From 82f3015de42e1b7318052cbf5799999a469a2e79 Mon Sep 17 00:00:00 2001
From: Sebastian Benjamin <sebastiancbenjamin@gmail.com>
Date: Fri, 15 Aug 2025 15:06:23 -0700
Subject: [PATCH 1/8] Swap from pkg to npm sea for jbrowse-cli

---
 jbrowse/build.gradle                          |   2 +-
 jbrowse/package.json                          |   8 +-
 jbrowse/resources/external/build-sea.mjs      | 120 ++++++++++++++++++
 .../external/fetch-jbrowse-bundle.mjs         |  34 +++++
 4 files changed, 160 insertions(+), 4 deletions(-)
 create mode 100644 jbrowse/resources/external/build-sea.mjs
 create mode 100644 jbrowse/resources/external/fetch-jbrowse-bundle.mjs

diff --git a/jbrowse/build.gradle b/jbrowse/build.gradle
index a3979a973..84f030ed8 100644
--- a/jbrowse/build.gradle
+++ b/jbrowse/build.gradle
@@ -30,7 +30,7 @@ dependencies {
 	external "org.apache.lucene:lucene-backward-codecs:${luceneVersion}"
 }
 
-def jbPkgTask = project.tasks.named("npm_run_jb-pkg")
+def jbPkgTask = project.tasks.named("npm_run_jb-sea")
 
 jbPkgTask.configure {
     outputs.cacheIf {false}
diff --git a/jbrowse/package.json b/jbrowse/package.json
index 3807eef04..6a03583d8 100644
--- a/jbrowse/package.json
+++ b/jbrowse/package.json
@@ -10,16 +10,17 @@
     "build-dev": "npm run build-no-pkg",
     "build-prod": "npm run clean && cross-env NODE_ENV=production PROD_SOURCE_MAP=source-map webpack --config ./config/prod.config.js --progress --profile",
     "clean": "rimraf resources/web/gen && rimraf resources/web/jbrowse/gen && rimraf resources/views/gen",
-    "prepareCli": "rimraf ./buildCli && rimraf ./resources/external/jb-cli && npm install @jbrowse/cli@1.7.4 --prefix ./buildCli",
-    "jb-pkg": "npm run prepareCli && npx pkg --outdir=./resources/external/jb-cli ./buildCli/node_modules/@jbrowse/cli && rimraf ./buildCli"
+    "jb-sea:fetch": "node ./resources/external/fetch-jbrowse-bundle.mjs",
+    "jb-sea:build": "node ./resources/external/build-sea.mjs ./resources/external/jbrowse.js",
+    "jb-sea": "npm run jb-sea:fetch && npm run jb-sea:build"
   },
   "dependencies": {
     "@gmod/vcf": "^6.0.9",
     "@jbrowse/core": "^3.2.0",
-    "@jbrowse/product-core": "^3.2.0",
     "@jbrowse/plugin-linear-genome-view": "^3.2.0",
     "@jbrowse/plugin-svg": "^3.2.0",
     "@jbrowse/plugin-variants": "^3.2.0",
+    "@jbrowse/product-core": "^3.2.0",
     "@jbrowse/react-linear-genome-view2": "^3.2.0",
     "@labkey/api": "^1.39.0",
     "@labkey/components": "^6.32.2",
@@ -54,6 +55,7 @@
     "@types/react": "^18.3.0",
     "@types/react-dom": "^18.3.0",
     "rimraf": "^6.0.1",
+    "tar": "^6.2.1",
     "typescript": "^5.1.6"
   }
 }
diff --git a/jbrowse/resources/external/build-sea.mjs b/jbrowse/resources/external/build-sea.mjs
new file mode 100644
index 000000000..2e64f882f
--- /dev/null
+++ b/jbrowse/resources/external/build-sea.mjs
@@ -0,0 +1,120 @@
+import { execFileSync, execSync, spawnSync } from 'node:child_process';
+import { copyFileSync, chmodSync, existsSync, mkdirSync, rmSync, renameSync, writeFileSync } from 'node:fs';
+import { basename, join, resolve } from 'node:path';
+
+const input = process.argv[2];
+if (!input) {
+  console.error('Usage: node build-sea.mjs <input.js> [outputBaseName]');
+  process.exit(1);
+}
+const inputAbs = resolve(input);
+const baseName = process.argv[3] || basename(input, '.js');
+
+const ROOT = resolve('.');
+const OUTDIR = join(ROOT, 'resources', 'external', 'jb-cli');
+mkdirSync(OUTDIR, { recursive: true });
+
+const platform = process.platform; // 'win32' | 'darwin' | 'linux'
+const outName =
+  platform === 'win32' ? 'cli-win.exe' :
+  platform === 'darwin' ? 'cli-macos' : 'cli-linux';
+
+const tmpCfg = 'sea-config.json';
+const tmpBlob = 'sea-prep.blob';
+const tmpOut = `${baseName}${platform === 'win32' ? '.exe' : ''}`;
+
+console.log(`SEA build: ${inputAbs} -> ${join(OUTDIR, outName)} [${platform}]`);
+
+// 1) Create SEA config
+const cfg = {
+  main: inputAbs,
+  output: tmpBlob,
+  disableExperimentalSEAWarning: true,
+};
+writeFileSync(tmpCfg, JSON.stringify(cfg, null, 2));
+
+// 2) Produce blob
+execFileSync(process.execPath, ['--experimental-sea-config', tmpCfg], { stdio: 'inherit' });
+
+// 3) Copy current Node runtime as the base executable
+copyFileSync(process.execPath, tmpOut);
+
+// 4) Remove signature (it'll be invalid once we postject the Jbrowse CLI into the node runtime executable)
+if (platform === 'darwin') {
+  try { spawnSync('codesign', ['--remove-signature', tmpOut], { stdio: 'inherit' }); } catch {}
+}
+if (platform === 'win32') {
+  try { spawnSync('signtool', ['remove', '/s', tmpOut], { stdio: 'inherit' }); } catch {}
+}
+
+// Helper: run postject with multiple fallbacks
+function runPostject(argsList) {
+  const isWin = platform === 'win32';
+  const npxCmd = isWin ? 'npx.cmd' : 'npx';
+  const npmCmd = isWin ? 'npm.cmd' : 'npm';
+  const postjectPkg = 'postject@1.0.0-alpha.6';
+
+  // Attempt 1: npx (execFileSync)
+  try {
+    execFileSync(npxCmd, ['--yes', postjectPkg, ...argsList], { stdio: 'inherit' });
+    return;
+  } catch (e1) {
+    console.warn('[postject] npx (execFileSync) failed, trying npm exec…');
+    // Attempt 2: npm exec (execFileSync)
+    try {
+      execFileSync(npmCmd, ['exec', '-y', postjectPkg, '--', ...argsList], { stdio: 'inherit' });
+      return;
+    } catch (e2) {
+      console.warn('[postject] npm exec (execFileSync) failed, trying shell npx…');
+      // Attempt 3: npx via shell (execSync)
+      try {
+        const cmd = `npx --yes ${postjectPkg} ${argsList.map(a => `"${a}"`).join(' ')}`;
+        execSync(cmd, { stdio: 'inherit', shell: true });
+        return;
+      } catch (e3) {
+        console.warn('[postject] shell npx failed, trying shell npm exec…');
+        // Attempt 4: npm exec via shell (execSync)
+        const cmd2 = `npm exec -y ${postjectPkg} -- ${argsList.map(a => `"${a}"`).join(' ')}`;
+        execSync(cmd2, { stdio: 'inherit', shell: true });
+      }
+    }
+  }
+}
+
+// Postject magic from the docs to do the jbrowse->node appending
+const SENTINEL = 'NODE_SEA_FUSE_fce680ab2cc467b6e072b8b5df1996b2';
+const postjectArgs = platform === 'darwin'
+  ? [tmpOut, 'NODE_SEA_BLOB', tmpBlob, '--sentinel-fuse', SENTINEL, '--macho-segment-name', 'NODE_SEA']
+  : [tmpOut, 'NODE_SEA_BLOB', tmpBlob, '--sentinel-fuse', SENTINEL];
+
+// 5) Inject the SEA blob
+runPostject(postjectArgs);
+
+// 6) Re-sign for the new combined executable
+if (platform === 'darwin') {
+  try { spawnSync('codesign', ['--sign', '-', tmpOut], { stdio: 'inherit' }); } catch {}
+}
+if (platform === 'win32') {
+  try { spawnSync('signtool', ['sign', '/fd', 'SHA256', tmpOut], { stdio: 'inherit' }); } catch {}
+}
+
+// 7) POSIX chmod
+if (platform !== 'win32') {
+  chmodSync(tmpOut, 0o755);
+}
+
+// 8) Move to final destination
+const finalPath = join(OUTDIR, outName);
+if (existsSync(finalPath)) rmSync(finalPath, { force: true });
+renameSync(tmpOut, finalPath);
+
+// 9) Cleanup
+rmSync(tmpCfg, { force: true });
+rmSync(tmpBlob, { force: true });
+
+const jbrowseJsPath = join(ROOT, 'resources', 'external', 'jbrowse.js');
+if (existsSync(jbrowseJsPath)) {
+  rmSync(jbrowseJsPath, { force: true });
+}
+
+console.log(`Done: ${finalPath}`);
\ No newline at end of file
diff --git a/jbrowse/resources/external/fetch-jbrowse-bundle.mjs b/jbrowse/resources/external/fetch-jbrowse-bundle.mjs
new file mode 100644
index 000000000..1c67ca249
--- /dev/null
+++ b/jbrowse/resources/external/fetch-jbrowse-bundle.mjs
@@ -0,0 +1,34 @@
+import { execSync } from 'node:child_process';
+import { existsSync, mkdirSync, copyFileSync, rmSync } from 'node:fs';
+import { join, resolve } from 'node:path';
+import tar from 'tar';
+
+const ROOT = resolve('.');
+const BUILD = join(ROOT, 'buildCli');
+const OUTDIR = join(ROOT, 'resources', 'external');
+const OUTFILE = join(OUTDIR, 'jbrowse.js');
+
+if (existsSync(BUILD)) rmSync(BUILD, { recursive: true, force: true });
+mkdirSync(BUILD, { recursive: true });
+mkdirSync(OUTDIR, { recursive: true });
+
+console.log('Packing @jbrowse/cli (latest)…');
+const out = execSync('npm pack @jbrowse/cli', { cwd: BUILD, stdio: ['ignore', 'pipe', 'inherit'] }).toString().trim();
+
+// npm outputs the filename on stdout, e.g. "jbrowse-cli-3.6.4.tgz"
+const tgz = join(BUILD, out);
+console.log(`Downloaded: ${tgz}`);
+
+console.log('Extracting tarball…');
+await tar.x({ file: tgz, cwd: BUILD });
+
+const bundled = join(BUILD, 'package', 'bundle', 'index.js');
+if (!existsSync(bundled)) {
+  throw new Error(`bundle/index.js not found at ${bundled}`);
+}
+
+copyFileSync(bundled, OUTFILE);
+
+rmSync(BUILD, { recursive: true, force: true });
+
+console.log(`Copied bundle to ${OUTFILE}`);
\ No newline at end of file

From 126cd35bceddf3a9eb44556387a8c7a4f5db1e90 Mon Sep 17 00:00:00 2001
From: Sebastian Benjamin <sebastiancbenjamin@gmail.com>
Date: Fri, 15 Aug 2025 15:46:36 -0700
Subject: [PATCH 2/8] Update tar version to latest

---
 jbrowse/package.json | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/jbrowse/package.json b/jbrowse/package.json
index 6a03583d8..eaa865aa1 100644
--- a/jbrowse/package.json
+++ b/jbrowse/package.json
@@ -55,7 +55,7 @@
     "@types/react": "^18.3.0",
     "@types/react-dom": "^18.3.0",
     "rimraf": "^6.0.1",
-    "tar": "^6.2.1",
+    "tar": "^7.4.3",
     "typescript": "^5.1.6"
   }
 }

From 8224e1a4d389143b78f959cd8c974b6175e469fa Mon Sep 17 00:00:00 2001
From: Sebastian Benjamin <sebastiancbenjamin@gmail.com>
Date: Tue, 19 Aug 2025 11:33:34 -0700
Subject: [PATCH 3/8] Add fallback for tar package

