;
-    try {
-        result = await executeWorkflow({
-            source: workflow.source,
-            appName,
-            query,
-            onProgress: (received) => progress.update(received),
-        });
+    let text;
+    let mdPath;
+    let mdSize;
+    if (reused) {
+        process.stderr.write(`相同入参已于 ${new Date(reused.savedAt).toISOString()} 生成完成，直接复用结果（需重新生成请加 --fresh）\n`);
+        result = { outputs: reused.outputs, recordId: reused.recordId };
+        text = readFileSync(reused.mdPath, "utf8");
+        mdPath = reused.mdPath;
+        mdSize = Buffer.byteLength(text, "utf8");
     }
-    catch (error) {
-        progress.dispose();
-        throw error;
+    else {
+        const appName = (await fetchWorkflowAppName(workflow.source)) ?? workflow.name;
+        const progress = createStderrProgress(true);
+        progress.start(`正在执行 ${workflow.source} ${workflow.title}…`);
+        try {
+            result = await executeWorkflow({
+                source: workflow.source,
+                appName,
+                query,
+                onProgress: (received) => progress.update(received),
+            });
+        }
+        catch (error) {
+            progress.dispose();
+            throw error;
+        }
+        progress.finish("执行完成");
+        text = renderOutputsAsMarkdown(result.outputs, config.outputs);
+        ({ mdPath, mdSize } = writeResultMarkdown(text, workflow));
+        await saveRunRecord(recordPath, {
+            savedAt: Date.now(),
+            mdPath,
+            recordId: result.recordId,
+            outputs: result.outputs,
+        });
     }
-    progress.finish("执行完成");
-    const text = renderOutputsAsMarkdown(result.outputs, config.outputs);
-    const { mdPath, mdSize } = writeResultMarkdown(text, workflow);
     const payload = {
+        reused: Boolean(reused),
         source: workflow.source,
         title: workflow.title,
         // 分组 outputs 供 Agent 取用（如把上游输出转喂下游工作流）
@@ -173,6 +235,11 @@ export async function runWorkflowRun(options) {
         text,
         mdPath,
         mdSize,
+        artifact: {
+            path: mdPath,
+            filename: basename(mdPath),
+            mimeType: "text/markdown",
+        },
     };
     if (options.format === "json") {
         printOutput(wrapWorkbenchResult(payload, { step: "workflow-run", subType: workflow.source }, result.recordId ? { runRecordId: result.recordId } : undefined), "json");

package/cli/dist/modules/shared/workflow-app/command.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/cli/dist/modules/shared/workflow-app/form.d.ts CHANGED Viewed

@@ -6,7 +6,11 @@ export declare function componentLabel(component: WorkflowComponent): string;
  * 未知字段直接报错，避免拼错字段名后被后端静默忽略。
  */
 export declare function buildQuery(components: WorkflowComponent[], inputs: Record<string, unknown>): WorkflowQuery;
-/** 用表单默认值补全未填字段（含 hidden，hidden 统一以 hidden 类型提交） */
+/**
+ * 用表单默认值补全未填字段（含 hidden，hidden 统一以 hidden 类型提交）。
+ * 可见字段即使无值也以空串提交：后端工作流引用了未提交的变量会直接报
+ * 「Parameter invalid, the service has been stopped」（病因研究的 exposure_range2/type2 即此情况）。
+ */
 export declare function applyDefaults(components: WorkflowComponent[], query: WorkflowQuery): WorkflowQuery;
 /** 必填校验：只认后端显式 notNull === true */
 export declare function validateRequired(components: WorkflowComponent[], query: WorkflowQuery): void;

