Fix npm ci with file: dependencies

Partially reverts #40/#86, keeping the "Don't record linked deps as bundled" part but reverting the "Don't iterate into linked deps" part. It seems that we need to record dependencies of linked deps in order for `npm ci` to work.

Fixes https://npm.community/t/6-8-0-npm-ci-fails-with-local-dependency/5385
Fixes https://npm.community/t/npm-ci-fail-to-local-packages/6076

lib/shrinkwrap.js

@@ -111,7 +111,6 @@ function shrinkwrapDeps (deps, top, tree, seen) {
     var pkginfo = deps[moduleName(child)] = {}
     var requested = getRequested(child) || child.package._requested || {}
     var linked = child.isLink || child.isInLink
-    var linkedFromHere = linked && path.relative(top.realpath, child.realpath)[0] !== '.'
     pkginfo.version = childVersion(top, child, requested)
     if (requested.type === 'git' && child.package._from) {
       pkginfo.from = child.package._from
@@ -142,7 +141,7 @@ function shrinkwrapDeps (deps, top, tree, seen) {
       })
     }
     // iterate into children on non-links and links contained within the top level package
-    if (child.children.length && (!child.isLink || linkedFromHere)) {
+    if (child.children.length) {
       pkginfo.dependencies = {}
       shrinkwrapDeps(pkginfo.dependencies, top, child, seen)
     }

test/tap/ci-with-local-dependency.js

@@ -0,0 +1,83 @@
+var fs = require('graceful-fs')
+var path = require('path')
+
+var mkdirp = require('mkdirp')
+var osenv = require('osenv')
+var rimraf = require('rimraf')
+var test = require('tap').test
+
+var common = require('../common-tap.js')
+
+var pkg = common.pkg
+
+var EXEC_OPTS = { cwd: pkg, stdio: [0, 1, 2] }
+
+var localDependencyJson = {
+  name: 'local-dependency',
+  version: '0.0.0',
+  dependencies: {
+    underscore: '1.5.1'
+  }
+}
+
+var dependentJson = {
+  name: 'dependent',
+  version: '0.0.0',
+  dependencies: {
+    'local-dependency': '../local-dependency'
+  }
+}
+
+var target = path.resolve(pkg, '../local-dependency')
+
+test('setup', function (t) {
+  cleanup()
+  t.end()
+})
+
+test('\'npm install\' should install local pkg from sub path', function (t) {
+  setup()
+  common.npm(['install', '--loglevel=silent'], EXEC_OPTS, function (err, code) {
+    if (err) throw err
+    t.equal(code, 0, 'npm install exited with code')
+    t.ok(fs.statSync(path.resolve(pkg, 'node_modules/local-dependency/package.json')).isFile(), 'local dependency package.json exists')
+    t.ok(fs.statSync(path.resolve(pkg, 'node_modules/local-dependency/node_modules/underscore')).isDirectory(), 'transitive dependency installed')
+    t.end()
+  })
+})
+
+test('\'npm ci\' should work', function (t) {
+  common.npm(['ci', '--loglevel=silent'], EXEC_OPTS, function (err, code) {
+    if (err) throw err
+    t.equal(code, 0, 'npm install exited with code')
+    t.ok(fs.statSync(path.resolve(pkg, 'node_modules/local-dependency/package.json')).isFile(), 'local dependency package.json exists')
+    t.ok(fs.statSync(path.resolve(pkg, 'node_modules/local-dependency/node_modules/underscore')).isDirectory(), 'transitive dependency installed')
+    t.end()
+  })
+})
+
+test('cleanup', function (t) {
+  cleanup()
+  t.end()
+})
+
+function cleanup () {
+  process.chdir(osenv.tmpdir())
+  rimraf.sync(pkg)
+  rimraf.sync(target)
+}
+
+function setup () {
+  cleanup()
+  mkdirp.sync(target)
+  fs.writeFileSync(
+    path.join(target, 'package.json'),
+    JSON.stringify(localDependencyJson, null, 2)
+  )
+  mkdirp.sync(pkg)
+  fs.writeFileSync(
+    path.join(pkg, 'package.json'),
+    JSON.stringify(dependentJson, null, 2)
+  )
+  process.chdir(pkg)
+}

test/tap/spec-local-specifiers.js

@@ -585,7 +585,9 @@ test('save behavior', function (t) {
       var deps = pjson.dependencies || {}
       t.is(deps['sb-transitive'], 'file:../sb-transitive', 'package.json')
       var sdep = shrinkwrap.dependencies['sb-transitive'] || {}
-      t.like(sdep, {bundled: null, dependencies: null, version: 'file:../sb-transitive'}, 'npm-shrinkwrap.json direct dep')
+      var tdep = sdep.dependencies.sbta
+      t.like(tdep, {bundled: true, version: 'file:../sb-transitive/sbta'}, 'npm-shrinkwrap.json transitive dep')
+      t.like(sdep, {bundled: null, version: 'file:../sb-transitive'}, 'npm-shrinkwrap.json direct dep')
       t.done()
     })
   })