---
 .../external/fetch-jbrowse-bundle.mjs         | 59 +++++++++++++------
 1 file changed, 41 insertions(+), 18 deletions(-)

diff --git a/jbrowse/resources/external/fetch-jbrowse-bundle.mjs b/jbrowse/resources/external/fetch-jbrowse-bundle.mjs
index 1c67ca249..04623fe0b 100644
--- a/jbrowse/resources/external/fetch-jbrowse-bundle.mjs
+++ b/jbrowse/resources/external/fetch-jbrowse-bundle.mjs
@@ -1,34 +1,57 @@
 import { execSync } from 'node:child_process';
 import { existsSync, mkdirSync, copyFileSync, rmSync } from 'node:fs';
 import { join, resolve } from 'node:path';
-import tar from 'tar';
 
 const ROOT = resolve('.');
 const BUILD = join(ROOT, 'buildCli');
 const OUTDIR = join(ROOT, 'resources', 'external');
 const OUTFILE = join(OUTDIR, 'jbrowse.js');
 
-if (existsSync(BUILD)) rmSync(BUILD, { recursive: true, force: true });
-mkdirSync(BUILD, { recursive: true });
-mkdirSync(OUTDIR, { recursive: true });
+async function extractTgz(tgzPath, cwd) {
+  try {
+    const mod = await import('tar').catch(() => null);
+    const tar = mod?.default ?? mod;
+    if (tar?.x) {
+      await tar.x({ file: tgzPath, cwd });
+      return;
+    }
+  } catch {
+  }
+  execSync(`tar -xzf "${tgzPath}" -C "${cwd}"`, { stdio: 'inherit', shell: true });
+}
 
-console.log('Packing @jbrowse/cli (latest)…');
-const out = execSync('npm pack @jbrowse/cli', { cwd: BUILD, stdio: ['ignore', 'pipe', 'inherit'] }).toString().trim();
+async function main() {
+  if (existsSync(BUILD)) rmSync(BUILD, { recursive: true, force: true });
+  mkdirSync(BUILD, { recursive: true });
+  mkdirSync(OUTDIR, { recursive: true });
 
-// npm outputs the filename on stdout, e.g. "jbrowse-cli-3.6.4.tgz"
-const tgz = join(BUILD, out);
-console.log(`Downloaded: ${tgz}`);
+  console.log('Packing @jbrowse/cli (latest)…');
+  const out = execSync('npm pack @jbrowse/cli', {
+    cwd: BUILD,
+    stdio: ['ignore', 'pipe', 'inherit'],
+    shell: true,
+  })
+    .toString()
+    .trim();
 
-console.log('Extracting tarball…');
-await tar.x({ file: tgz, cwd: BUILD });
+  const tgz = join(BUILD, out);
+  console.log(`Downloaded: ${tgz}`);
 
-const bundled = join(BUILD, 'package', 'bundle', 'index.js');
-if (!existsSync(bundled)) {
-  throw new Error(`bundle/index.js not found at ${bundled}`);
-}
+  console.log('Extracting tarball…');
+  await extractTgz(tgz, BUILD);
 
-copyFileSync(bundled, OUTFILE);
+  const bundled = join(BUILD, 'package', 'bundle', 'index.js');
+  if (!existsSync(bundled)) {
+    throw new Error(`bundle/index.js not found at ${bundled}`);
+  }
 
-rmSync(BUILD, { recursive: true, force: true });
+  copyFileSync(bundled, OUTFILE);
+  console.log(`Copied bundle to ${OUTFILE}`);
+
+  rmSync(BUILD, { recursive: true, force: true });
+}
 
-console.log(`Copied bundle to ${OUTFILE}`);
\ No newline at end of file
+main().catch(err => {
+  console.error(err);
+  process.exit(1);
+});

From c098789b0c760d7cc03d521bbc75e1209a3b55a7 Mon Sep 17 00:00:00 2001
From: Sebastian Benjamin <sebastiancbenjamin@gmail.com>
Date: Tue, 19 Aug 2025 15:47:10 -0700
Subject: [PATCH 4/8] Build from any host to any target and fix JBrowseManager
 test

---
 jbrowse/resources/external/build-sea.mjs      | 249 +++++++++++-------
 .../org/labkey/jbrowse/JBrowseManager.java    |   2 +-
 2 files changed, 158 insertions(+), 93 deletions(-)

diff --git a/jbrowse/resources/external/build-sea.mjs b/jbrowse/resources/external/build-sea.mjs
index 2e64f882f..ad105f4e1 100644
--- a/jbrowse/resources/external/build-sea.mjs
+++ b/jbrowse/resources/external/build-sea.mjs
@@ -1,120 +1,185 @@
+// Build SEA for all platforms (win/linux/macos) from any host.
+// - Creates sea-prep.blob once from resources/external/jbrowse.js
+// - Downloads official Node runtimes for the same Node version as process.execPath
+// - Injects the blob into each runtime with postject
+// - Writes outputs to resources/external/jb-cli:
+//     cli-win.exe, cli-linux, cli-macos
+// - Cleans up temp files and resources/external/jbrowse.js at the end
+
 import { execFileSync, execSync, spawnSync } from 'node:child_process';
-import { copyFileSync, chmodSync, existsSync, mkdirSync, rmSync, renameSync, writeFileSync } from 'node:fs';
+import {
+  copyFileSync, chmodSync, existsSync, mkdirSync, rmSync, renameSync, writeFileSync
+} from 'node:fs';
 import { basename, join, resolve } from 'node:path';
-
-const input = process.argv[2];
-if (!input) {
-  console.error('Usage: node build-sea.mjs <input.js> [outputBaseName]');
-  process.exit(1);
-}
-const inputAbs = resolve(input);
-const baseName = process.argv[3] || basename(input, '.js');
+import https from 'node:https';
+import { createWriteStream } from 'node:fs';
 
 const ROOT = resolve('.');
 const OUTDIR = join(ROOT, 'resources', 'external', 'jb-cli');
-mkdirSync(OUTDIR, { recursive: true });
-
-const platform = process.platform; // 'win32' | 'darwin' | 'linux'
-const outName =
-  platform === 'win32' ? 'cli-win.exe' :
-  platform === 'darwin' ? 'cli-macos' : 'cli-linux';
-
-const tmpCfg = 'sea-config.json';
-const tmpBlob = 'sea-prep.blob';
-const tmpOut = `${baseName}${platform === 'win32' ? '.exe' : ''}`;
+const TMPDIR = join(ROOT, '.sea-tmp');
+const INPUT_JS = join(ROOT, 'resources', 'external', 'jbrowse.js');
+
+const NODE_VERSION = process.versions.node;
+const DIST_BASE = process.env.NODE_DIST_URL || 'https://nodejs.org/dist';
+const TARGETS = [
+  ['win-x64',   'cli-win.exe', 'zip'],
+  ['linux-x64', 'cli-linux',   'tar.xz'],
+  ['darwin-x64','cli-macos',   'tar.xz'],
+  // ['darwin-arm64','cli-macos-arm64','tar.xz'],
+  // ['linux-arm64','cli-linux-arm64','tar.xz'],
+];
 
-console.log(`SEA build: ${inputAbs} -> ${join(OUTDIR, outName)} [${platform}]`);
+const SENTINEL = 'NODE_SEA_FUSE_fce680ab2cc467b6e072b8b5df1996b2';
+const POSTJECT_PKG = 'postject@1.0.0-alpha.6';
 
-// 1) Create SEA config
-const cfg = {
-  main: inputAbs,
-  output: tmpBlob,
-  disableExperimentalSEAWarning: true,
-};
-writeFileSync(tmpCfg, JSON.stringify(cfg, null, 2));
+function log(s){ console.log(s); }
+function warn(s){ console.warn(s); }
+function fail(e){ console.error(e); process.exit(1); }
 
-// 2) Produce blob
-execFileSync(process.execPath, ['--experimental-sea-config', tmpCfg], { stdio: 'inherit' });
+function ensureDirs(){
+  mkdirSync(OUTDIR, { recursive: true });
+  mkdirSync(TMPDIR, { recursive: true });
+}
 
-// 3) Copy current Node runtime as the base executable
-copyFileSync(process.execPath, tmpOut);
+function httpDownload(url, dest){
+  return new Promise((resolveP, rejectP)=>{
+    const file = createWriteStream(dest);
+    https.get(url, res=>{
+      if(res.statusCode && res.statusCode >= 300 && res.statusCode < 400 && res.headers.location){
+        httpDownload(res.headers.location, dest).then(resolveP, rejectP);
+        return;
+      }
+      if(res.statusCode !== 200){
+        rejectP(new Error(`Download failed ${res.statusCode}: ${url}`));
+        return;
+      }
+      res.pipe(file);
+      file.on('finish', ()=>file.close(()=>resolveP(void 0)));
+    }).on('error', err=>{ rejectP(err); });
+  });
+}
 
-// 4) Remove signature (it'll be invalid once we postject the Jbrowse CLI into the node runtime executable)
-if (platform === 'darwin') {
-  try { spawnSync('codesign', ['--remove-signature', tmpOut], { stdio: 'inherit' }); } catch {}
+function runOrThrow(cmd, args, opts={}){
+  execFileSync(cmd, args, { stdio: 'inherit', ...opts });
 }
-if (platform === 'win32') {
-  try { spawnSync('signtool', ['remove', '/s', tmpOut], { stdio: 'inherit' }); } catch {}
+
+function shellOrThrow(command){
+  execSync(command, { stdio: 'inherit', shell: true });
 }
 
-// Helper: run postject with multiple fallbacks
-function runPostject(argsList) {
-  const isWin = platform === 'win32';
+// postject runner with fallbacks
+function runPostject(args){
+  const isWin = process.platform === 'win32';
   const npxCmd = isWin ? 'npx.cmd' : 'npx';
   const npmCmd = isWin ? 'npm.cmd' : 'npm';
-  const postjectPkg = 'postject@1.0.0-alpha.6';
-
-  // Attempt 1: npx (execFileSync)
-  try {
-    execFileSync(npxCmd, ['--yes', postjectPkg, ...argsList], { stdio: 'inherit' });
-    return;
-  } catch (e1) {
-    console.warn('[postject] npx (execFileSync) failed, trying npm exec…');
-    // Attempt 2: npm exec (execFileSync)
-    try {
-      execFileSync(npmCmd, ['exec', '-y', postjectPkg, '--', ...argsList], { stdio: 'inherit' });
-      return;
-    } catch (e2) {
-      console.warn('[postject] npm exec (execFileSync) failed, trying shell npx…');
-      // Attempt 3: npx via shell (execSync)
-      try {
-        const cmd = `npx --yes ${postjectPkg} ${argsList.map(a => `"${a}"`).join(' ')}`;
-        execSync(cmd, { stdio: 'inherit', shell: true });
-        return;
-      } catch (e3) {
-        console.warn('[postject] shell npx failed, trying shell npm exec…');
-        // Attempt 4: npm exec via shell (execSync)
-        const cmd2 = `npm exec -y ${postjectPkg} -- ${argsList.map(a => `"${a}"`).join(' ')}`;
-        execSync(cmd2, { stdio: 'inherit', shell: true });
-      }
-    }
-  }
+  try { runOrThrow(npxCmd, ['--yes', POSTJECT_PKG, ...args]); return; }
+  catch{ warn('[postject] npx failed, trying npm exec…'); }
+  try { runOrThrow(npmCmd, ['exec', '-y', POSTJECT_PKG, '--', ...args]); return; }
+  catch{ warn('[postject] npm exec failed, trying shell npx…'); }
+  try { shellOrThrow(`npx --yes ${POSTJECT_PKG} ${args.map(a=>`"${a}"`).join(' ')}`); return; }
+  catch{ warn('[postject] shell npx failed, trying shell npm exec…'); }
+  shellOrThrow(`npm exec -y ${POSTJECT_PKG} -- ${args.map(a=>`"${a}"`).join(' ')}`);
 }
 
-// Postject magic from the docs to do the jbrowse->node appending
-const SENTINEL = 'NODE_SEA_FUSE_fce680ab2cc467b6e072b8b5df1996b2';
-const postjectArgs = platform === 'darwin'
-  ? [tmpOut, 'NODE_SEA_BLOB', tmpBlob, '--sentinel-fuse', SENTINEL, '--macho-segment-name', 'NODE_SEA']
-  : [tmpOut, 'NODE_SEA_BLOB', tmpBlob, '--sentinel-fuse', SENTINEL];
+function extractZip(zipPath, outDir){
+  if (process.platform === 'win32') {
+    shellOrThrow(`powershell -NoProfile -Command "Expand-Archive -Force '${zipPath.replace(/'/g, "''")}' '${outDir.replace(/'/g, "''")}'"`);
+  } else {
+    shellOrThrow(`unzip -o "${zipPath}" -d "${outDir}"`);
+  }
+}
 
-// 5) Inject the SEA blob
-runPostject(postjectArgs);
+// extract only bin/node from tar.xz to avoid symlink issues on Windows
+function extractNodeFromTarXz(tarxzPath, outDir, target) {
+  const innerPath = `node-v${NODE_VERSION}-${target}/bin/node`;
+  try { shellOrThrow(`tar -xJf "${tarxzPath}" -C "${outDir}" "${innerPath}"`); }
+  catch { shellOrThrow(`bsdtar -xf "${tarxzPath}" -C "${outDir}" "${innerPath}"`); }
+  return join(outDir, innerPath);
+}
 
