Don't set the update query param on Windows

Remove space pen views from docs

apm/package.json

@@ -6,6 +6,6 @@
     "url": "https://github.com/atom/atom.git"
   },
   "dependencies": {
-    "atom-package-manager": "0.109.0"
+    "atom-package-manager": "0.111.0"
   }
 }

build/Gruntfile.coffee

@@ -6,7 +6,6 @@ os = require 'os'
 # modules work under node v0.11.x.
 require 'vm-compatibility-layer'
 
-fm = require 'json-front-matter'
 _ = require 'underscore-plus'
 
 packageJson = require '../package.json'
@@ -22,9 +21,9 @@ module.exports = (grunt) ->
   grunt.loadNpmTasks('grunt-contrib-csslint')
   grunt.loadNpmTasks('grunt-contrib-coffee')
   grunt.loadNpmTasks('grunt-contrib-less')
-  grunt.loadNpmTasks('grunt-markdown')
   grunt.loadNpmTasks('grunt-shell')
   grunt.loadNpmTasks('grunt-download-atom-shell')
+  grunt.loadNpmTasks('grunt-atom-shell-installer')
   grunt.loadNpmTasks('grunt-peg')
   grunt.loadTasks('tasks')
 
@@ -194,32 +193,19 @@ module.exports = (grunt) ->
         'static/**/*.less'
       ]
 
-    markdown:
-      guides:
-        files: [
-          expand: true
-          cwd: 'docs'
-          src: '**/*.md'
-          dest: 'docs/output/'
-          ext: '.html'
-        ]
-        options:
-          template: 'docs/template.jst'
-          templateContext:
-            tag: "v#{major}.#{minor}"
-          markdownOptions:
-            gfm: true
-          preCompile: (src, context) ->
-            parsed = fm.parse(src)
-            _.extend(context, parsed.attributes)
-            parsed.body
-
     'download-atom-shell':
       version: packageJson.atomShellVersion
       outputDir: 'atom-shell'
       downloadDir: atomShellDownloadDir
       rebuild: true  # rebuild native modules after atom-shell is updated
 
+    'create-windows-installer':
+      appDirectory: shellAppDir
+      outputDirectory: path.join(buildDir, 'installer')
+      authors: 'GitHub Inc.'
+      loadingGif: path.resolve(__dirname, '..', 'resources', 'win', 'loading.gif')
+      iconUrl: 'https://raw.githubusercontent.com/atom/atom/master/resources/win/atom.ico'
+
     shell:
       'kill-atom':
         command: killCommand
@@ -237,6 +223,7 @@ module.exports = (grunt) ->
   ciTasks.push('dump-symbols') if process.platform isnt 'win32'
   ciTasks.push('set-version', 'check-licenses', 'lint')
   ciTasks.push('mkdeb') if process.platform is 'linux'
+  ciTasks.push('create-windows-installer') if process.platform is 'win32'
   ciTasks.push('test') if process.platform is 'darwin'
   ciTasks.push('codesign')
   ciTasks.push('publish-build')

build/package.json

@@ -7,11 +7,12 @@
   },
   "dependencies": {
     "async": "~0.2.9",
-    "donna": "1.0.6",
+    "donna": "1.0.7",
     "formidable": "~1.0.14",
     "fs-plus": "2.x",
     "github-releases": "~0.2.0",
     "grunt": "~0.4.1",
+    "grunt-atom-shell-installer": "^0.10.0",
     "grunt-cli": "~0.1.9",
     "grunt-coffeelint": "git+https://github.com/atom/grunt-coffeelint.git#cfb99aa99811d52687969532bd5a98011ed95bfe",
     "grunt-contrib-coffee": "~0.9.0",
@@ -20,17 +21,13 @@
     "grunt-cson": "0.10.0",
     "grunt-download-atom-shell": "~0.10.0",
     "grunt-lesslint": "0.13.0",
-    "grunt-markdown": "~0.4.0",
     "grunt-peg": "~1.1.0",
     "grunt-shell": "~0.3.1",
     "harmony-collections": "~0.3.8",
-    "json-front-matter": "~0.1.3",
-    "legal-eagle": "~0.4.0",
+    "legal-eagle": "~0.6.0",
     "minidump": "~0.8",
-    "normalize-package-data": "0.2.12",
     "npm": "~1.4.5",
-    "rcedit": "~0.1.2",
-    "read-package-json": "1.1.8",
+    "rcedit": "~0.3.0",
     "request": "~2.27.0",
     "rimraf": "~2.2.2",
     "runas": "~1.0.1",

build/tasks/build-task.coffee

@@ -11,6 +11,7 @@ module.exports = (grunt) ->
     appDir = grunt.config.get('atom.appDir')
 
     rm shellAppDir
+    rm path.join(buildDir, 'installer')
     mkdir path.dirname(buildDir)
 
     if process.platform is 'darwin'

build/tasks/check-licenses-task.coffee

@@ -1,4 +1,3 @@
-
 module.exports = (grunt) ->
   grunt.registerTask 'check-licenses', 'Report the licenses of all dependencies', ->
     legalEagle = require 'legal-eagle'
@@ -13,7 +12,7 @@ module.exports = (grunt) ->
     legalEagle options, (err, summary) ->
       if err?
         console.error(err)
-        exit 1
+        process.exit 1
 
       for key of summary
         delete summary[key] if key.match /^atom@/

build/tasks/codesign-task.coffee

@@ -36,7 +36,7 @@ module.exports = (grunt) ->
           spawn {cmd, args}, (error) ->
             return callback(error) if error?
 