package/cli/dist/modules/shared/workflow-app/form.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
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1	+ {"version":3,"file":"form.d.ts","sourceRoot":"","sources":["../../../../src/modules/shared/workflow-app/form.ts"],"names":[],"mappings":"AAEA,OAAO,KAAK,EACV,kBAAkB,EAClB,iBAAiB,EACjB,aAAa,EAEd,MAAM,YAAY,CAAC;AAMpB,+BAA+B;AAC/B,wBAAgB,cAAc,CAAC,SAAS,EAAE,iBAAiB,GAAG,MAAM,CAEnE;AAiBD;;;GAGG;AACH,wBAAgB,UAAU,CACxB,UAAU,EAAE,iBAAiB,EAAE,EAC/B,MAAM,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,GAC9B,aAAa,CAsBf;AAED;;;;GAIG;AACH,wBAAgB,aAAa,CAC3B,UAAU,EAAE,iBAAiB,EAAE,EAC/B,KAAK,EAAE,aAAa,GACnB,aAAa,CAkBf;AAED,mCAAmC;AACnC,wBAAgB,gBAAgB,CAC9B,UAAU,EAAE,iBAAiB,EAAE,EAC/B,KAAK,EAAE,aAAa,GACnB,IAAI,CAgBN;AAED,6BAA6B;AAC7B,wBAAgB,iBAAiB,CAC/B,UAAU,EAAE,iBAAiB,EAAE,EAC/B,KAAK,EAAE,aAAa,GACnB,IAAI,CAcN;AAED,oCAAoC;AACpC,wBAAgB,oBAAoB,CAClC,UAAU,EAAE,iBAAiB,EAAE,EAC/B,KAAK,EAAE,aAAa,GACnB,IAAI,CAoBN;AAED,+CAA+C;AAC/C,wBAAgB,aAAa,CAC3B,KAAK,EAAE,aAAa,EACpB,MAAM,EAAE,SAAS,kBAAkB,EAAE,GAAG,SAAS,GAChD,IAAI,CAUN;AAED,0BAA0B;AAC1B,wBAAgB,YAAY,CAC1B,UAAU,EAAE,iBAAiB,EAAE,EAC/B,MAAM,EAAE,MAAM,CAAC,MAAM,EAAE,OAAO,CAAC,EAC/B,WAAW,CAAC,EAAE,SAAS,kBAAkB,EAAE,GAC1C,aAAa,CAOf"}

package/cli/dist/modules/shared/workflow-app/form.js CHANGED Viewed

@@ -41,7 +41,11 @@ export function buildQuery(components, inputs) {
     }
     return query;
 }
-/** 用表单默认值补全未填字段（含 hidden，hidden 统一以 hidden 类型提交） */
+/**
+ * 用表单默认值补全未填字段（含 hidden，hidden 统一以 hidden 类型提交）。
+ * 可见字段即使无值也以空串提交：后端工作流引用了未提交的变量会直接报
+ * 「Parameter invalid, the service has been stopped」（病因研究的 exposure_range2/type2 即此情况）。
+ */
 export function applyDefaults(components, query) {
     const merged = { ...query };
     for (const component of components) {
@@ -49,7 +53,7 @@ export function applyDefaults(components, query) {
             continue;
         }
         const content = defaultContent(component);
-        if (!content) {
+        if (!content && isHidden(component)) {
             continue;
         }
         merged[component.id] = {

package/cli/dist/modules/shared/workflow-app/form.js.map CHANGED Viewed

	@@ -1 +1 @@
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package/cli/dist/modules/shared/workflow-app/index.d.ts CHANGED Viewed

@@ -2,7 +2,7 @@ export { buildWorkflowAppHeaders, WORKFLOW_APP_EXECUTE_PATH, WORKFLOW_APP_DETAIL
 export { fetchWorkflowConfig, fetchWorkflowAppName } from "./api.js";
 export { applyDefaults, buildQuery, componentLabel, prepareQuery, validateAnyOf, validateMaxLength, validateRequired, validateSelectValues, } from "./form.js";
 export { executeWorkflow, renderOutputsAsMarkdown } from "./run.js";
-export { runWorkflowList, runWorkflowParams, runWorkflowRun, } from "./command.js";
+export { runWorkflowList, runWorkflowParams, runWorkflowRun, WORKFLOW_RUN_FRESH_HINT, } from "./command.js";
 export type { WorkflowDefinition } from "./command.js";
 export type { WorkflowAnyOfGroup, WorkflowComponent, WorkflowConfig, WorkflowExecuteBody, WorkflowExecuteResult, WorkflowFieldType, WorkflowOutput, WorkflowQuery, WorkflowQueryField, WorkflowSelectOption, } from "./types.js";
 //# sourceMappingURL=index.d.ts.map