-// 6) Re-sign for the new combined executable
-if (platform === 'darwin') {
-  try { spawnSync('codesign', ['--sign', '-', tmpOut], { stdio: 'inherit' }); } catch {}
+function nodeBinaryPathFromExtract(dir, target){
+  const base = `node-v${NODE_VERSION}-${target}`;
+  if (target.startsWith('win')) return join(dir, base, 'node.exe');
+  return join(dir, base, 'bin', 'node');
 }
-if (platform === 'win32') {
-  try { spawnSync('signtool', ['sign', '/fd', 'SHA256', tmpOut], { stdio: 'inherit' }); } catch {}
+
+function injectForTarget(target, outName, archiveExt, blobPath){
+  const distUrl = `${DIST_BASE}/v${NODE_VERSION}/node-v${NODE_VERSION}-${target}.${archiveExt}`;
+  const dlPath = join(TMPDIR, `node-${target}.${archiveExt}`);
+
+  log(`\n=== Target ${target} ===`);
+  log(`Downloading: ${distUrl}`);
+  httpDownload(distUrl, dlPath).then(()=>{
+    log('Extracting…');
+    let nodePath;
+    if (archiveExt === 'zip') {
+      extractZip(dlPath, TMPDIR);
+      nodePath = nodeBinaryPathFromExtract(TMPDIR, target);
+    } else {
+      nodePath = extractNodeFromTarXz(dlPath, TMPDIR, target);
+    }
+    if (!existsSync(nodePath)) fail(`node binary not found in ${nodePath}`);
+
+    const workExe = join(TMPDIR, `work-${outName}`);
+    copyFileSync(nodePath, workExe);
+
+    const postjectArgs = target.startsWith('darwin')
+      ? [workExe, 'NODE_SEA_BLOB', blobPath, '--sentinel-fuse', SENTINEL, '--macho-segment-name', 'NODE_SEA']
+      : [workExe, 'NODE_SEA_BLOB', blobPath, '--sentinel-fuse', SENTINEL];
+
+    log('Injecting SEA blob…');
+    runPostject(postjectArgs);
+
+    if (!target.startsWith('win')) chmodSync(workExe, 0o755);
+
+    const finalPath = join(OUTDIR, outName);
+    if (existsSync(finalPath)) rmSync(finalPath, { force: true });
+    renameSync(workExe, finalPath);
+
+    rmSync(dlPath, { force: true });
+    try { rmSync(join(TMPDIR, `node-v${NODE_VERSION}-${target}`), { recursive: true, force: true }); } catch {}
+    log(`Wrote ${finalPath}`);
+  }).catch(fail);
 }
 
-// 7) POSIX chmod
-if (platform !== 'win32') {
-  chmodSync(tmpOut, 0o755);
+function buildBlobOnce(){
+  const cfgPath = join(TMPDIR, 'sea-config.json');
+  const blobPath = join(TMPDIR, 'sea-prep.blob');
+  log('Creating SEA blob…');
+  const cfg = { main: INPUT_JS, output: blobPath, disableExperimentalSEAWarning: true };
+  writeFileSync(cfgPath, JSON.stringify(cfg, null, 2));
+  runOrThrow(process.execPath, ['--experimental-sea-config', cfgPath]);
+  return blobPath;
 }
 
-// 8) Move to final destination
-const finalPath = join(OUTDIR, outName);
-if (existsSync(finalPath)) rmSync(finalPath, { force: true });
-renameSync(tmpOut, finalPath);
+async function main(){
+  ensureDirs();
+  if (!existsSync(INPUT_JS)) fail(`Missing ${INPUT_JS}. Run your fetch step first.`);
+  rmSync(TMPDIR, { recursive: true, force: true });
+  mkdirSync(TMPDIR, { recursive: true });
+
+  const blob = buildBlobOnce();
+
+  for (const [target, outName, ext] of TARGETS) {
+    await new Promise((resolveP, rejectP)=>{
+      try {
+        injectForTarget(target, outName, ext, blob);
+        const interval = setInterval(()=>{
+          if (existsSync(join(OUTDIR, outName))) {
+            clearInterval(interval);
+            resolveP();
+          }
+        }, 500);
+      } catch (e) {
+        rejectP(e);
+      }
+    });
+  }
 
-// 9) Cleanup
-rmSync(tmpCfg, { force: true });
-rmSync(tmpBlob, { force: true });
+  try { rmSync(TMPDIR, { recursive: true, force: true }); } catch {}
+  try { if (existsSync(INPUT_JS)) rmSync(INPUT_JS, { force: true }); } catch {}
 
-const jbrowseJsPath = join(ROOT, 'resources', 'external', 'jbrowse.js');
-if (existsSync(jbrowseJsPath)) {
-  rmSync(jbrowseJsPath, { force: true });
+  log('\nAll targets built.');
 }
 
-console.log(`Done: ${finalPath}`);
\ No newline at end of file
+main().catch(fail);
diff --git a/jbrowse/src/org/labkey/jbrowse/JBrowseManager.java b/jbrowse/src/org/labkey/jbrowse/JBrowseManager.java
index d727be3a8..f2023a9ee 100644
--- a/jbrowse/src/org/labkey/jbrowse/JBrowseManager.java
+++ b/jbrowse/src/org/labkey/jbrowse/JBrowseManager.java
@@ -241,7 +241,7 @@ public void testJBrowseCli() throws Exception
             SimpleScriptWrapper wrapper = new SimpleScriptWrapper(_log);
             wrapper.setThrowNonZeroExits(false);
 
-            String output = wrapper.executeWithOutput(Arrays.asList(exe.getPath(), "help"));
+            String output = wrapper.executeWithOutput(Arrays.asList(exe.getPath(), "--help"));
             if (wrapper.getLastReturnCode() != 0)
             {
                 _log.error("Non-zero exit from testJBrowseCli: " + wrapper.getLastReturnCode());

From 032a42b99d0fc7e859c7652b87844ef6066111db Mon Sep 17 00:00:00 2001
From: bbimber <bbimber@gmail.com>
Date: Tue, 19 Aug 2025 17:46:59 -0700
Subject: [PATCH 5/8] Update package.json

---
 jbrowse/package.json | 3 ++-
 1 file changed, 2 insertions(+), 1 deletion(-)

diff --git a/jbrowse/package.json b/jbrowse/package.json
index eaa865aa1..dd53d10bc 100644
--- a/jbrowse/package.json
+++ b/jbrowse/package.json
@@ -56,6 +56,7 @@
     "@types/react-dom": "^18.3.0",
     "rimraf": "^6.0.1",
     "tar": "^7.4.3",
-    "typescript": "^5.1.6"
+    "typescript": "^5.1.6",
+    "unzip": "^0.1.11"
   }
 }

From 404ed4b424400c32c02e98d209218fd0cb2242bb Mon Sep 17 00:00:00 2001
From: bbimber <bbimber@gmail.com>
Date: Tue, 19 Aug 2025 17:54:14 -0700
Subject: [PATCH 6/8] Update package-lock.json

---
 jbrowse/package-lock.json | 326 +++++++++++++++++++++++++++++++++++++-
 1 file changed, 325 insertions(+), 1 deletion(-)