-            setupExePath = path.join(grunt.config.get('atom.shellAppDir'), '..', 'Releases', 'setup.exe')
+            setupExePath = path.resolve(grunt.config.get('atom.buildDir'), 'installer', 'AtomSetup.exe')
             if fs.isFileSync(setupExePath)
               args = [setupExePath]
               spawn {cmd, args}, (error) -> callback(error)

build/tasks/create-installer.coffee

@@ -1,46 +0,0 @@
-fs = require 'fs'
-path = require 'path'
-_ = require 'underscore-plus'
-
-module.exports = (grunt) ->
-  {spawn, rm} = require('./task-helpers')(grunt)
-
-  grunt.registerTask 'create-installer', 'Create the Windows installer', ->
-    return unless process.platform is 'win32'
-
-    done = @async()
-
-    buildDir = grunt.config.get('atom.buildDir')
-    atomDir = path.join(buildDir, 'Atom')
-    releasesDir = path.join(buildDir, 'Releases')
-    atomGitHubToken = process.env.ATOM_ACCESS_TOKEN
-
-    packageInfo = grunt.file.readJSON(path.join(atomDir, 'resources', 'app', 'package.json'))
-    inputTemplate = grunt.file.read(path.join('build', 'windows', 'atom.nuspec.erb'))
-
-    # NB: Build server has some sort of stamp on the version number
-    packageInfo.version = packageInfo.version.replace(/-.*$/, '')
-
-    targetNuspecPath = path.join(buildDir, 'atom.nuspec')
-    grunt.file.write(targetNuspecPath, _.template(inputTemplate, packageInfo))
-
-    # We use the previous releases to build deltas for the current release,
-    # sync down the existing releases directory by rolling through GitHub releases
-    cmd = 'build/windows/SyncGitHubReleases.exe'
-    args = ['-r', releasesDir, '-u', 'https://github.com/atom/atom', '-t', atomGitHubToken]
-
-    spawn {cmd, args}, (error, result, code) ->
-      if error?
-        grunt.log.error "ATOM_ACCESS_TOKEN environment variable not set or invalid, can't download old releases; continuing anyways"
-
-      cmd = 'build/windows/nuget.exe'
-      args = ['pack', targetNuspecPath, '-BasePath', atomDir, '-OutputDirectory', buildDir]
-
-      spawn {cmd, args}, (error, result, code) ->
-        return done(error) if error?
-
-        pkgs = pkg for pkg in fs.readdirSync(buildDir) when path.extname(pkg) is '.nupkg'
-
-        cmd = 'build/windows/update.com'
-        args = ['--releasify', path.join(buildDir, pkgs), '-r', releasesDir, '-g', 'build/windows/install-spinner.gif']
-        spawn {cmd, args}, (error, result, code) -> done(error)

build/tasks/docs-task.coffee

@@ -6,12 +6,17 @@ _ = require 'underscore-plus'
 donna = require 'donna'
 tello = require 'tello'
 
+moduleBlacklist = [
+  'space-pen'
+]
+
 module.exports = (grunt) ->
   getClassesToInclude = ->
     modulesPath = path.resolve(__dirname, '..', '..', 'node_modules')
     classes = {}
     fs.traverseTreeSync modulesPath, (modulePath) ->
       return false if modulePath.match(/node_modules/g).length > 1 # dont need the dependencies of the dependencies
+      return false if path.basename(modulePath) in moduleBlacklist
       return true unless path.basename(modulePath) is 'package.json'
       return true unless fs.isFileSync(modulePath)
 

build/tasks/publish-build-task.coffee

@@ -54,6 +54,11 @@ module.exports = (gruntObject) ->
           uploadAssets(release, buildDir, assets, done)
 
 getAssets = ->
+  {cp} = require('./task-helpers')(grunt)
+
+  {version} = grunt.file.readJSON('package.json')
+  buildDir = grunt.config.get('atom.buildDir')
+
   switch process.platform
     when 'darwin'
       [
@@ -62,16 +67,16 @@ getAssets = ->
         {assetName: 'atom-api.json', sourcePath: 'atom-api.json'}
       ]
     when 'win32'
-      [
-        {assetName: 'atom-windows.zip', sourcePath: 'Atom'}
-      ]
+      assets = [{assetName: 'atom-windows.zip', sourcePath: 'Atom'}]
+      for squirrelAsset in ['AtomSetup.exe', 'RELEASES', "atom-#{version}-full.nupkg"]
+        cp path.join(buildDir, 'installer', squirrelAsset), path.join(buildDir, squirrelAsset)
+        assets.push({assetName: squirrelAsset, sourcePath: assetName})
+      assets
     when 'linux'
-      buildDir = grunt.config.get('atom.buildDir')
       if process.arch is 'ia32'
         arch = 'i386'
       else
         arch = 'amd64'
-      {version} = grunt.file.readJSON('package.json')
 
       # Check for a Debian build
       sourcePath = "#{buildDir}/atom-#{version}-#{arch}.deb"
@@ -87,7 +92,6 @@ getAssets = ->
           arch = 'x86_64'
         assetName = "atom.#{arch}.rpm"
 
-      {cp} = require('./task-helpers')(grunt)
       cp sourcePath, path.join(buildDir, assetName)
 
       [

build/windows/atom.nuspec.erb

@@ -1,32 +0,0 @@
-<?xml version="1.0" encoding="utf-8"?>
-<package xmlns="http://schemas.microsoft.com/packaging/2010/07/nuspec.xsd">
-    <metadata>
-        <id><%= name %></id>
-        <version><%= version %></version>
-        <authors>The Atom Community</authors>
-        <owners>The Atom Community</owners>
-        <iconUrl>https://raw.githubusercontent.com/atom/atom/master/resources/win/atom.ico</iconUrl>
-        <requireLicenseAcceptance>false</requireLicenseAcceptance>
-        <description><%= description %></description>
-    </metadata>
-    <files>
-        <file src="locales\**" target="lib\net45\locales" />
-        <file src="resources\**" target="lib\net45\resources" />
-        <file src="*.pak" target="lib\net45" />
-
-        <file src="atom.exe" target="lib\net45\atom.exe" />
-        <file src="atom.exe.gui" target="lib\net45\atom.exe.gui" />
-        <file src="chromiumcontent.dll" target="lib\net45\chromiumcontent.dll" />
-        <file src="d3dcompiler_43.dll" target="lib\net45\d3dcompiler_43.dll" />
-        <file src="ffmpegsumo.dll" target="lib\net45\ffmpegsumo.dll" />
-        <file src="icudtl.dat" target="lib\net45\icudtl.dat" />
-        <file src="libEGL.dll" target="lib\net45\libEGL.dll" />
-        <file src="libGLESv2.dll" target="lib\net45\libGLESv2.dll" />
-        <file src="LICENSE" target="lib\net45\LICENSE" />
-        <file src="msvcp120.dll" target="lib\net45\msvcp120.dll" />
-        <file src="msvcr120.dll" target="lib\net45\msvcr120.dll" />
-        <file src="vccorlib120.dll" target="lib\net45\vccorlib120.dll" />
-        <file src="version" target="lib\net45\version" />
-        <file src="xinput1_3.dll" target="lib\net45\xinput1_3.dll" />
-    </files>
-</package>

docs/README.md

@@ -1,60 +1,5 @@
-# Welcome to the Atom API Documentation
+# Welcome to the Atom Docs
 