package/cli/dist/modules/shared/workflow-app/index.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
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1	+ {"version":3,"file":"index.d.ts","sourceRoot":"","sources":["../../../../src/modules/shared/workflow-app/index.ts"],"names":[],"mappings":"AACA,OAAO,EACL,uBAAuB,EACvB,yBAAyB,EACzB,wBAAwB,EACxB,0BAA0B,EAC1B,0BAA0B,GAC3B,MAAM,gBAAgB,CAAC;AACxB,OAAO,EAAE,mBAAmB,EAAE,oBAAoB,EAAE,MAAM,UAAU,CAAC;AACrE,OAAO,EACL,aAAa,EACb,UAAU,EACV,cAAc,EACd,YAAY,EACZ,aAAa,EACb,iBAAiB,EACjB,gBAAgB,EAChB,oBAAoB,GACrB,MAAM,WAAW,CAAC;AACnB,OAAO,EAAE,eAAe,EAAE,uBAAuB,EAAE,MAAM,UAAU,CAAC;AACpE,OAAO,EACL,eAAe,EACf,iBAAiB,EACjB,cAAc,EACd,uBAAuB,GACxB,MAAM,cAAc,CAAC;AACtB,YAAY,EAAE,kBAAkB,EAAE,MAAM,cAAc,CAAC;AACvD,YAAY,EACV,kBAAkB,EAClB,iBAAiB,EACjB,cAAc,EACd,mBAAmB,EACnB,qBAAqB,EACrB,iBAAiB,EACjB,cAAc,EACd,aAAa,EACb,kBAAkB,EAClB,oBAAoB,GACrB,MAAM,YAAY,CAAC"}

package/cli/dist/modules/shared/workflow-app/index.js CHANGED Viewed

@@ -3,5 +3,5 @@ export { buildWorkflowAppHeaders, WORKFLOW_APP_EXECUTE_PATH, WORKFLOW_APP_DETAIL
 export { fetchWorkflowConfig, fetchWorkflowAppName } from "./api.js";
 export { applyDefaults, buildQuery, componentLabel, prepareQuery, validateAnyOf, validateMaxLength, validateRequired, validateSelectValues, } from "./form.js";
 export { executeWorkflow, renderOutputsAsMarkdown } from "./run.js";
-export { runWorkflowList, runWorkflowParams, runWorkflowRun, } from "./command.js";
+export { runWorkflowList, runWorkflowParams, runWorkflowRun, WORKFLOW_RUN_FRESH_HINT, } from "./command.js";
 //# sourceMappingURL=index.js.map

package/cli/dist/modules/shared/workflow-app/index.js.map CHANGED Viewed

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package/cli/dist/modules/shared/workflow-app/run.d.ts.map CHANGED Viewed

	@@ -1 +1 @@
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package/cli/dist/modules/shared/workflow-app/run.js CHANGED Viewed

@@ -1,18 +1,14 @@
 // 工作流执行：POST SSE，按 output id 收集结果
-import { ApiClient, collectOutputs, extractRecordId, helixlifeError, helixlifeErrorCode, } from "../../../core/index.js";
+import { ApiClient, collectOutputs, createSseErrorEventError, extractRecordId, helixlifeError, helixlifeErrorCode, } from "../../../core/index.js";
 import { buildWorkflowAppHeaders, WORKFLOW_APP_EXECUTE_PATH, WORKFLOW_APP_RESPONSE_MODE, } from "./constants.js";
 /** 终端事件：正常结束发 end_message，流关闭发 done */
 const TERMINAL_EVENTS = new Set(["end_message", "done"]);
 /** 后端把业务失败放在 error 事件里，HTTP 状态仍为 200，必须逐条检查 */
 function assertNoErrorEvent(events) {
     for (const event of events) {
-        if (event.event !== "error") {
-            continue;
+        if (event.event === "error") {
+            throw createSseErrorEventError(event, "工作流执行失败");
         }
-        const message = (typeof event.message === "string" && event.message) ||
-            (typeof event.err_msg === "string" && event.err_msg) ||
-            "工作流执行失败";
-        throw new helixlifeError(helixlifeErrorCode.REQUEST_FAILED, message);
     }
 }
 export async function executeWorkflow(options) {

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package/package.json CHANGED Viewed

@@ -1,6 +1,6 @@
 {
   "name": "helixlife-expert-cli",
-  "version": "0.2.0",
+  "version": "0.3.1",
   "type": "module",
   "description": "helixlife 科研专家合集后台命令行工具",
   "bin": {
@@ -18,6 +18,7 @@
     "typecheck": "tsc -p cli/tsconfig.json --noEmit",
     "test": "tsx --test cli/tests/*.test.ts",
     "sync:skills": "node scripts/sync-skills.mjs",
+    "pack:skill": "node scripts/pack-skill.mjs",
     "prepublishOnly": "npm run build"
   },
   "dependencies": {