diff --git a/jbrowse/package-lock.json b/jbrowse/package-lock.json
index b2b8218e0..4d72aed6e 100644
--- a/jbrowse/package-lock.json
+++ b/jbrowse/package-lock.json
@@ -48,7 +48,9 @@
         "@types/react": "^18.3.0",
         "@types/react-dom": "^18.3.0",
         "rimraf": "^6.0.1",
-        "typescript": "^5.1.6"
+        "tar": "^7.4.3",
+        "typescript": "^5.1.6",
+        "unzip": "^0.1.11"
       }
     },
     "node_modules/@adobe/css-tools": {
@@ -5020,6 +5022,19 @@
         "node": "*"
       }
     },
+    "node_modules/binary": {
+      "version": "0.3.0",
+      "resolved": "https://registry.npmjs.org/binary/-/binary-0.3.0.tgz",
+      "integrity": "sha512-D4H1y5KYwpJgK8wk1Cue5LLPgmwHKYSChkbspQg5JtVuR5ulGckxfR62H3AE9UDkdMC8yyXlqYihuz3Aqg2XZg==",
+      "dev": true,
+      "dependencies": {
+        "buffers": "~0.1.1",
+        "chainsaw": "~0.1.0"
+      },
+      "engines": {
+        "node": "*"
+      }
+    },
     "node_modules/binary-extensions": {
       "version": "2.3.0",
       "resolved": "https://registry.npmjs.org/binary-extensions/-/binary-extensions-2.3.0.tgz",
@@ -5331,6 +5346,15 @@
       "resolved": "https://registry.npmjs.org/buffer-xor/-/buffer-xor-1.0.3.tgz",
       "integrity": "sha512-571s0T7nZWK6vB67HI5dyUF7wXiNcfaPPPTl6zYCNApANjIvYJTg7hlud/+cJpdAhS7dVzqMLmfhfHR3rAcOjQ=="
     },
+    "node_modules/buffers": {
+      "version": "0.1.1",
+      "resolved": "https://registry.npmjs.org/buffers/-/buffers-0.1.1.tgz",
+      "integrity": "sha512-9q/rDEGSb/Qsvv2qvzIzdluL5k7AaJOTrw23z9reQthrbF7is4CtlT0DXyO1oei2DCp4uojjzQ7igaSHp1kAEQ==",
+      "dev": true,
+      "engines": {
+        "node": ">=0.2.0"
+      }
+    },
     "node_modules/builtin-status-codes": {
       "version": "3.0.0",
       "resolved": "https://registry.npmjs.org/builtin-status-codes/-/builtin-status-codes-3.0.0.tgz",
@@ -5474,6 +5498,18 @@
       "integrity": "sha512-kY1AZVr2Ra+t+piVaJ4gxaFaReZVH40AKNo7UCX6W+dEwBo/2oZJzqfuN1qLq1oL45o56cPaTXELwrTh8Fpggg==",
       "optional": true
     },
+    "node_modules/chainsaw": {
+      "version": "0.1.0",
+      "resolved": "https://registry.npmjs.org/chainsaw/-/chainsaw-0.1.0.tgz",
+      "integrity": "sha512-75kWfWt6MEKNC8xYXIdRpDehRYY/tNSgwKaJq+dbbDcxORuVrrQ+SEHoWsniVn9XPYfP4gmdWIeDk/4YNp1rNQ==",
+      "dev": true,
+      "dependencies": {
+        "traverse": ">=0.3.0 <0.4"
+      },
+      "engines": {
+        "node": "*"
+      }
+    },
     "node_modules/chalk": {
       "version": "3.0.0",
       "resolved": "https://registry.npmjs.org/chalk/-/chalk-3.0.0.tgz",
@@ -7254,6 +7290,12 @@
       "integrity": "sha512-b1FMfwetIKymC0eioW7mTywihSQE4oLzQn1dB6rZB5fx/3NpNEdAWeCSMB+60/AeT0TCXsxzAlcYVEFCTAksWg==",
       "dev": true
     },
+    "node_modules/fs.realpath": {
+      "version": "1.0.0",
+      "resolved": "https://registry.npmjs.org/fs.realpath/-/fs.realpath-1.0.0.tgz",
+      "integrity": "sha512-OO0pH2lK6a0hZnAdau5ItzHPI6pUlvI7jMVnxUQRtw4owF2wk8lOSabtGDCTP4Ggrg2MbGnWO9X8K1t4+fGMDw==",
+      "dev": true
+    },
     "node_modules/fsevents": {
       "version": "2.3.3",
       "resolved": "https://registry.npmjs.org/fsevents/-/fsevents-2.3.3.tgz",
@@ -7268,6 +7310,102 @@
         "node": "^8.16.0 || ^10.6.0 || >=11.0.0"
       }
     },
+    "node_modules/fstream": {
+      "version": "0.1.31",
+      "resolved": "https://registry.npmjs.org/fstream/-/fstream-0.1.31.tgz",
+      "integrity": "sha512-N1pLGEHoDyCoI8uMmPXJXhn238L4nk41iipXCrqs4Ss0ooYSr5sNj2ucMo5AqJVC4OaOa7IztpBhOaaYTGZVuA==",
+      "deprecated": "This package is no longer supported.",
+      "dev": true,
+      "dependencies": {
+        "graceful-fs": "~3.0.2",
+        "inherits": "~2.0.0",
+        "mkdirp": "0.5",
+        "rimraf": "2"
+      },
+      "engines": {
+        "node": ">=0.6"
+      }
+    },
+    "node_modules/fstream/node_modules/brace-expansion": {
+      "version": "1.1.12",
+      "resolved": "https://registry.npmjs.org/brace-expansion/-/brace-expansion-1.1.12.tgz",
+      "integrity": "sha512-9T9UjW3r0UW5c1Q7GTwllptXwhvYmEzFhzMfZ9H7FQWt+uZePjZPjBP/W1ZEyZ1twGWom5/56TF4lPcqjnDHcg==",
+      "dev": true,
+      "dependencies": {
+        "balanced-match": "^1.0.0",
+        "concat-map": "0.0.1"
+      }
+    },
+    "node_modules/fstream/node_modules/glob": {
+      "version": "7.2.3",
+      "resolved": "https://registry.npmjs.org/glob/-/glob-7.2.3.tgz",
+      "integrity": "sha512-nFR0zLpU2YCaRxwoCJvL6UvCH2JFyFVIvwTLsIf21AuHlMskA1hhTdk+LlYJtOlYt9v6dvszD2BGRqBL+iQK9Q==",
+      "deprecated": "Glob versions prior to v9 are no longer supported",
+      "dev": true,
+      "dependencies": {
+        "fs.realpath": "^1.0.0",
+        "inflight": "^1.0.4",
+        "inherits": "2",
+        "minimatch": "^3.1.1",
+        "once": "^1.3.0",
+        "path-is-absolute": "^1.0.0"
+      },
+      "engines": {
+        "node": "*"
+      },
+      "funding": {
+        "url": "https://github.com/sponsors/isaacs"
+      }
+    },
+    "node_modules/fstream/node_modules/graceful-fs": {
+      "version": "3.0.12",
+      "resolved": "https://registry.npmjs.org/graceful-fs/-/graceful-fs-3.0.12.tgz",
+      "integrity": "sha512-J55gaCS4iTTJfTXIxSVw3EMQckcqkpdRv3IR7gu6sq0+tbC363Zx6KH/SEwXASK9JRbhyZmVjJEVJIOxYsB3Qg==",
+      "dev": true,
+      "dependencies": {
+        "natives": "^1.1.3"
+      },
+      "engines": {
+        "node": ">=0.4.0"
+      }
+    },
+    "node_modules/fstream/node_modules/minimatch": {
+      "version": "3.1.2",
+      "resolved": "https://registry.npmjs.org/minimatch/-/minimatch-3.1.2.tgz",
+      "integrity": "sha512-J7p63hRiAjw1NDEww1W7i37+ByIrOWO5XQQAzZ3VOcL0PNybwpfmV/N05zFAzwQ9USyEcX6t3UO+K5aqBQOIHw==",
+      "dev": true,
+      "dependencies": {
+        "brace-expansion": "^1.1.7"
+      },
+      "engines": {
+        "node": "*"
+      }
+    },
+    "node_modules/fstream/node_modules/mkdirp": {
+      "version": "0.5.6",
+      "resolved": "https://registry.npmjs.org/mkdirp/-/mkdirp-0.5.6.tgz",
+      "integrity": "sha512-FP+p8RB8OWpF3YZBCrP5gtADmtXApB5AMLn+vdyA+PyxCjrCs00mjyUozssO33cwDeT3wNGdLxJ5M//YqtHAJw==",
+      "dev": true,
+      "dependencies": {
+        "minimist": "^1.2.6"
+      },
+      "bin": {
+        "mkdirp": "bin/cmd.js"
+      }
+    },
+    "node_modules/fstream/node_modules/rimraf": {
+      "version": "2.7.1",
+      "resolved": "https://registry.npmjs.org/rimraf/-/rimraf-2.7.1.tgz",
+      "integrity": "sha512-uWjbaKIK3T1OSVptzX7Nl6PvQ3qAGtKEtVRjRuazjfL3Bx5eI409VZSqgND+4UNnmzLVdPj9FqFJNPqBZFve4w==",
+      "deprecated": "Rimraf versions prior to v4 are no longer supported",
+      "dev": true,
+      "dependencies": {
+        "glob": "^7.1.3"
+      },
+      "bin": {
+        "rimraf": "bin.js"
+      }
+    },
     "node_modules/function-bind": {
       "version": "1.1.2",
       "license": "MIT",
@@ -7868,6 +8006,17 @@
         "node": ">=8"
       }
     },
+    "node_modules/inflight": {
+      "version": "1.0.6",
+      "resolved": "https://registry.npmjs.org/inflight/-/inflight-1.0.6.tgz",
+      "integrity": "sha512-k92I/b08q4wvFscXCLvqfsHCrjrF7yiXsQuIVvVE7N82W3+aqpzuUdBbfhWcy/FZR3/4IgflMgKLOsvPDrGCJA==",
+      "deprecated": "This module is not supported, and leaks memory. Do not use it. Check out lru-cache if you want a good and tested way to coalesce async requests by a key value, which is much more comprehensive and powerful.",
+      "dev": true,
+      "dependencies": {
+        "once": "^1.3.0",
+        "wrappy": "1"
+      }
+    },
     "node_modules/inherits": {
       "version": "2.0.4",
       "license": "ISC"
@@ -8456,6 +8605,40 @@
         "lz-string": "bin/bin.js"
       }
     },
+    "node_modules/match-stream": {
+      "version": "0.0.2",
+      "resolved": "https://registry.npmjs.org/match-stream/-/match-stream-0.0.2.tgz",
+      "integrity": "sha512-TbN21KrvmZ4mHzKqSFeNNNYeOGNNoEE0sQjhOGlHc+W6XhV4nEhJqaQTJj106NF+NYjyJ7pXh23+OQ1d306ORw==",
+      "dev": true,
+      "dependencies": {
+        "buffers": "~0.1.1",
+        "readable-stream": "~1.0.0"
+      }
+    },
+    "node_modules/match-stream/node_modules/isarray": {
+      "version": "0.0.1",
+      "resolved": "https://registry.npmjs.org/isarray/-/isarray-0.0.1.tgz",
+      "integrity": "sha512-D2S+3GLxWH+uhrNEcoh/fnmYeP8E8/zHl644d/jdA0g2uyXvy3sb0qxotE+ne0LtccHknQzWwZEzhak7oJ0COQ==",
+      "dev": true
+    },
+    "node_modules/match-stream/node_modules/readable-stream": {
+      "version": "1.0.34",
+      "resolved": "https://registry.npmjs.org/readable-stream/-/readable-stream-1.0.34.tgz",
+      "integrity": "sha512-ok1qVCJuRkNmvebYikljxJA/UEsKwLl2nI1OmaqAu4/UE+h0wKCHok4XkL/gvi39OacXvw59RJUOFUkDib2rHg==",