 ![Atom](https://cloud.githubusercontent.com/assets/72919/2874231/3af1db48-d3dd-11e3-98dc-6066f8bc766f.png)
 
-## FAQ
-
-### Where do I start?
-
-Check out [EditorView][EditorView] and [Editor][Editor] classes for a good
-overview of the main editor API.
-
-### How do I access these classes?
-
-Check out the [Atom][Atom] class docs to see what globals are available and
-what they provide.
-
-You can also require many of these classes in your package via:
-
-```coffee
-{EditorView} = require 'atom'
-```
-
-The classes available from `require 'atom'` are:
-  * [BufferedProcess][BufferedProcess]
-  * [BufferedNodeProcess][BufferedNodeProcess]
-  * [EditorView][EditorView]
-  * [Git][Git]
-  * [Point][Point]
-  * [Range][Range]
-  * [ScrollView][ScrollView]
-  * [SelectListView][SelectListView]
-  * [View][View]
-  * [WorkspaceView][WorkspaceView]
-  * [Workspace][Workspace]
-
-### How do I create a package?
-
-You probably want to read the [creating a package][creating-a-package]
-doc first and come back here when you are done.
-
-### Where are the node docs?
-
-Atom ships with node 0.11.10 and the comprehensive node API docs are available
-[here][node-docs].
-
-[Atom]: ../classes/Atom.html
-[BufferedProcess]: ../classes/BufferedProcess.html
-[BufferedNodeProcess]: ../classes/BufferedNodeProcess.html
-[Editor]: ../classes/Editor.html
-[EditorView]: ../classes/EditorView.html
-[Git]: ../classes/Git.html
-[Point]: ../classes/Point.html
-[Range]: ../classes/Range.html
-[ScrollView]: ../classes/ScrollView.html
-[SelectListView]: ../classes/SelectListView.html
-[View]: ../classes/View.html
-[WorkspaceView]: ../classes/WorkspaceView.html
-[Workspace]: ../classes/Workspace.html
-[creating-a-package]: https://atom.io/docs/latest/creating-a-package
-[node-docs]: http://nodejs.org/docs/v0.11.10/api
+TODO: Write when docs move to a dedicated repo.

docs/advanced/keymaps.md

@@ -16,7 +16,7 @@ keystrokes pass through `atom-text-editor` elements:
   'ctrl-shift-e': 'editor:select-to-end-of-line'
   'cmd-left': 'editor:move-to-first-character-of-line'
 
-'atom-text-editor:not(.mini)'
+'atom-text-editor:not([mini])'
   'cmd-alt-[': 'editor:fold-current-row'
   'cmd-alt-]': 'editor:unfold-current-row'
 ```
@@ -27,8 +27,8 @@ patterns* to *commands*. When an element with the `atom-text-editor` class is fo
 `editor:delete-to-beginning-of-line` is emitted on the `atom-text-editor` element.
 
 The second selector group also targets editors, but only if they don't have the
-`.mini` class. In this example, the commands for code folding don't really make
-sense on mini-editors, so the selector restricts them to regular editors.
+`mini` attribute. In this example, the commands for code folding don't really
+make sense on mini-editors, so the selector restricts them to regular editors.
 
 ### Keystroke Patterns
 

docs/build-instructions/linux.md

@@ -43,7 +43,7 @@ If you have problems with permissions don't forget to prefix with `sudo`
 2. Checkout the latest Atom release:
 
   ```sh
-  git fetch
+  git fetch -p
   git checkout $(git describe --tags `git rev-list --tags --max-count=1`)
   ```
 

docs/customizing-atom.md

@@ -63,7 +63,7 @@ built-in keymaps:
 'atom-text-editor':
   'enter': 'editor:newline'
 
-'atom-text-editor.mini input':
+'atom-text-editor[mini] input':
   'enter': 'core:confirm'
 ```
 

docs/index.md

@@ -20,3 +20,8 @@
 * [Serialization](advanced/serialization.md)
 * [View System](advanced/view-system.md)
 * [Scopes and Scope Descriptors](advanced/scopes-and-scope-descriptors.md)
+
+### Upgrading to 1.0 APIs
+
+* [Upgrading Your UI Theme Or Package Selectors](upgrading/upgrading-your-ui-theme.md)
+* [Upgrading Your Syntax Theme](upgrading/upgrading-your-syntax-theme.md)

