fix: skills not bundled and resumeLastSession ignored (FAR-56, FAR-57)

Two bugs prevented skill content from reaching K8s Job prompts, and
resumeLastSession: false was silently ignored.

Skills fix (execute.ts, FAR-57):
- Add /paperclip/.claude/skills as additional candidate to
  readPaperclipRuntimeSkillEntries — the relative candidates in
  adapter-utils don't resolve to the PVC-mounted skills home
- Read entry.source/SKILL.md instead of entry.source (which is a
  directory path); fall back to source directly for file-based entries
- Mock readPaperclipRuntimeSkillEntries in execute.test.ts to prevent
  real SKILL.md reads from delaying fake-timer registration

Session fix (job-manifest.ts, FAR-56):
- Gate --session flag on asBoolean(config.resumeLastSession, true)
  so setting resumeLastSession: false actually stops session resumption
- Default true preserves existing behaviour for agents without config

Co-Authored-By: Claude Sonnet 4.6 <noreply@anthropic.com>

src/server/execute.test.ts

@@ -16,6 +16,13 @@ vi.mock("./job-manifest.js", () => ({
   LARGE_PROMPT_THRESHOLD_BYTES: 256 * 1024,
 }));
 
+// Prevent skill loading from reading real SKILL.md files during tests — the
+// real filesystem read delays timer registration and breaks fake-timer tests.
+vi.mock("@paperclipai/adapter-utils/server-utils", async (importOriginal) => {
+  const actual = await importOriginal<typeof import("@paperclipai/adapter-utils/server-utils")>();
+  return { ...actual, readPaperclipRuntimeSkillEntries: vi.fn().mockResolvedValue([]) };
+});
+
 const MOCK_SELF_POD = {
   namespace: "test-ns",
   image: "test-image:latest",

src/server/execute.ts

@@ -2,6 +2,7 @@ import type { AdapterExecutionContext, AdapterExecutionResult } from "@paperclip
 import { inferOpenAiCompatibleBiller, redactHomePathUserSegments } from "@paperclipai/adapter-utils";
 import { asString, asNumber, asBoolean, parseObject, readPaperclipRuntimeSkillEntries, resolvePaperclipDesiredSkillNames } from "@paperclipai/adapter-utils/server-utils";
 import { readFile } from "node:fs/promises";
+import path from "node:path";
 import {
   parseOpenCodeJsonl,
   isOpenCodeUnknownSessionError,
@@ -928,14 +929,24 @@ export async function execute(ctx: AdapterExecutionContext): Promise<AdapterExec
   let skillsBundleContent = "";
   try {
     const moduleDir = import.meta.dirname;
-    const availableEntries = await readPaperclipRuntimeSkillEntries(config, moduleDir);
+    // Add the standard Paperclip skills dir as an additional candidate — the relative
+    // candidates in adapter-utils don't resolve to the PVC-mounted skills home.
+    const paperclipSkillsHome = "/paperclip/.claude/skills";
+    const availableEntries = await readPaperclipRuntimeSkillEntries(config, moduleDir, [paperclipSkillsHome]);
     const desiredSkillKeys = resolvePaperclipDesiredSkillNames(config, availableEntries);
     const skillTexts: string[] = [];
     for (const key of desiredSkillKeys) {
       const entry = availableEntries.find((e) => e.key === key);
       if (entry?.source) {
         try {
-          const text = (await readFile(entry.source, "utf-8")).trim();
+          // entry.source from listPaperclipSkillEntries is a directory; read SKILL.md from it.
+          // Fall back to reading entry.source directly for file-based paperclipRuntimeSkills entries.
+          let text: string;
+          try {
+            text = (await readFile(path.join(entry.source, "SKILL.md"), "utf-8")).trim();
+          } catch {
+            text = (await readFile(entry.source, "utf-8")).trim();
+          }
           if (text) skillTexts.push(text);
         } catch {
           // skip unreadable skill files — non-fatal

src/server/job-manifest.ts

@@ -286,7 +286,9 @@ export function buildJobManifest(input: JobBuildInput): JobBuildResult {
 
   // Build opencode CLI args
   const opencodeArgs = ["run", "--format", "json"];
-  if (runtimeSessionId) opencodeArgs.push("--session", runtimeSessionId);
+  // resumeLastSession defaults to true (preserve existing behaviour); set to false to start fresh.
+  const resumeLastSession = asBoolean(config.resumeLastSession, true);
+  if (runtimeSessionId && resumeLastSession) opencodeArgs.push("--session", runtimeSessionId);
   if (model) opencodeArgs.push("--model", model);
   if (variant) opencodeArgs.push("--variant", variant);
   if (extraArgs.length > 0) opencodeArgs.push(...extraArgs);