+      "dev": true,
+      "dependencies": {
+        "core-util-is": "~1.0.0",
+        "inherits": "~2.0.1",
+        "isarray": "0.0.1",
+        "string_decoder": "~0.10.x"
+      }
+    },
+    "node_modules/match-stream/node_modules/string_decoder": {
+      "version": "0.10.31",
+      "resolved": "https://registry.npmjs.org/string_decoder/-/string_decoder-0.10.31.tgz",
+      "integrity": "sha512-ev2QzSzWPYmy9GuqfIVildA4OdcGLeFZQrq5ys6RtiuF+RQQiZWr8TZNyAcuVXyQRYfEO+MsoB/1BuQVhOJuoQ==",
+      "dev": true
+    },
     "node_modules/material-colors": {
       "version": "1.2.6",
       "license": "ISC"
@@ -8929,6 +9112,13 @@
       "version": "1.0.2",
       "license": "MIT"
     },
+    "node_modules/natives": {
+      "version": "1.1.6",
+      "resolved": "https://registry.npmjs.org/natives/-/natives-1.1.6.tgz",
+      "integrity": "sha512-6+TDFewD4yxY14ptjKaS63GVdtKiES1pTPyxn9Jb0rBqPMZ7VcCiooEhPNsr+mqHtMGxa/5c/HhcC4uPEUw/nA==",
+      "deprecated": "This module relies on Node.js's internals and will break at some point. Do not use it, and update to graceful-fs@4.x.",
+      "dev": true
+    },
     "node_modules/negotiator": {
       "version": "0.6.4",
       "resolved": "https://registry.npmjs.org/negotiator/-/negotiator-0.6.4.tgz",
@@ -9277,6 +9467,15 @@
       "resolved": "https://registry.npmjs.org/os-browserify/-/os-browserify-0.3.0.tgz",
       "integrity": "sha512-gjcpUc3clBf9+210TRaDWbf+rZZZEshZ+DlXMRCeAjp0xhTrnQsKHypIy1J3d5hKdUzj69t708EHtU8P6bUn0A=="
     },
+    "node_modules/over": {
+      "version": "0.0.5",
+      "resolved": "https://registry.npmjs.org/over/-/over-0.0.5.tgz",
+      "integrity": "sha512-EEc3GCT5ce2VgLYKGeomTSgQT+4wkS13Ya9XzKiskHtemWPx0YhVErn7PtiowTOsYtRlFe6FksgwFeWG1aOJdg==",
+      "dev": true,
+      "engines": {
+        "node": "*"
+      }
+    },
     "node_modules/p-is-promise": {
       "version": "3.0.0",
       "license": "MIT",
@@ -9428,6 +9627,15 @@
         "node": ">=8"
       }
     },
+    "node_modules/path-is-absolute": {
+      "version": "1.0.1",
+      "resolved": "https://registry.npmjs.org/path-is-absolute/-/path-is-absolute-1.0.1.tgz",
+      "integrity": "sha512-AVbw3UJ2e9bq64vSaS9Am0fje1Pa8pbGqTTsmXfaIiMpnr5DlDhfJOuLj9Sf95ZPVDAUerDfEk88MPmPe7UCQg==",
+      "dev": true,
+      "engines": {
+        "node": ">=0.10.0"
+      }
+    },
     "node_modules/path-key": {
       "version": "3.1.1",
       "license": "MIT",
@@ -9859,6 +10067,42 @@
       "resolved": "https://registry.npmjs.org/bn.js/-/bn.js-4.12.1.tgz",
       "integrity": "sha512-k8TVBiPkPJT9uHLdOKfFpqcfprwBFOAAXXozRubr7R7PfIuKvQlzcI4M0pALeqXN09vdaMbUdUj+pass+uULAg=="
     },
+    "node_modules/pullstream": {
+      "version": "0.4.1",
+      "resolved": "https://registry.npmjs.org/pullstream/-/pullstream-0.4.1.tgz",
+      "integrity": "sha512-8ckaufxE74rtbwA0lD0GO2Pk/miCfje3uZtGZd/MQpxkoRIBB004aKBnhdc4Y8L7sip0cis/ekib/1lUwUwxuA==",
+      "dev": true,
+      "dependencies": {
+        "over": ">= 0.0.5 < 1",
+        "readable-stream": "~1.0.31",
+        "setimmediate": ">= 1.0.2 < 2",
+        "slice-stream": ">= 1.0.0 < 2"
+      }
+    },
+    "node_modules/pullstream/node_modules/isarray": {
+      "version": "0.0.1",
+      "resolved": "https://registry.npmjs.org/isarray/-/isarray-0.0.1.tgz",
+      "integrity": "sha512-D2S+3GLxWH+uhrNEcoh/fnmYeP8E8/zHl644d/jdA0g2uyXvy3sb0qxotE+ne0LtccHknQzWwZEzhak7oJ0COQ==",
+      "dev": true
+    },
+    "node_modules/pullstream/node_modules/readable-stream": {
+      "version": "1.0.34",
+      "resolved": "https://registry.npmjs.org/readable-stream/-/readable-stream-1.0.34.tgz",
+      "integrity": "sha512-ok1qVCJuRkNmvebYikljxJA/UEsKwLl2nI1OmaqAu4/UE+h0wKCHok4XkL/gvi39OacXvw59RJUOFUkDib2rHg==",
+      "dev": true,
+      "dependencies": {
+        "core-util-is": "~1.0.0",
+        "inherits": "~2.0.1",
+        "isarray": "0.0.1",
+        "string_decoder": "~0.10.x"
+      }
+    },
+    "node_modules/pullstream/node_modules/string_decoder": {
+      "version": "0.10.31",
+      "resolved": "https://registry.npmjs.org/string_decoder/-/string_decoder-0.10.31.tgz",
+      "integrity": "sha512-ev2QzSzWPYmy9GuqfIVildA4OdcGLeFZQrq5ys6RtiuF+RQQiZWr8TZNyAcuVXyQRYfEO+MsoB/1BuQVhOJuoQ==",
+      "dev": true
+    },
     "node_modules/pump": {
       "version": "3.0.0",
       "license": "MIT",
@@ -11130,6 +11374,39 @@
         "node": ">= 10"
       }
     },
+    "node_modules/slice-stream": {
+      "version": "1.0.0",
+      "resolved": "https://registry.npmjs.org/slice-stream/-/slice-stream-1.0.0.tgz",
+      "integrity": "sha512-fJu1TYTr85OZEkT4lqcCW6oPWPIS5omPnIsB/dL7QWo2sNk03VQ6did4plhh0y3Sf0nJlq5QEUR3vMYevydn7w==",
+      "dev": true,
+      "dependencies": {
+        "readable-stream": "~1.0.31"
+      }
+    },
+    "node_modules/slice-stream/node_modules/isarray": {
+      "version": "0.0.1",
+      "resolved": "https://registry.npmjs.org/isarray/-/isarray-0.0.1.tgz",
+      "integrity": "sha512-D2S+3GLxWH+uhrNEcoh/fnmYeP8E8/zHl644d/jdA0g2uyXvy3sb0qxotE+ne0LtccHknQzWwZEzhak7oJ0COQ==",
+      "dev": true
+    },
+    "node_modules/slice-stream/node_modules/readable-stream": {
+      "version": "1.0.34",
+      "resolved": "https://registry.npmjs.org/readable-stream/-/readable-stream-1.0.34.tgz",
+      "integrity": "sha512-ok1qVCJuRkNmvebYikljxJA/UEsKwLl2nI1OmaqAu4/UE+h0wKCHok4XkL/gvi39OacXvw59RJUOFUkDib2rHg==",
+      "dev": true,
+      "dependencies": {
+        "core-util-is": "~1.0.0",
+        "inherits": "~2.0.1",
+        "isarray": "0.0.1",
+        "string_decoder": "~0.10.x"
+      }
+    },
+    "node_modules/slice-stream/node_modules/string_decoder": {
+      "version": "0.10.31",
+      "resolved": "https://registry.npmjs.org/string_decoder/-/string_decoder-0.10.31.tgz",
+      "integrity": "sha512-ev2QzSzWPYmy9GuqfIVildA4OdcGLeFZQrq5ys6RtiuF+RQQiZWr8TZNyAcuVXyQRYfEO+MsoB/1BuQVhOJuoQ==",
+      "dev": true
+    },
     "node_modules/sockjs": {
       "version": "0.3.24",
       "resolved": "https://registry.npmjs.org/sockjs/-/sockjs-0.3.24.tgz",
@@ -11716,6 +11993,15 @@
       "resolved": "https://registry.npmjs.org/tr46/-/tr46-0.0.3.tgz",
       "integrity": "sha512-N3WMsuqV66lT30CrXNbEjx4GEwlow3v6rr4mCcv6prnfwhS01rkgyFdjPNBYd9br7LpXV1+Emh01fHnq2Gdgrw=="
     },
+    "node_modules/traverse": {
+      "version": "0.3.9",
+      "resolved": "https://registry.npmjs.org/traverse/-/traverse-0.3.9.tgz",
+      "integrity": "sha512-iawgk0hLP3SxGKDfnDJf8wTz4p2qImnyihM5Hh/sGvQ3K37dPi/w8sRhdNIxYA1TwFwc5mDhIJq+O0RsvXBKdQ==",
+      "dev": true,
+      "engines": {
+        "node": "*"
+      }
+    },
     "node_modules/tree-dump": {
       "version": "1.0.2",
       "resolved": "https://registry.npmjs.org/tree-dump/-/tree-dump-1.0.2.tgz",
@@ -11887,6 +12173,44 @@
         "node": ">= 0.8"
       }
     },
+    "node_modules/unzip": {
+      "version": "0.1.11",
+      "resolved": "https://registry.npmjs.org/unzip/-/unzip-0.1.11.tgz",
+      "integrity": "sha512-Dvxd7bj2RcfbM+AbNfx0Ufqvk7Kl4YGeAQlEGn9+glDQz1HFxeeRjBStxi/DfIvgutn6hbC4yMc1rEo3x+dmVQ==",
+      "dev": true,
+      "dependencies": {
+        "binary": ">= 0.3.0 < 1",
+        "fstream": ">= 0.1.30 < 1",
+        "match-stream": ">= 0.0.2 < 1",
+        "pullstream": ">= 0.4.1 < 1",
+        "readable-stream": "~1.0.31",
+        "setimmediate": ">= 1.0.1 < 2"
+      }
+    },
+    "node_modules/unzip/node_modules/isarray": {
+      "version": "0.0.1",
+      "resolved": "https://registry.npmjs.org/isarray/-/isarray-0.0.1.tgz",
+      "integrity": "sha512-D2S+3GLxWH+uhrNEcoh/fnmYeP8E8/zHl644d/jdA0g2uyXvy3sb0qxotE+ne0LtccHknQzWwZEzhak7oJ0COQ==",
+      "dev": true
+    },
+    "node_modules/unzip/node_modules/readable-stream": {
+      "version": "1.0.34",
+      "resolved": "https://registry.npmjs.org/readable-stream/-/readable-stream-1.0.34.tgz",
+      "integrity": "sha512-ok1qVCJuRkNmvebYikljxJA/UEsKwLl2nI1OmaqAu4/UE+h0wKCHok4XkL/gvi39OacXvw59RJUOFUkDib2rHg==",
+      "dev": true,
+      "dependencies": {
+        "core-util-is": "~1.0.0",
+        "inherits": "~2.0.1",
+        "isarray": "0.0.1",
+        "string_decoder": "~0.10.x"
+      }
+    },
+    "node_modules/unzip/node_modules/string_decoder": {
+      "version": "0.10.31",
+      "resolved": "https://registry.npmjs.org/string_decoder/-/string_decoder-0.10.31.tgz",
+      "integrity": "sha512-ev2QzSzWPYmy9GuqfIVildA4OdcGLeFZQrq5ys6RtiuF+RQQiZWr8TZNyAcuVXyQRYfEO+MsoB/1BuQVhOJuoQ==",
+      "dev": true
+    },
     "node_modules/unzipper": {
       "version": "0.12.3",
       "resolved": "https://registry.npmjs.org/unzipper/-/unzipper-0.12.3.tgz",