docs/template.jst

@@ -1,150 +0,0 @@
-<!DOCTYPE html>
-<html lang="en">
-  <head>
-    <meta charset="utf-8">
-    <meta name="viewport" content="width=device-width, initial-scale=1.0">
-
-    <link href="//netdna.bootstrapcdn.com/bootstrap/3.0.0/css/bootstrap.min.css" rel="stylesheet">
-    <link rel="stylesheet" href="//netdna.bootstrapcdn.com/bootstrap/3.0.0/css/bootstrap-theme.min.css">
-    <!-- HTML5 shim and Respond.js IE8 support of HTML5 elements and media queries -->
-    <!--[if lt IE 9]>
-      <script src="../../assets/js/html5shiv.js"></script>
-      <script src="../../assets/js/respond.min.js"></script>
-    <![endif]-->
-
-    <title>Atom - <%= title %></title>
-    <style>
-      /*github.com style (c) Vasily Polovnyov <vast@whiteants.net>*/
-      pre code {
-        display: block; padding: 0.5em;
-        color: #333;
-        background: #f8f8ff
-      }
-      pre .comment,
-      pre .template_comment,
-      pre .diff .header,
-      pre .javadoc {
-        color: #998;
-        font-style: italic
-      }
-      pre .keyword,
-      pre .css .rule .keyword,
-      pre .winutils,
-      pre .javascript .title,
-      pre .nginx .title,
-      pre .subst,
-      pre .request,
-      pre .status {
-        color: #333;
-        font-weight: bold
-      }
-      pre .number,
-      pre .hexcolor,
-      pre .ruby .constant {
-        color: #099;
-      }
-      pre .string,
-      pre .tag .value,
-      pre .phpdoc,
-      pre .tex .formula {
-        color: #d14
-      }
-      pre .title,
-      pre .id {
-        color: #900;
-        font-weight: bold
-      }
-      pre .javascript .title,
-      pre .lisp .title,
-      pre .clojure .title,
-      pre .subst {
-        font-weight: normal
-      }
-      pre .class .title,
-      pre .haskell .type,
-      pre .vhdl .literal,
-      pre .tex .command {
-        color: #458;
-        font-weight: bold
-      }
-      pre .tag,
-      pre .tag .title,
-      pre .rules .property,
-      pre .django .tag .keyword {
-        color: #000080;
-        font-weight: normal
-      }
-      pre .attribute,
-      pre .variable,
-      pre .lisp .body {
-        color: #008080
-      }
-      pre .regexp {
-        color: #009926
-      }
-      pre .class {
-        color: #458;
-        font-weight: bold
-      }
-      pre .symbol,
-      pre .ruby .symbol .string,
-      pre .lisp .keyword,
-      pre .tex .special,
-      pre .prompt {
-        color: #990073
-      }
-      pre .built_in,
-      pre .lisp .title,
-      pre .clojure .built_in {
-        color: #0086b3
-      }
-      pre .preprocessor,
-      pre .pi,
-      pre .doctype,
-      pre .shebang,
-      pre .cdata {
-        color: #999;
-        font-weight: bold
-      }
-      pre .deletion {
-        background: #fdd
-      }
-      pre .addition {
-        background: #dfd
-      }
-      pre .diff .change {
-        background: #0086b3
-      }
-      pre .chunk {
-        color: #aaa
-      }
-
-      body {
-        padding-top: 50px;
-      }
-    </style>
-  </head>
-  <body>
-   <div class="navbar navbar-inverse navbar-fixed-top">
-      <div class="container">
-        <div class="navbar-header">
-          <button type="button" class="navbar-toggle" data-toggle="collapse" data-target=".navbar-collapse">
-            <span class="icon-bar"></span>
-            <span class="icon-bar"></span>
-            <span class="icon-bar"></span>
-          </button>
-          <a class="navbar-brand" href="/<%= tag %>/index.html">Atom Documentation</a>
-        </div>
-        <div class="collapse navbar-collapse">
-          <ul class="nav navbar-nav">
-            <li><a href="/docs/api/<%= tag %>/api/index.html">API</a></li>
-          </ul>
-        </div><!--/.nav-collapse -->
-      </div>
-    </div>
-
-    <div class="container">
-      <%= content %>
-    </div>
-  </body>
-</html>

docs/upgrading/upgrading-your-syntax-theme.md

@@ -0,0 +1,27 @@
+# Upgrading Your Syntax Theme
+
+Text editor content is now rendered in the shadow DOM, which shields it from being styled by global style sheets to protect against accidental style pollution. For more background on the shadow DOM, check out the [Shadow DOM 101][shadow-dom-101] on HTML 5 Rocks.
+
+Syntax themes are specifically intended to style only text editor content, so they are automatically loaded directly into the text editor's shadow DOM when it is enabled. This happens automatically when the the theme's `package.json` contains a `theme: "syntax"` declaration, so you don't need to change anything to target the appropriate context.
+
+When theme style sheets are loaded into the text editor's shadow DOM, selectors intended to target the editor from the *outside* no longer make sense. Styles targeting the `.editor` and `.editor-colors` classes instead need to target the `:host` pseudo-element, which matches against the containing `atom-text-editor` node. Check out the [Shadow DOM 201][host-pseudo-element] article for more information about the `:host` pseudo-element.
+
+Here's an example from Atom's light syntax theme. Note that the previous selectors intended to target the editor from the outside have been retained to allow the theme to keep working during the transition phase when it is possible to disable the shadow DOM.
+
+```css
+.editor-colors, :host { /* :host added */
+  background-color: @syntax-background-color;
+  color: @syntax-text-color;
+}
+
+.editor, :host { /* :host added */
+  .invisible-character {
+    color: @syntax-invisible-character-color;
+  }
+
+  /* more nested selectors... */
+}
+```
+
+[shadow-dom-101]: http://www.html5rocks.com/en/tutorials/webcomponents/shadowdom
+[host-pseudo-element]: http://www.html5rocks.com/en/tutorials/webcomponents/shadowdom-201#toc-style-host

docs/upgrading/upgrading-your-ui-theme.md

@@ -0,0 +1,137 @@
+# Upgrading Your UI Theme Or Package Selectors
+
+In addition to changes in Atom's scripting API, we'll also be making some breaking changes to Atom's DOM structure, requiring stylesheets and keymaps in both packages and themes to be updated.
+
+## Deprecation Cop
+
+Deprecation cop will list usages of deprecated selector patterns to guide you. You can access it via the command palette (`cmd-shift-p`, then search for `Deprecation`). It breaks the deprecations down by package:
+
+![dep-cop](https://cloud.githubusercontent.com/assets/69169/5078860/d38a5df4-6e64-11e4-95b6-eb585ee9bbfc.png)
+
+## Custom Tags
+
+Rather than adding classes to standard HTML elements to indicate their role, Atom now uses custom element names. For example, `<div class="workspace">` has now been replaced with `<atom-workspace>`. Selectors should be updated accordingly. Note that tag names have lower specificity than classes in CSS, so you'll need to take care in converting things.
+
+Old Selector        | New Selector
+--------------------|--------------------------------
+`.editor`           | `atom-text-editor`
+`.editor.mini`      | `atom-text-editor[mini]`
+`.workspace`        | `atom-workspace`
+`.horizontal`       | `atom-workspace-axis.horizontal`
+`.vertical`         | `atom-workspace-axis.vertical`
+`.pane-container`   | `atom-pane-conatiner`
+`.pane`             | `atom-pane`
+`.tool-panel`       | `atom-panel`
+`.panel-top`        | `atom-panel.top`
+`.panel-bottom`     | `atom-panel.bottom`
+`.panel-left`       | `atom-panel.left`
+`.panel-right`      | `atom-panel.right`
+`.overlay`          | `atom-panel.modal`
+
+## Supporting the Shadow DOM
+
+Text editor content is now rendered in the shadow DOM, which shields it from being styled by global style sheets to protect against accidental style pollution. For more background on the shadow DOM, check out the [Shadow DOM 101][shadow-dom-101] on HTML 5 Rocks. If you need to style text editor content in a UI theme, you'll need to circumvent this protection for any rules that target the text editor's content. Some examples of the kinds of UI theme styles needing to be updated:
+
+* Highlight decorations
+* Gutter decorations
+* Line decorations
+* Scrollbar styling
+* Anything targeting a child selector of `.editor`
+
+During a transition phase, it will be possible to enable or disable the text editor's shadow DOM in the settings, so themes will need to be compatible with both approaches.
+
+### Shadow DOM Selectors
+
+Chromium provides two tools for bypassing shadow boundaries, the `::shadow` pseudo-element and the `/deep/` combinator. For an in-depth explanation of styling the shadow DOM, see the [Shadow DOM 201][shadow-dom-201] article on HTML 5 Rocks.
+
+#### ::shadow
+
+The `::shadow` pseudo-element allows you to bypass a single shadow root. For example, say you want to update a highlight decoration for a linter package. Initially, the style looks as follows:
+
+```css
+// Without shadow DOM support
+atom-text-editor .highlight.my-linter {
+  background: hotpink;
+}
+```
+
+In order for this style to apply with the shadow DOM enabled, you will need to add a second selector with the `::shadow` pseudo-element. You should leave the original selector in place so your theme continues to work with the shadow DOM disabled during the transition period.
+
+```css
+// With shadow DOM support
+atom-text-editor .highlight.my-linter,
+atom-text-editor::shadow .highlight.my-linter {
+  background: hotpink;
+}
+```
+
+Check out the [find-and-replace][find-and-replace] package for another example of using `::shadow` to pierce the shadow DOM.
+
+#### /deep/
+
+The `/deep/` combinator overrides *all* shadow boundaries, making it useful for rules you want to apply globally such as scrollbar styling. Here's a snippet containing scrollbar styling for the Atom Dark UI theme before shadow DOM support:
+
+```css
+// Without shadow DOM support
+.scrollbars-visible-always {
+  ::-webkit-scrollbar {
+    width: 8px;
+    height: 8px;
+  }
+
+  ::-webkit-scrollbar-track,
+  ::-webkit-scrollbar-corner {
+    background: @scrollbar-background-color;
+  }
+
+  ::-webkit-scrollbar-thumb {
+    background: @scrollbar-color;
+    border-radius: 5px;
+    box-shadow: 0 0 1px black inset;
+  }
+}
+```
+
+To style scrollbars even inside of the shadow DOM, each rule needs to be prefixed with `/deep/`. We use `/deep/` instead of `::shadow` because we don't care about the selector of the host element in this case. We just want our styling to apply everywhere.
+
+```css
+// With shadow DOM support using /deep/
+.scrollbars-visible-always {
+  /deep/ ::-webkit-scrollbar {
+    width: 8px;
+    height: 8px;
+  }
+
+  /deep/ ::-webkit-scrollbar-track,
+  /deep/ ::-webkit-scrollbar-corner {
+    background: @scrollbar-background-color;
+  }
+
+  /deep/ ::-webkit-scrollbar-thumb {
+    background: @scrollbar-color;
+    border-radius: 5px;
+    box-shadow: 0 0 1px black inset;
+  }
+}
+```
+
+### Context-Targeted Style Sheets
+
+The selector features discussed above allow you to target shadow DOM content with specific selectors, but Atom also allows you to target a specific shadow DOM context with an entire style sheet. The context into which a style sheet is loaded is based on the file name. If you want to load a style sheet into the editor, name it with the `.atom-text-editor.less` or `.atom-text-editor.css` extensions.
+
+```
+my-ui-theme/
+  stylesheets/
+    index.less                   # loaded globally
+    index.atom-text-editor.less  # loaded in the text editor shadow DOM
+```
+
+Check out this [style sheet](https://github.com/atom/decoration-example/blob/master/stylesheets/decoration-example.atom-text-editor.less) from the decoration-example package for an example of context-targeting.
+
+Inside a context-targeted style sheet, there's no need to use the `::shadow` or `/deep/` expressions. If you want to refer to the element containing the shadow root, you can use the `::host` pseudo-element.
+
+During the transition phase, style sheets targeting the `atom-text-editor` context will *also* be loaded globally. Make sure you update your selectors in a way that maintains compatibility with the shadow DOM being disabled. That means if you use a `::host` pseudo element, you should also include the same style rule matches against `atom-text-editor`.
+
+[shadow-dom-101]: http://www.html5rocks.com/en/tutorials/webcomponents/shadowdom
+[shadow-dom-201]: http://www.html5rocks.com/en/tutorials/webcomponents/shadowdom-201#toc-style-cat-hat
+[find-and-replace]: https://github.com/atom/find-and-replace/blob/95351f261bc384960a69b66bf12eae8002da63f9/stylesheets/find-and-replace.less#L10

exports/atom.coffee

@@ -1,4 +1,5 @@
 {Point, Range} = require 'text-buffer'
+{Emitter, Disposable, CompositeDisposable} = require 'event-kit'
 {deprecate} = require 'grim'
 
 module.exports =
@@ -7,29 +8,119 @@ module.exports =
   GitRepository: require '../src/git-repository'
   Point: Point
   Range: Range
+  Emitter: Emitter
+  Disposable: Disposable
+  CompositeDisposable: CompositeDisposable
 