From eeb88bb57e38eae2d2b93cd559db7772a720d664 Mon Sep 17 00:00:00 2001
From: bbimber <bbimber@gmail.com>
Date: Tue, 19 Aug 2025 18:02:52 -0700
Subject: [PATCH 7/8] Drop dependency on pkg

---
 jbrowse/package-lock.json | 655 +++-----------------------------------
 jbrowse/package.json      |   4 +-
 2 files changed, 51 insertions(+), 608 deletions(-)

diff --git a/jbrowse/package-lock.json b/jbrowse/package-lock.json
index 4d72aed6e..938aecb1c 100644
--- a/jbrowse/package-lock.json
+++ b/jbrowse/package-lock.json
@@ -18,7 +18,6 @@
         "@labkey/api": "^1.39.0",
         "@labkey/components": "^6.32.2",
         "@mui/x-data-grid": "^7.28.1",
-        "@yao-pkg/pkg": "^6.3.2",
         "assert": "^2.1.0",
         "browserify-zlib": "^0.2.0",
         "buffer": "^6.0.3",
@@ -2220,6 +2219,7 @@
       "version": "8.0.2",
       "resolved": "https://registry.npmjs.org/@isaacs/cliui/-/cliui-8.0.2.tgz",
       "integrity": "sha512-O8jcjabXaleOG9DQ0+ARXWZBTfnP4WNAqzuiJK7ll44AmxGKv/J2M4TPjxjY3znBCfvBXFzucm1twdyFybFqEA==",
+      "dev": true,
       "dependencies": {
         "string-width": "^5.1.2",
         "string-width-cjs": "npm:string-width@^4.2.0",
@@ -2236,6 +2236,7 @@
       "version": "6.0.1",
       "resolved": "https://registry.npmjs.org/ansi-regex/-/ansi-regex-6.0.1.tgz",
       "integrity": "sha512-n5M855fKb2SsfMIiFFoVrABHJC8QtHwVx+mHWP3QcEqBHYienj5dHSgjbxtC0WEZXYt4wcD6zrQElDPhFuZgfA==",
+      "dev": true,
       "engines": {
         "node": ">=12"
       },
@@ -2247,6 +2248,7 @@
       "version": "6.2.1",
       "resolved": "https://registry.npmjs.org/ansi-styles/-/ansi-styles-6.2.1.tgz",
       "integrity": "sha512-bN798gFfQX+viw3R7yrGWRqnrN2oRkEkUjjl4JNn4E8GxxbjtG3FbrEIIY3l8/hrwUwIeCZvi4QuOTP4MErVug==",
+      "dev": true,
       "engines": {
         "node": ">=12"
       },
@@ -2257,12 +2259,14 @@
     "node_modules/@isaacs/cliui/node_modules/emoji-regex": {
       "version": "9.2.2",
       "resolved": "https://registry.npmjs.org/emoji-regex/-/emoji-regex-9.2.2.tgz",
-      "integrity": "sha512-L18DaJsXSUk2+42pv8mLs5jJT2hqFkFE4j21wOmgbUqsZ2hL72NsUU785g9RXgo3s0ZNgVl42TiHp3ZtOv/Vyg=="
+      "integrity": "sha512-L18DaJsXSUk2+42pv8mLs5jJT2hqFkFE4j21wOmgbUqsZ2hL72NsUU785g9RXgo3s0ZNgVl42TiHp3ZtOv/Vyg==",
+      "dev": true
     },
     "node_modules/@isaacs/cliui/node_modules/string-width": {
       "version": "5.1.2",
       "resolved": "https://registry.npmjs.org/string-width/-/string-width-5.1.2.tgz",
       "integrity": "sha512-HnLOCR3vjcY8beoNLtcjZ5/nxn2afmME6lhrDrebokqMap+XbeW8n9TXpPDOqdGK5qcI3oT0GKTW6wC7EMiVqA==",
+      "dev": true,
       "dependencies": {
         "eastasianwidth": "^0.2.0",
         "emoji-regex": "^9.2.2",
@@ -2279,6 +2283,7 @@
       "version": "7.1.0",
       "resolved": "https://registry.npmjs.org/strip-ansi/-/strip-ansi-7.1.0.tgz",
       "integrity": "sha512-iq6eVVI64nQQTRYq2KtEg2d2uU7LElhTJwsH4YzIHZshxlgZms/wIc4VoDQTlG/IvVIrBKG06CrZnp0qv7hkcQ==",
+      "dev": true,
       "dependencies": {
         "ansi-regex": "^6.0.1"
       },
@@ -2293,6 +2298,7 @@
       "version": "8.1.0",
       "resolved": "https://registry.npmjs.org/wrap-ansi/-/wrap-ansi-8.1.0.tgz",
       "integrity": "sha512-si7QWI6zUMq56bESFvagtmzMdGOtoxfR+Sez11Mobfc7tm+VkUckk9bW2UeffTGVUbOksxmSw0AA2gs8g71NCQ==",
+      "dev": true,
       "dependencies": {
         "ansi-styles": "^6.1.0",
         "string-width": "^5.0.1",
@@ -2309,6 +2315,7 @@
       "version": "4.0.1",
       "resolved": "https://registry.npmjs.org/@isaacs/fs-minipass/-/fs-minipass-4.0.1.tgz",
       "integrity": "sha512-wgm9Ehl2jpeqP3zw/7mo3kRHFp5MEDhqAdwy1fTGkHAwnkGOVsgpvQhL8B5n1qlb01jV3n/bI0ZfZp5lWA1k4w==",
+      "dev": true,
       "dependencies": {
         "minipass": "^7.0.4"
       },
@@ -3829,6 +3836,7 @@
       "version": "0.11.0",
       "resolved": "https://registry.npmjs.org/@pkgjs/parseargs/-/parseargs-0.11.0.tgz",
       "integrity": "sha512-+1VkjdD0QBLPodGrJUeqarH8VAIvQODIbwh9XpP5Syisf7YoQgsJKPNFoqqLQlu+VQ/tVSshMR6loPMn8U+dPg==",
+      "dev": true,
       "optional": true,
       "engines": {
         "node": ">=14"
@@ -4519,73 +4527,6 @@
       "resolved": "https://registry.npmjs.org/@xtuc/long/-/long-4.2.2.tgz",
       "integrity": "sha512-NuHqBY1PB/D8xU6s/thBgOAiAP7HOYDQ32+BFZILJ8ivkUkAHQnWfn6WhL79Owj1qmUnoN/YPhktdIoucipkAQ=="
     },
-    "node_modules/@yao-pkg/pkg": {
-      "version": "6.3.2",
-      "resolved": "https://registry.npmjs.org/@yao-pkg/pkg/-/pkg-6.3.2.tgz",
-      "integrity": "sha512-gd4fh8dVC5qnKQD8HTwQrVLvT8TyQqwE59ky3LHtnke+6fBcTTrWavtbsVOwdL09IWqY+eSB+2AGCrSUnZ4wwg==",
-      "dependencies": {
-        "@babel/generator": "^7.23.0",
-        "@babel/parser": "^7.23.0",
-        "@babel/types": "^7.23.0",
-        "@yao-pkg/pkg-fetch": "3.5.19",
-        "into-stream": "^6.0.0",
-        "minimist": "^1.2.6",
-        "multistream": "^4.1.0",
-        "picocolors": "^1.1.0",
-        "picomatch": "^4.0.2",
-        "prebuild-install": "^7.1.1",
-        "resolve": "^1.22.10",
-        "stream-meter": "^1.0.4",
-        "tar": "^7.4.3",
-        "tinyglobby": "^0.2.11",
-        "unzipper": "^0.12.3"
-      },
-      "bin": {
-        "pkg": "lib-es5/bin.js"
-      },
-      "engines": {
-        "node": ">=18.0.0"
-      }
-    },
-    "node_modules/@yao-pkg/pkg-fetch": {
-      "version": "3.5.19",
-      "resolved": "https://registry.npmjs.org/@yao-pkg/pkg-fetch/-/pkg-fetch-3.5.19.tgz",
-      "integrity": "sha512-EEURrS1Q5sSSAwaQ4zD0wZsquDiG8CroY3SCi7jYBoM0NG3eRA239mW6YMUYPNWUK4zCMhuK3bzFT5aIZP/rDg==",
-      "dependencies": {
-        "https-proxy-agent": "^5.0.0",
-        "node-fetch": "^2.6.6",
-        "picocolors": "^1.1.0",
-        "progress": "^2.0.3",
-        "semver": "^7.3.5",
-        "tar-fs": "^2.1.1",
-        "yargs": "^16.2.0"
-      },
-      "bin": {
-        "pkg-fetch": "lib-es5/bin.js"
-      }
-    },
-    "node_modules/@yao-pkg/pkg-fetch/node_modules/semver": {
-      "version": "7.7.1",
-      "resolved": "https://registry.npmjs.org/semver/-/semver-7.7.1.tgz",
-      "integrity": "sha512-hlq8tAfn0m/61p4BVRcPzIGr6LKiMwo4VM6dGi6pt4qcRkmNzTcWq6eCEjEh+qXjkMDvPlOFFSGwQjoEa6gyMA==",
-      "bin": {
-        "semver": "bin/semver.js"
-      },
-      "engines": {
-        "node": ">=10"
-      }
-    },
-    "node_modules/@yao-pkg/pkg/node_modules/picomatch": {
-      "version": "4.0.2",
-      "resolved": "https://registry.npmjs.org/picomatch/-/picomatch-4.0.2.tgz",
-      "integrity": "sha512-M7BAV6Rlcy5u+m6oPhAPFgJTzAioX/6B0DxyvDlo9l8+T3nLKbrczg2WLUyzd45L8RqfUMyGPzekbMvX2Ldkwg==",
-      "engines": {
-        "node": ">=12"
-      },
-      "funding": {
-        "url": "https://github.com/sponsors/jonschlinkert"
-      }
-    },
     "node_modules/accepts": {
       "version": "1.3.8",
       "resolved": "https://registry.npmjs.org/accepts/-/accepts-1.3.8.tgz",
@@ -4642,17 +4583,6 @@
         "node": ">=8.9"
       }
     },
-    "node_modules/agent-base": {
-      "version": "6.0.2",
-      "resolved": "https://registry.npmjs.org/agent-base/-/agent-base-6.0.2.tgz",
-      "integrity": "sha512-RZNwNclF7+MS/8bDg70amg32dyeZGZxiDuQmZxKLAlQjr3jGyLx+4Kkk58UO7D2QdgFIQCovuSuZESne6RG6XQ==",
-      "dependencies": {
-        "debug": "4"
-      },
-      "engines": {
-        "node": ">= 6.0.0"
-      }
-    },
     "node_modules/ajv": {
       "version": "8.17.1",
       "license": "MIT",
@@ -4980,6 +4910,7 @@
     },
     "node_modules/balanced-match": {
       "version": "1.0.2",
+      "dev": true,
       "license": "MIT"
     },
     "node_modules/base64-arraybuffer": {
@@ -5047,54 +4978,6 @@
         "url": "https://github.com/sponsors/sindresorhus"
       }
     },
-    "node_modules/bl": {
-      "version": "4.1.0",
-      "license": "MIT",
-      "dependencies": {
-        "buffer": "^5.5.0",
-        "inherits": "^2.0.4",
-        "readable-stream": "^3.4.0"
-      }
-    },
-    "node_modules/bl/node_modules/buffer": {
-      "version": "5.7.1",
-      "funding": [
-        {
-          "type": "github",
-          "url": "https://github.com/sponsors/feross"
-        },
-        {
-          "type": "patreon",
-          "url": "https://www.patreon.com/feross"
-        },
-        {
-          "type": "consulting",
-          "url": "https://feross.org/support"
-        }
-      ],
-      "license": "MIT",
-      "dependencies": {
-        "base64-js": "^1.3.1",
-        "ieee754": "^1.1.13"
-      }
-    },
-    "node_modules/bl/node_modules/readable-stream": {
-      "version": "3.6.2",
-      "license": "MIT",
-      "dependencies": {
-        "inherits": "^2.0.3",
-        "string_decoder": "^1.1.1",
-        "util-deprecate": "^1.0.1"
-      },
-      "engines": {
-        "node": ">= 6"
-      }
-    },
-    "node_modules/bluebird": {
-      "version": "3.7.2",
-      "resolved": "https://registry.npmjs.org/bluebird/-/bluebird-3.7.2.tgz",
-      "integrity": "sha512-XpNj6GDQzdfW+r2Wnn7xiSAd7TM3jzkxGXBGTtWKuSXv1xUV+azxAm8jdWZN06QTQk+2N2XB9jRDkvbmQmcRtg=="
-    },
     "node_modules/bn.js": {
       "version": "5.2.1",
       "resolved": "https://registry.npmjs.org/bn.js/-/bn.js-5.2.1.tgz",
@@ -5171,6 +5054,7 @@
       "version": "2.0.2",
       "resolved": "https://registry.npmjs.org/brace-expansion/-/brace-expansion-2.0.2.tgz",
       "integrity": "sha512-Jt0vHyM+jmUBqojB7E1NIYadt0vI0Qxjxd2TErW94wDz+E2LAm5vKMXXwg6ZZBTHPuUlDgQHKXvjGBdfcF1ZDQ==",
+      "dev": true,
       "dependencies": {
         "balanced-match": "^1.0.0"
       }
@@ -5549,10 +5433,6 @@
         "url": "https://paulmillr.com/funding/"
       }
     },
-    "node_modules/chownr": {
-      "version": "1.1.4",
-      "license": "ISC"
-    },
     "node_modules/chrome-trace-event": {
       "version": "1.0.4",
       "license": "MIT",
@@ -5608,16 +5488,6 @@
         "node": ">=0.10.0"
       }
     },
-    "node_modules/cliui": {
-      "version": "7.0.4",
-      "resolved": "https://registry.npmjs.org/cliui/-/cliui-7.0.4.tgz",
-      "integrity": "sha512-OcRE68cOsVMXp1Yvonl/fzkQOyjLSu/8bhPDfQt0e0/Eb283TKP20Fs2MqoPsr9SwA595rRCA+QMzYc9nBP+JQ==",
-      "dependencies": {
-        "string-width": "^4.2.0",
-        "strip-ansi": "^6.0.0",
-        "wrap-ansi": "^7.0.0"
-      }
-    },
     "node_modules/clone-deep": {
       "version": "4.0.1",
       "resolved": "https://registry.npmjs.org/clone-deep/-/clone-deep-4.0.1.tgz",
@@ -5956,6 +5826,7 @@
       "version": "7.0.6",
       "resolved": "https://registry.npmjs.org/cross-spawn/-/cross-spawn-7.0.6.tgz",
       "integrity": "sha512-uV2QOWP2nWzsy2aMp8aRibhi9dlzF5Hgh5SHaB9OiTGEyDTiJJyx0uy51QXdyWbtAHNua4XJzUKca3OzKUd3vA==",
+      "dev": true,
       "dependencies": {
         "path-key": "^3.1.0",
         "shebang-command": "^2.0.0",
@@ -6254,19 +6125,6 @@
         }
       }
     },
-    "node_modules/decompress-response": {
-      "version": "6.0.0",
-      "license": "MIT",
-      "dependencies": {
-        "mimic-response": "^3.1.0"
-      },
-      "engines": {
-        "node": ">=10"
-      },
-      "funding": {
-        "url": "https://github.com/sponsors/sindresorhus"
-      }
-    },
     "node_modules/deep-equal": {
       "version": "1.1.2",
       "resolved": "https://registry.npmjs.org/deep-equal/-/deep-equal-1.1.2.tgz",
@@ -6286,13 +6144,6 @@
         "url": "https://github.com/sponsors/ljharb"
       }
     },
-    "node_modules/deep-extend": {
-      "version": "0.6.0",
-      "license": "MIT",
-      "engines": {
-        "node": ">=4.0.0"
-      }
-    },
     "node_modules/deepmerge": {
       "version": "4.3.1",
       "license": "MIT",
@@ -6413,13 +6264,6 @@
         "npm": "1.2.8000 || >= 1.4.16"
       }
     },
-    "node_modules/detect-libc": {
-      "version": "2.0.3",
-      "license": "Apache-2.0",
-      "engines": {
-        "node": ">=8"
-      }
-    },
     "node_modules/detect-node": {
       "version": "2.1.0",
       "license": "MIT"
@@ -6576,16 +6420,9 @@
       "dev": true,
       "license": "MIT"
     },
-    "node_modules/duplexer2": {
-      "version": "0.1.4",
-      "resolved": "https://registry.npmjs.org/duplexer2/-/duplexer2-0.1.4.tgz",
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@@ -11277,6 +10881,7 @@
     },
     "node_modules/shebang-command": {
       "version": "2.0.0",
+      "dev": true,
       "license": "MIT",
       "dependencies": {
         "shebang-regex": "^3.0.0"
@@ -11287,6 +10892,7 @@
     },
     "node_modules/shebang-regex": {
       "version": "3.0.0",
+      "dev": true,
       "license": "MIT",
       "engines": {
         "node": ">=8"
@@ -11320,47 +10926,6 @@