 # The following classes can't be used from a Task handler and should therefore
 # only be exported when not running as a child node process
 unless process.env.ATOM_SHELL_INTERNAL_RUN_AS_NODE
+  module.exports.Task = require '../src/task'
+  module.exports.TextEditor = require '../src/text-editor'
+
   {$, $$, $$$, View} = require '../src/space-pen-extensions'
 
-  module.exports.$ = $
-  module.exports.$$ = $$
-  module.exports.$$$ = $$$
-  module.exports.TextEditorView = require '../src/text-editor-view'
-  module.exports.ScrollView = require '../src/scroll-view'
-  module.exports.SelectListView = require '../src/select-list-view'
-  module.exports.Task = require '../src/task'
-  module.exports.View = View
-  module.exports.WorkspaceView = require '../src/workspace-view'
-  module.exports.Workspace = require '../src/workspace'
-  module.exports.React = require 'react-atom-fork'
-  module.exports.Reactionary = require 'reactionary-atom-fork'
+  Object.defineProperty module.exports, 'Workspace', get: ->
+    deprecate """
+      Requiring `Workspace` from `atom` is no longer supported.
+      If you need this, please open an issue on
+      https://github.com/atom/atom/issues/new
+      And let us know what you are using it for.
+    """
+    require '../src/workspace'
+
+  Object.defineProperty module.exports, 'WorkspaceView', get: ->
+    deprecate """
+      Requiring `WorkspaceView` from `atom` is no longer supported.
+      Use `atom.view.getView(atom.workspace)` instead.
+    """
+    require '../src/workspace-view'
+
+  Object.defineProperty module.exports, '$', get: ->
+    deprecate """
+      Requiring `$` from `atom` is no longer supported.
+      If you are using `space-pen`, please require `$` from `space-pen`. Otherwise require `jquery` instead:
+        `{$} = require 'space-pen'`
+        or
+        `$ = require 'jquery'`
+      Add `"space-pen": "^3"` to your package dependencies.
+      Or add `"jquery": "^2"` to your package dependencies.
+    """
+    $
+
+  Object.defineProperty module.exports, '$$', get: ->
+    deprecate """
+      Requiring `$$` from `atom` is no longer supported.
+      Please require `space-pen` instead:
+        `{$$} = require 'space-pen'`
+      Add `"space-pen": "^3"` to your package dependencies.
+    """
+    $$
+
+  Object.defineProperty module.exports, '$$$', get: ->
+    deprecate """
+      Requiring `$$$` from `atom` is no longer supported.
+      Please require `space-pen` instead:
+        `{$$$} = require 'space-pen'`
+      Add `"space-pen": "^3"` to your package dependencies.
+    """
+    $$$
+
+  Object.defineProperty module.exports, 'View', get: ->
+    deprecate """
+      Requiring `View` from `atom` is no longer supported.
+      Please require `space-pen` instead:
+        `{View} = require 'space-pen'`
+      Add `"space-pen": "^3"` to your package dependencies.
+    """
+    View
+
+  Object.defineProperty module.exports, 'EditorView', get: ->
+    deprecate """
+      Requiring `EditorView` from `atom` is no longer supported.
+      Please require `TextEditorView` from `atom-space-pen-view` instead:
+        `{TextEditorView} = require 'atom-space-pen-views'`
+      Add `"atom-space-pen-views": "^0"` to your package dependencies.
+    """
+    require '../src/text-editor-view'
+
+  Object.defineProperty module.exports, 'TextEditorView', get: ->
+    deprecate """
+      Requiring `TextEditorView` from `atom` is no longer supported.
+      Please require `TextEditorView` from `atom-space-pen-view` instead:
+        `{TextEditorView} = require 'atom-space-pen-views'`
+      Add `"atom-space-pen-views": "^0"` to your package dependencies.
+    """
+    require '../src/text-editor-view'
+
+  Object.defineProperty module.exports, 'ScrollView', get: ->
+    deprecate """
+      Requiring `ScrollView` from `atom` is no longer supported.
+      Please require `ScrollView` from `atom-space-pen-view` instead:
+        `{ScrollView} = require 'atom-space-pen-views'`
+      Note that the API has changed slightly! Please read the docs at https://github.com/atom/atom-space-pen-views
+      Add `"atom-space-pen-views": "^0"` to your package dependencies.
+    """
+    require '../src/scroll-view'
+
+  Object.defineProperty module.exports, 'SelectListView', get: ->
+    deprecate """
+      Requiring `SelectListView` from `atom` is no longer supported.
+      Please require `SelectListView` from `atom-space-pen-view` instead:
+        `{SelectListView} = require 'atom-space-pen-views'`
+      Note that the API has changed slightly! Please read the docs at https://github.com/atom/atom-space-pen-views
+      Add `"atom-space-pen-views": "^0"` to your package dependencies.
+    """
+    require '../src/select-list-view'
+
+  Object.defineProperty module.exports, 'React', get: ->
+    deprecate "Please require `react-atom-fork` instead: `React = require 'react-atom-fork'`. Add `\"react-atom-fork\": \"^0.11\"` to your package dependencies."
+    require 'react-atom-fork'
+
+  Object.defineProperty module.exports, 'Reactionary', get: ->
+    deprecate "Please require `reactionary` instead: `Reactionary = require 'reactionary'`. Add `\"reactionary\": \"^0.9\"` to your package dependencies."
+    require 'reactionary'
 
 Object.defineProperty module.exports, 'Git', get: ->
   deprecate "Please require `GitRepository` instead of `Git`: `{GitRepository} = require 'atom'`"
   module.exports.GitRepository
-
-Object.defineProperty module.exports, 'EditorView', get: ->
-  deprecate "Please require `TextEditorView` instead of `EditorView`: `{TextEditorView} = require 'atom'`"
-  module.exports.TextEditorView

keymaps/base.cson

@@ -5,7 +5,7 @@
   'shift-home': 'editor:select-to-first-character-of-line'
   'shift-end': 'editor:select-to-end-of-line'
 
-'atom-text-editor:not(.mini)':
+'atom-text-editor:not([mini])':
   # Atom Specific
   'ctrl-C': 'editor:copy-path'
 
@@ -15,13 +15,13 @@
   'shift-tab': 'editor:outdent-selected-rows'
   'ctrl-K': 'editor:delete-line'
 
-'.select-list atom-text-editor.mini':
+'.select-list atom-text-editor[mini]':
   'enter': 'core:confirm'
 
 '.tool-panel.panel-left, .tool-panel.panel-right':
   'escape': 'tool-panel:unfocus'
 
-'atom-text-editor !important, atom-text-editor.mini !important':
+'atom-text-editor !important, atom-text-editor[mini] !important':
   'escape': 'editor:consolidate-selections'
 
 # allow standard input fields to work correctly

keymaps/darwin.cson

@@ -29,6 +29,8 @@
   'ctrl-alt-cmd-l': 'window:reload'
   'alt-cmd-i': 'window:toggle-dev-tools'
   'cmd-alt-ctrl-p': 'window:run-package-specs'
+  'ctrl-shift-left': 'pane:move-item-left'
+  'ctrl-shift-right': 'pane:move-item-right'
 
   # Sublime Parity
   'cmd-,': 'application:show-settings'
@@ -110,7 +112,7 @@
   # Apple Specific
   'cmd-backspace': 'editor:delete-to-beginning-of-line'
   'cmd-shift-backspace': 'editor:delete-to-beginning-of-line'
-  'cmd-delete': 'editor:delete-to-beginning-of-line'
+  'cmd-delete': 'editor:delete-to-end-of-line'
   'ctrl-A': 'editor:select-to-first-character-of-line'
   'ctrl-E': 'editor:select-to-end-of-line'
   'cmd-left': 'editor:move-to-first-character-of-line'
@@ -134,7 +136,7 @@
   'cmd-l': 'editor:select-line'
   'ctrl-t': 'editor:transpose'
 
-'atom-workspace atom-text-editor:not(.mini)':
+'atom-workspace atom-text-editor:not([mini])':
   # Atom specific
   'alt-cmd-z': 'editor:checkout-head-revision'
   'cmd-<': 'editor:scroll-to-cursor'

keymaps/linux.cson

@@ -12,6 +12,8 @@
   'ctrl-alt-s': 'application:run-all-specs'
   'ctrl-alt-o': 'application:open-dev'
   'ctrl-shift-o': 'application:open-folder'
+  'ctrl-shift-pageup': 'pane:move-item-left'
+  'ctrl-shift-pagedown': 'pane:move-item-right'
   'F11': 'window:toggle-full-screen'
 
   # Sublime Parity
@@ -99,7 +101,7 @@
   'ctrl-k ctrl-l': 'editor:lower-case'
   'ctrl-l': 'editor:select-line'
 
-'atom-workspace atom-text-editor:not(.mini)':
+'atom-workspace atom-text-editor:not([mini])':
   # Atom specific
   'alt-ctrl-z': 'editor:checkout-head-revision'
   'ctrl-<': 'editor:scroll-to-cursor'

keymaps/win32.cson

@@ -16,6 +16,8 @@
   'ctrl-alt-s': 'application:run-all-specs'
   'ctrl-alt-o': 'application:open-dev'
   'ctrl-shift-o': 'application:open-folder'
+  'ctrl-shift-left': 'pane:move-item-left'
+  'ctrl-shift-right': 'pane:move-item-right'
   'F11': 'window:toggle-full-screen'
 
   # Sublime Parity
@@ -96,7 +98,7 @@
   'ctrl-k ctrl-l': 'editor:lower-case'
   'ctrl-l': 'editor:select-line'
 
-'atom-workspace atom-text-editor:not(.mini)':
+'atom-workspace atom-text-editor:not([mini])':
   # Atom specific
   'alt-ctrl-z': 'editor:checkout-head-revision'
   'ctrl-<': 'editor:scroll-to-cursor'

menus/linux.cson

@@ -94,6 +94,7 @@
     submenu: [
       { label: '&Reload', command: 'window:reload' }
       { label: 'Toggle &Full Screen', command: 'window:toggle-full-screen' }
+      { label: 'Toggle Menu Bar', command: 'window:toggle-menu-bar' }
       {
         label: 'Developer'
         submenu: [

menus/win32.cson

@@ -93,6 +93,7 @@
     submenu: [
       { label: '&Reload', command: 'window:reload' }
       { label: 'Toggle &Full Screen', command: 'window:toggle-full-screen' }
+      { label: 'Toggle Menu Bar', command: 'window:toggle-menu-bar' }
       {
         label: 'Panes'
         submenu: [
@@ -109,7 +110,7 @@
           { label: 'Focus Pane On Left', command: 'window:focus-pane-on-left' }
           { label: 'Focus Pane On Right', command: 'window:focus-pane-on-right' }
           { type: 'separator' }
-          { label: 'Close pane', command: 'pane:close' }
+          { label: 'Close Pane', command: 'pane:close' }
         ]
       }
       {
@@ -162,7 +163,7 @@
     submenu: [
       { label: 'View &Terms of Use', command: 'application:open-terms-of-use' }
       { label: 'View &License', command: 'application:open-license' }
-      { label: "VERSION", enabled: false }
+      { label: 'VERSION', enabled: false }
       { type: 'separator' }
       { label: '&Documentation', command: 'application:open-documentation' }
       { label: 'Roadmap', command: 'application:open-roadmap' }