         "url": "https://github.com/sponsors/ljharb"
       }
     },
-    "node_modules/simple-concat": {
-      "version": "1.0.1",
-      "funding": [
-        {
-          "type": "github",
-          "url": "https://github.com/sponsors/feross"
-        },
-        {
-          "type": "patreon",
-          "url": "https://www.patreon.com/feross"
-        },
-        {
-          "type": "consulting",
-          "url": "https://feross.org/support"
-        }
-      ],
-      "license": "MIT"
-    },
-    "node_modules/simple-get": {
-      "version": "4.0.1",
-      "funding": [
-        {
-          "type": "github",
-          "url": "https://github.com/sponsors/feross"
-        },
-        {
-          "type": "patreon",
-          "url": "https://www.patreon.com/feross"
-        },
-        {
-          "type": "consulting",
-          "url": "https://feross.org/support"
-        }
-      ],
-      "license": "MIT",
-      "dependencies": {
-        "decompress-response": "^6.0.0",
-        "once": "^1.3.1",
-        "simple-concat": "^1.0.0"
-      }
-    },
     "node_modules/sirv": {
       "version": "2.0.4",
       "dev": true,
@@ -11584,13 +11149,6 @@
         "node": ">= 6"
       }
     },
-    "node_modules/stream-meter": {
-      "version": "1.0.4",
-      "license": "MIT",
-      "dependencies": {
-        "readable-stream": "^2.1.4"
-      }
-    },
     "node_modules/string_decoder": {
       "version": "1.3.0",
       "license": "MIT",
@@ -11600,6 +11158,7 @@
     },
     "node_modules/string-width": {
       "version": "4.2.3",
+      "dev": true,
       "license": "MIT",
       "dependencies": {
         "emoji-regex": "^8.0.0",
@@ -11613,6 +11172,7 @@
     "node_modules/string-width-cjs": {
       "name": "string-width",
       "version": "4.2.3",
+      "dev": true,
       "license": "MIT",
       "dependencies": {
         "emoji-regex": "^8.0.0",
@@ -11625,6 +11185,7 @@
     },
     "node_modules/strip-ansi": {
       "version": "6.0.1",
+      "dev": true,
       "license": "MIT",
       "dependencies": {
         "ansi-regex": "^5.0.1"
@@ -11636,6 +11197,7 @@
     "node_modules/strip-ansi-cjs": {
       "name": "strip-ansi",
       "version": "6.0.1",
+      "dev": true,
       "license": "MIT",
       "dependencies": {
         "ansi-regex": "^5.0.1"
@@ -11719,6 +11281,7 @@
       "version": "7.4.3",
       "resolved": "https://registry.npmjs.org/tar/-/tar-7.4.3.tgz",
       "integrity": "sha512-5S7Va8hKfV7W5U6g3aYxXmlPoZVAwUMy9AOKyF2fVuZa2UD3qZjg578OrLRt8PcNN1PleVaL/5/yYATNL0ICUw==",
+      "dev": true,
       "dependencies": {
         "@isaacs/fs-minipass": "^4.0.0",
         "chownr": "^3.0.0",
@@ -11731,47 +11294,11 @@
         "node": ">=18"
       }
     },
-    "node_modules/tar-fs": {
-      "version": "2.1.3",
-      "resolved": "https://registry.npmjs.org/tar-fs/-/tar-fs-2.1.3.tgz",
-      "integrity": "sha512-090nwYJDmlhwFwEW3QQl+vaNnxsO2yVsd45eTKRBzSzu+hlb1w2K9inVq5b0ngXuLVqQ4ApvsUHHnu/zQNkWAg==",
-      "dependencies": {
-        "chownr": "^1.1.1",
-        "mkdirp-classic": "^0.5.2",
-        "pump": "^3.0.0",
-        "tar-stream": "^2.1.4"
-      }
-    },
-    "node_modules/tar-stream": {
-      "version": "2.2.0",
-      "license": "MIT",
-      "dependencies": {
-        "bl": "^4.0.3",
-        "end-of-stream": "^1.4.1",
-        "fs-constants": "^1.0.0",
-        "inherits": "^2.0.3",
-        "readable-stream": "^3.1.1"
-      },
-      "engines": {
-        "node": ">=6"
-      }
-    },
-    "node_modules/tar-stream/node_modules/readable-stream": {
-      "version": "3.6.2",
-      "license": "MIT",
-      "dependencies": {
-        "inherits": "^2.0.3",
-        "string_decoder": "^1.1.1",
-        "util-deprecate": "^1.0.1"
-      },
-      "engines": {
-        "node": ">= 6"
-      }
-    },
     "node_modules/tar/node_modules/chownr": {
       "version": "3.0.0",
       "resolved": "https://registry.npmjs.org/chownr/-/chownr-3.0.0.tgz",
       "integrity": "sha512-+IxzY9BZOQd/XuYPRmrvEVjF/nqj5kgT4kEq7VofrDoM1MxoRjEWkrCC3EtLi59TVawxTAn+orJwFQcrqEN1+g==",
+      "dev": true,
       "engines": {
         "node": ">=18"
       }
@@ -11780,6 +11307,7 @@
       "version": "5.0.0",
       "resolved": "https://registry.npmjs.org/yallist/-/yallist-5.0.0.tgz",
       "integrity": "sha512-YgvUTfwqyc7UXVMrB+SImsVYSmTS8X/tSrtdNZMImM+n7+QTriRXyXim0mBrTXNeqzVF0KWGgHPeiyViFFrNDw==",
+      "dev": true,
       "engines": {
         "node": ">=18"
       }
@@ -11902,6 +11430,7 @@
       "version": "0.2.12",
       "resolved": "https://registry.npmjs.org/tinyglobby/-/tinyglobby-0.2.12.tgz",
       "integrity": "sha512-qkf4trmKSIiMTs/E63cxH+ojC2unam7rJ0WrauAzpT3ECNTxGRMlaXxVbfxMUC/w0LaYk6jQ4y/nGR9uBO3tww==",
+      "dev": true,
       "dependencies": {
         "fdir": "^6.4.3",
         "picomatch": "^4.0.2"
@@ -11917,6 +11446,7 @@
       "version": "6.4.3",
       "resolved": "https://registry.npmjs.org/fdir/-/fdir-6.4.3.tgz",
       "integrity": "sha512-PMXmW2y1hDDfTSRc9gaXIuCCRpuoz3Kaz8cUelp3smouvfT632ozg2vrT6lJsHKKOF59YLbOGfAWGUcKEfRMQw==",
+      "dev": true,
       "peerDependencies": {
         "picomatch": "^3 || ^4"
       },
@@ -11930,6 +11460,7 @@
       "version": "4.0.2",
       "resolved": "https://registry.npmjs.org/picomatch/-/picomatch-4.0.2.tgz",
       "integrity": "sha512-M7BAV6Rlcy5u+m6oPhAPFgJTzAioX/6B0DxyvDlo9l8+T3nLKbrczg2WLUyzd45L8RqfUMyGPzekbMvX2Ldkwg==",
+      "dev": true,
       "engines": {
         "node": ">=12"
       },
@@ -11988,11 +11519,6 @@
         "node": ">=6"
       }
     },
-    "node_modules/tr46": {
-      "version": "0.0.3",
-      "resolved": "https://registry.npmjs.org/tr46/-/tr46-0.0.3.tgz",
-      "integrity": "sha512-N3WMsuqV66lT30CrXNbEjx4GEwlow3v6rr4mCcv6prnfwhS01rkgyFdjPNBYd9br7LpXV1+Emh01fHnq2Gdgrw=="
-    },
     "node_modules/traverse": {
       "version": "0.3.9",
       "resolved": "https://registry.npmjs.org/traverse/-/traverse-0.3.9.tgz",
@@ -12051,16 +11577,6 @@
       "resolved": "https://registry.npmjs.org/tty-browserify/-/tty-browserify-0.0.1.tgz",
       "integrity": "sha512-C3TaO7K81YvjCgQH9Q1S3R3P3BtN3RIM8n+OvX4il1K1zgE8ZhI0op7kClgkxtutIE8hQrcrHBXvIheqKUUCxw=="
     },
-    "node_modules/tunnel-agent": {
-      "version": "0.6.0",
-      "license": "Apache-2.0",
-      "dependencies": {
-        "safe-buffer": "^5.0.1"
-      },
-      "engines": {
-        "node": "*"
-      }
-    },
     "node_modules/type-fest": {
       "version": "4.38.0",
       "resolved": "https://registry.npmjs.org/type-fest/-/type-fest-4.38.0.tgz",
@@ -12159,6 +11675,7 @@
     },
     "node_modules/universalify": {
       "version": "2.0.1",
+      "dev": true,
       "license": "MIT",
       "engines": {
         "node": ">= 10.0.0"
@@ -12211,18 +11728,6 @@
       "integrity": "sha512-ev2QzSzWPYmy9GuqfIVildA4OdcGLeFZQrq5ys6RtiuF+RQQiZWr8TZNyAcuVXyQRYfEO+MsoB/1BuQVhOJuoQ==",
       "dev": true
     },
-    "node_modules/unzipper": {
-      "version": "0.12.3",
-      "resolved": "https://registry.npmjs.org/unzipper/-/unzipper-0.12.3.tgz",
-      "integrity": "sha512-PZ8hTS+AqcGxsaQntl3IRBw65QrBI6lxzqDEL7IAo/XCEqRTKGfOX56Vea5TH9SZczRVxuzk1re04z/YjuYCJA==",
-      "dependencies": {
-        "bluebird": "~3.7.2",
-        "duplexer2": "~0.1.4",
-        "fs-extra": "^11.2.0",
-        "graceful-fs": "^4.2.2",
-        "node-int64": "^0.4.0"
-      }
-    },
     "node_modules/update-browserslist-db": {
       "version": "1.1.2",
       "resolved": "https://registry.npmjs.org/update-browserslist-db/-/update-browserslist-db-1.1.2.tgz",
@@ -12404,11 +11909,6 @@
         "minimalistic-assert": "^1.0.0"
       }
     },
-    "node_modules/webidl-conversions": {
-      "version": "3.0.1",
-      "resolved": "https://registry.npmjs.org/webidl-conversions/-/webidl-conversions-3.0.1.tgz",
-      "integrity": "sha512-2JAn3z8AR6rjK8Sm8orRC0h/bcl/DqL7tRPdGZ4I1CjdF+EaMLmYxBHyXuKL849eucPFhvBoxMsflfOb8kxaeQ=="
-    },
     "node_modules/webpack": {
       "version": "5.99.7",
       "resolved": "https://registry.npmjs.org/webpack/-/webpack-5.99.7.tgz",
@@ -12765,17 +12265,9 @@
         "node": ">=0.8.0"
       }
     },
-    "node_modules/whatwg-url": {
-      "version": "5.0.0",
-      "resolved": "https://registry.npmjs.org/whatwg-url/-/whatwg-url-5.0.0.tgz",
-      "integrity": "sha512-saE57nupxk6v3HY35+jzBwYa0rKSy0XR8JSxZPwgLr7ys0IBzhGviA1/TUGJLmSVqs8pb9AnvICXEuOHLprYTw==",
-      "dependencies": {
-        "tr46": "~0.0.3",
-        "webidl-conversions": "^3.0.0"
-      }
-    },
     "node_modules/which": {
       "version": "2.0.2",
+      "dev": true,
       "license": "ISC",
       "dependencies": {
         "isexe": "^2.0.0"
@@ -12813,25 +12305,10 @@
       "integrity": "sha512-CC1bOL87PIWSBhDcTrdeLo6eGT7mCFtrg0uIJtqJUFyK+eJnzl8A1niH56uu7KMa5XFrtiV+AQuHO3n7DsHnLQ==",
       "dev": true
     },
-    "node_modules/wrap-ansi": {
-      "version": "7.0.0",
-      "resolved": "https://registry.npmjs.org/wrap-ansi/-/wrap-ansi-7.0.0.tgz",
-      "integrity": "sha512-YVGIj2kamLSTxw6NsZjoBxfSwsn0ycdesmc4p+Q21c5zPuZ1pl+NfxVdxPtdHvmNVOQ6XSYG4AUtyt/Fi7D16Q==",
-      "dependencies": {
-        "ansi-styles": "^4.0.0",
-        "string-width": "^4.1.0",
-        "strip-ansi": "^6.0.0"
-      },
-      "engines": {
-        "node": ">=10"
-      },
-      "funding": {
-        "url": "https://github.com/chalk/wrap-ansi?sponsor=1"
-      }
-    },
     "node_modules/wrap-ansi-cjs": {
       "name": "wrap-ansi",
       "version": "7.0.0",
+      "dev": true,
       "license": "MIT",
       "dependencies": {
         "ansi-styles": "^4.0.0",
@@ -12847,6 +12324,7 @@
     },
     "node_modules/wrappy": {
       "version": "1.0.2",
+      "dev": true,
       "license": "ISC"
     },
     "node_modules/ws": {
@@ -12886,14 +12364,6 @@
         "node": ">=16"
       }
     },
-    "node_modules/y18n": {
-      "version": "5.0.8",
-      "resolved": "https://registry.npmjs.org/y18n/-/y18n-5.0.8.tgz",
-      "integrity": "sha512-0pfFzegeDWJHJIAmTLRP2DwHjdF5s7jo9tuztdQxAhINCdvS+3nGINqPd00AphqJR/0LhANUS6/+7SCb98YOfA==",
-      "engines": {
-        "node": ">=10"
-      }
-    },
     "node_modules/yallist": {
       "version": "3.1.1",
       "resolved": "https://registry.npmjs.org/yallist/-/yallist-3.1.1.tgz",
@@ -12907,31 +12377,6 @@
         "node": ">= 6"
       }
     },
-    "node_modules/yargs": {
-      "version": "16.2.0",
-      "resolved": "https://registry.npmjs.org/yargs/-/yargs-16.2.0.tgz",
-      "integrity": "sha512-D1mvvtDG0L5ft/jGWkLpG1+m0eQxOfaBvTNELraWj22wSVUMWxZUvYgJYcKh6jGGIkJFhH4IZPQhR4TKpc8mBw==",
-      "dependencies": {
-        "cliui": "^7.0.2",
-        "escalade": "^3.1.1",
-        "get-caller-file": "^2.0.5",
-        "require-directory": "^2.1.1",
-        "string-width": "^4.2.0",
-        "y18n": "^5.0.5",
-        "yargs-parser": "^20.2.2"
-      },
-      "engines": {
-        "node": ">=10"
-      }
-    },
-    "node_modules/yargs-parser": {
-      "version": "20.2.9",
-      "resolved": "https://registry.npmjs.org/yargs-parser/-/yargs-parser-20.2.9.tgz",
-      "integrity": "sha512-y11nGElTIV+CT3Zv9t7VKl+Q3hTQoT9a1Qzezhhl6Rp21gJ/IVTW7Z3y9EWXhuUBC2Shnf+DX0antecpAwSP8w==",
-      "engines": {
-        "node": ">=10"
-      }
-    },
     "node_modules/yocto-queue": {
       "version": "0.1.0",
       "resolved": "https://registry.npmjs.org/yocto-queue/-/yocto-queue-0.1.0.tgz",
diff --git a/jbrowse/package.json b/jbrowse/package.json
index dd53d10bc..210a95c24 100644
--- a/jbrowse/package.json
+++ b/jbrowse/package.json
@@ -6,8 +6,7 @@
     "setup": "npm ci",
     "build": "npm run build-dev",
     "start": "cross-env NODE_ENV=development webpack serve --config ./config/watch.config.js",
-    "build-no-pkg": "npm run clean && cross-env NODE_ENV=development webpack --config ./config/dev.config.js --progress --profile",
-    "build-dev": "npm run build-no-pkg",
+    "build-dev": "npm run clean && cross-env NODE_ENV=development webpack --config ./config/dev.config.js --progress --profile",
     "build-prod": "npm run clean && cross-env NODE_ENV=production PROD_SOURCE_MAP=source-map webpack --config ./config/prod.config.js --progress --profile",
     "clean": "rimraf resources/web/gen && rimraf resources/web/jbrowse/gen && rimraf resources/views/gen",
     "jb-sea:fetch": "node ./resources/external/fetch-jbrowse-bundle.mjs",
@@ -25,7 +24,6 @@
     "@labkey/api": "^1.39.0",
     "@labkey/components": "^6.32.2",
     "@mui/x-data-grid": "^7.28.1",
-    "@yao-pkg/pkg": "^6.3.2",
     "assert": "^2.1.0",
     "browserify-zlib": "^0.2.0",
     "buffer": "^6.0.3",

From 2c6072cf3bc664cc588fcdf6fa7164816f387437 Mon Sep 17 00:00:00 2001
From: Sebastian Benjamin <sebastiancbenjamin@gmail.com>
Date: Wed, 20 Aug 2025 11:26:04 -0700
Subject: [PATCH 8/8] Add unzipper as a fallback for cli unzip

---
 jbrowse/package-lock.json                | 390 +++--------------------
 jbrowse/package.json                     |   2 +-
 jbrowse/resources/external/build-sea.mjs |  52 +--
 3 files changed, 81 insertions(+), 363 deletions(-)

diff --git a/jbrowse/package-lock.json b/jbrowse/package-lock.json
index 938aecb1c..5a1abd52f 100644
--- a/jbrowse/package-lock.json
+++ b/jbrowse/package-lock.json
@@ -49,7 +49,7 @@
         "rimraf": "^6.0.1",
         "tar": "^7.4.3",
         "typescript": "^5.1.6",
-        "unzip": "^0.1.11"
+        "unzipper": "^0.12.3"
       }
     },
     "node_modules/@adobe/css-tools": {
@@ -4953,19 +4953,6 @@
         "node": "*"
       }
     },
-    "node_modules/binary": {
-      "version": "0.3.0",
-      "resolved": "https://registry.npmjs.org/binary/-/binary-0.3.0.tgz",
-      "integrity": "sha512-D4H1y5KYwpJgK8wk1Cue5LLPgmwHKYSChkbspQg5JtVuR5ulGckxfR62H3AE9UDkdMC8yyXlqYihuz3Aqg2XZg==",
-      "dev": true,
-      "dependencies": {
-        "buffers": "~0.1.1",
-        "chainsaw": "~0.1.0"
-      },
-      "engines": {
-        "node": "*"
-      }
-    },
     "node_modules/binary-extensions": {
       "version": "2.3.0",
       "resolved": "https://registry.npmjs.org/binary-extensions/-/binary-extensions-2.3.0.tgz",
@@ -4978,6 +4965,13 @@
         "url": "https://github.com/sponsors/sindresorhus"
       }
     },
+    "node_modules/bluebird": {
+      "version": "3.7.2",
+      "resolved": "https://registry.npmjs.org/bluebird/-/bluebird-3.7.2.tgz",
+      "integrity": "sha512-XpNj6GDQzdfW+r2Wnn7xiSAd7TM3jzkxGXBGTtWKuSXv1xUV+azxAm8jdWZN06QTQk+2N2XB9jRDkvbmQmcRtg==",
+      "dev": true,
+      "license": "MIT"
+    },
     "node_modules/bn.js": {
       "version": "5.2.1",
       "resolved": "https://registry.npmjs.org/bn.js/-/bn.js-5.2.1.tgz",
@@ -5230,15 +5224,6 @@
       "resolved": "https://registry.npmjs.org/buffer-xor/-/buffer-xor-1.0.3.tgz",
       "integrity": "sha512-571s0T7nZWK6vB67HI5dyUF7wXiNcfaPPPTl6zYCNApANjIvYJTg7hlud/+cJpdAhS7dVzqMLmfhfHR3rAcOjQ=="
     },
-    "node_modules/buffers": {
-      "version": "0.1.1",
-      "resolved": "https://registry.npmjs.org/buffers/-/buffers-0.1.1.tgz",
-      "integrity": "sha512-9q/rDEGSb/Qsvv2qvzIzdluL5k7AaJOTrw23z9reQthrbF7is4CtlT0DXyO1oei2DCp4uojjzQ7igaSHp1kAEQ==",
-      "dev": true,
-      "engines": {
-        "node": ">=0.2.0"
-      }
-    },
     "node_modules/builtin-status-codes": {
       "version": "3.0.0",
       "resolved": "https://registry.npmjs.org/builtin-status-codes/-/builtin-status-codes-3.0.0.tgz",
@@ -5382,18 +5367,6 @@
       "integrity": "sha512-kY1AZVr2Ra+t+piVaJ4gxaFaReZVH40AKNo7UCX6W+dEwBo/2oZJzqfuN1qLq1oL45o56cPaTXELwrTh8Fpggg==",
       "optional": true
     },
-    "node_modules/chainsaw": {
-      "version": "0.1.0",
-      "resolved": "https://registry.npmjs.org/chainsaw/-/chainsaw-0.1.0.tgz",
-      "integrity": "sha512-75kWfWt6MEKNC8xYXIdRpDehRYY/tNSgwKaJq+dbbDcxORuVrrQ+SEHoWsniVn9XPYfP4gmdWIeDk/4YNp1rNQ==",
-      "dev": true,
-      "dependencies": {
-        "traverse": ">=0.3.0 <0.4"
-      },
-      "engines": {
-        "node": "*"
-      }
-    },
     "node_modules/chalk": {
       "version": "3.0.0",
       "resolved": "https://registry.npmjs.org/chalk/-/chalk-3.0.0.tgz",
@@ -6420,6 +6393,16 @@
       "dev": true,
       "license": "MIT"
     },
+    "node_modules/duplexer2": {
+      "version": "0.1.4",
+      "resolved": "https://registry.npmjs.org/duplexer2/-/duplexer2-0.1.4.tgz",
+      "integrity": "sha512-asLFVfWWtJ90ZyOUHMqk7/S2w2guQKxUI2itj3d92ADHhxUSbCMGi1f1cBcJ7xM1To+pE/Khbwo1yuNbMEPKeA==",
+      "dev": true,
+      "license": "BSD-3-Clause",
+      "dependencies": {
+        "readable-stream": "^2.0.2"
+      }
+    },
     "node_modules/eastasianwidth": {
       "version": "0.2.0",
       "dev": true,
@@ -7085,18 +7068,27 @@
       "version": "0.0.1-security",
       "license": "ISC"
     },
+    "node_modules/fs-extra": {
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+      "resolved": "https://registry.npmjs.org/fs-extra/-/fs-extra-11.3.1.tgz",
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       "version": "1.1.2",
       "resolved": "https://registry.npmjs.org/update-browserslist-db/-/update-browserslist-db-1.1.2.tgz",
@@ -12322,11 +12037,6 @@
         "url": "https://github.com/chalk/wrap-ansi?sponsor=1"
       }
     },
-    "node_modules/wrappy": {
-      "version": "1.0.2",
-      "dev": true,
-      "license": "ISC"
-    },
     "node_modules/ws": {
       "version": "8.18.1",
       "resolved": "https://registry.npmjs.org/ws/-/ws-8.18.1.tgz",
diff --git a/jbrowse/package.json b/jbrowse/package.json
index 210a95c24..b8823a270 100644
--- a/jbrowse/package.json
+++ b/jbrowse/package.json
@@ -55,6 +55,6 @@
     "rimraf": "^6.0.1",
     "tar": "^7.4.3",
     "typescript": "^5.1.6",
-    "unzip": "^0.1.11"
+    "unzipper": "^0.12.3"
   }
 }
diff --git a/jbrowse/resources/external/build-sea.mjs b/jbrowse/resources/external/build-sea.mjs
index ad105f4e1..baae7c2f2 100644
--- a/jbrowse/resources/external/build-sea.mjs
+++ b/jbrowse/resources/external/build-sea.mjs
@@ -6,13 +6,14 @@
 //     cli-win.exe, cli-linux, cli-macos
 // - Cleans up temp files and resources/external/jbrowse.js at the end
 
-import { execFileSync, execSync, spawnSync } from 'node:child_process';
+import { execFileSync, execSync } from 'node:child_process';
 import {
   copyFileSync, chmodSync, existsSync, mkdirSync, rmSync, renameSync, writeFileSync
 } from 'node:fs';
-import { basename, join, resolve } from 'node:path';
+import { join, resolve } from 'node:path';
 import https from 'node:https';
-import { createWriteStream } from 'node:fs';
+import { createWriteStream, createReadStream } from 'node:fs';
+import * as unzipper from 'unzipper';
 
 const ROOT = resolve('.');
 const OUTDIR = join(ROOT, 'resources', 'external', 'jb-cli');
@@ -81,12 +82,31 @@ function runPostject(args){
   shellOrThrow(`npm exec -y ${POSTJECT_PKG} -- ${args.map(a=>`"${a}"`).join(' ')}`);
 }
 
-function extractZip(zipPath, outDir){
+async function extractZip(zipPath, outDir){
   if (process.platform === 'win32') {
-    shellOrThrow(`powershell -NoProfile -Command "Expand-Archive -Force '${zipPath.replace(/'/g, "''")}' '${outDir.replace(/'/g, "''")}'"`);
+    try {
+      shellOrThrow(`powershell -NoProfile -Command "Expand-Archive -Force '${zipPath.replace(/'/g, "''")}' '${outDir.replace(/'/g, "''")}'"`);
+      return;
+    } catch (e) {
+      // Fall through to unzipper if PowerShell isn’t present or fails
+    }
   } else {
-    shellOrThrow(`unzip -o "${zipPath}" -d "${outDir}"`);
+    // POSIX: try `unzip` if present
+    try {
+      shellOrThrow(`unzip -o "${zipPath}" -d "${outDir}"`);
+      return;
+    } catch (e) {
+      // Fall through to unzipper
+    }
   }
+
+  await new Promise((resolveP, rejectP) => {
+    const stream = createReadStream(zipPath)
+      .pipe(unzipper.Extract({ path: outDir }));
+
+    stream.on('close', resolveP);
+    stream.on('error', rejectP);
+  });
 }
 
 // extract only bin/node from tar.xz to avoid symlink issues on Windows
@@ -109,11 +129,11 @@ function injectForTarget(target, outName, archiveExt, blobPath){
 
   log(`\n=== Target ${target} ===`);
   log(`Downloading: ${distUrl}`);
-  httpDownload(distUrl, dlPath).then(()=>{
+  return httpDownload(distUrl, dlPath).then(async ()=>{
     log('Extracting…');
     let nodePath;
     if (archiveExt === 'zip') {
-      extractZip(dlPath, TMPDIR);
+      await extractZip(dlPath, TMPDIR);
       nodePath = nodeBinaryPathFromExtract(TMPDIR, target);
     } else {
       nodePath = extractNodeFromTarXz(dlPath, TMPDIR, target);
@@ -139,7 +159,7 @@ function injectForTarget(target, outName, archiveExt, blobPath){
     rmSync(dlPath, { force: true });
     try { rmSync(join(TMPDIR, `node-v${NODE_VERSION}-${target}`), { recursive: true, force: true }); } catch {}
     log(`Wrote ${finalPath}`);
-  }).catch(fail);
+  });
 }
 
 function buildBlobOnce(){
@@ -161,19 +181,7 @@ async function main(){
   const blob = buildBlobOnce();
 
   for (const [target, outName, ext] of TARGETS) {
-    await new Promise((resolveP, rejectP)=>{
-      try {
-        injectForTarget(target, outName, ext, blob);
-        const interval = setInterval(()=>{
-          if (existsSync(join(OUTDIR, outName))) {
-            clearInterval(interval);
-            resolveP();
-          }
-        }, 500);
-      } catch (e) {
-        rejectP(e);
-      }
-    });
+    await injectForTarget(target, outName, ext, blob);
   }
 
   try { rmSync(TMPDIR, { recursive: true, force: true }); } catch {}