package.json

@@ -1,7 +1,7 @@
-  {
+{
   "name": "atom",
   "productName": "Atom",
-  "version": "0.144.0",
+  "version": "0.149.0",
   "description": "A hackable text editor for the 21st Century.",
   "main": "./src/browser/main.js",
   "repository": {
@@ -17,7 +17,7 @@
       "url": "http://github.com/atom/atom/raw/master/LICENSE.md"
     }
   ],
-  "atomShellVersion": "0.19.1",
+  "atomShellVersion": "0.19.2",
   "dependencies": {
     "async": "0.2.6",
     "atom-keymap": "^2.2.2",
@@ -37,7 +37,8 @@
     "guid": "0.0.10",
     "jasmine-json": "~0.0",
     "jasmine-tagged": "^1.1.2",
-    "less-cache": "0.17.0",
+    "jquery": "^2.1.1",
+    "less-cache": "0.19.0",
     "mixto": "^1",
     "mkdirp": "0.3.5",
     "nslog": "^1.0.1",
@@ -58,20 +59,20 @@
     "serializable": "^1",
     "space-pen": "3.8.1",
     "temp": "0.7.0",
-    "text-buffer": "^3.6.0",
+    "text-buffer": "^3.6.1",
     "theorist": "^1.0.2",
     "underscore-plus": "^1.6.1",
     "vm-compatibility-layer": "0.1.0"
   },
   "packageDependencies": {
-    "atom-dark-syntax": "0.20.0",
-    "atom-dark-ui": "0.35.0",
-    "atom-light-syntax": "0.21.0",
-    "atom-light-ui": "0.30.0",
-    "base16-tomorrow-dark-theme": "0.21.0",
-    "base16-tomorrow-light-theme": "0.4.0",
-    "solarized-dark-syntax": "0.22.0",
-    "solarized-light-syntax": "0.12.0",
+    "atom-dark-syntax": "0.22.0",
+    "atom-dark-ui": "0.39.0",
+    "atom-light-syntax": "0.22.0",
+    "atom-light-ui": "0.33.0",
+    "base16-tomorrow-dark-theme": "0.22.0",
+    "base16-tomorrow-light-theme": "0.5.0",
+    "solarized-dark-syntax": "0.23.0",
+    "solarized-light-syntax": "0.13.0",
     "archive-view": "0.37.0",
     "autocomplete": "0.33.0",
     "autoflow": "0.18.0",
@@ -79,12 +80,12 @@
     "background-tips": "0.17.0",
     "bookmarks": "0.30.0",
     "bracket-matcher": "0.62.0",
-    "command-palette": "0.27.0",
-    "deprecation-cop": "0.11.0",
+    "command-palette": "0.28.0",
+    "deprecation-cop": "0.14.0",
     "dev-live-reload": "0.35.0",
-    "encoding-selector": "0.5.0",
+    "encoding-selector": "0.7.0",
     "exception-reporting": "0.20.0",
-    "find-and-replace": "0.145.0",
+    "find-and-replace": "0.147.0",
     "fuzzy-finder": "0.60.0",
     "git-diff": "0.43.0",
     "go-to-line": "0.26.0",
@@ -93,27 +94,27 @@
     "incompatible-packages": "0.10.0",
     "keybinding-resolver": "0.20.0",
     "link": "0.26.0",
-    "markdown-preview": "0.109.0",
-    "metrics": "0.38.0",
+    "markdown-preview": "0.110.0",
+    "metrics": "0.39.0",
     "open-on-github": "0.30.0",
     "package-generator": "0.32.0",
     "release-notes": "0.36.0",
-    "settings-view": "0.156.0",
+    "settings-view": "0.161.0",
     "snippets": "0.56.0",
     "spell-check": "0.43.0",
     "status-bar": "0.46.0",
     "styleguide": "0.30.0",
-    "symbols-view": "0.67.0",
-    "tabs": "0.55.0",
+    "symbols-view": "0.68.0",
+    "tabs": "0.56.0",
     "timecop": "0.23.0",
     "tree-view": "0.132.0",
     "update-package-dependencies": "0.6.0",
     "welcome": "0.19.0",
     "whitespace": "0.26.0",
-    "wrap-guide": "0.23.0",
-    "language-c": "0.30.0",
-    "language-coffee-script": "0.37.0",
-    "language-css": "0.22.0",
+    "wrap-guide": "0.24.0",
+    "language-c": "0.31.0",
+    "language-coffee-script": "0.38.0",
+    "language-css": "0.23.0",
     "language-gfm": "0.53.0",
     "language-git": "0.9.0",
     "language-go": "0.19.0",
@@ -129,10 +130,10 @@
     "language-perl": "0.9.0",
     "language-php": "0.18.0",
     "language-property-list": "0.7.0",
-    "language-python": "0.23.0",
+    "language-python": "0.24.0",
     "language-ruby": "0.41.0",
     "language-ruby-on-rails": "0.18.0",
-    "language-sass": "0.25.0",
+    "language-sass": "0.26.0",
     "language-shellscript": "0.10.0",
     "language-source": "0.8.0",
     "language-sql": "0.11.0",
@@ -140,7 +141,7 @@
     "language-todo": "0.13.0",
     "language-toml": "0.14.0",
     "language-xml": "0.24.0",
-    "language-yaml": "0.19.0"
+    "language-yaml": "0.20.0"
   },
   "private": true,
   "scripts": {

resources/linux/debian/control.in

@@ -1,6 +1,7 @@
 Package: <%= name %>
 Version: <%= version %>
-Depends: python (>= 2.6), libc6
+Depends: gconf2, gconf-service, libgtk2.0-0, libudev0 | libudev1, libgcrypt11, libnotify4, libxtst6, libnss3, python, gvfs-bin, xdg-utils
+Suggests: libgnome-keyring0, gir1.2-gnomekeyring-1.0
 Section: <%= section %>
 Priority: optional
 Architecture: <%= arch %>

script/utils/child-process-wrapper.js

@@ -34,6 +34,9 @@ exports.safeSpawn = function(command, args, options, callback) {
   var child = childProcess.spawn(command, args, options);
   child.stderr.pipe(process.stderr);
   child.stdout.pipe(process.stdout);
+  child.on('error', function(error) {
+    console.error('Command \'' + command + '\' failed: ' + error.message);
+  });
   child.on('exit', function(code) {
     if (code != 0)
       process.exit(code);

spec/atom-spec.coffee

@@ -52,3 +52,72 @@ describe "the `atom` global", ->
     it 'loads the default core config', ->
       expect(atom.config.get('core.excludeVcsIgnoredPaths')).toBe true
       expect(atom.config.get('editor.showInvisibles')).toBe false
+
+  describe "window onerror handler", ->
+    beforeEach ->
+      spyOn atom, 'openDevTools'
+      spyOn atom, 'executeJavaScriptInDevTools'
+
+    it "will open the dev tools when an error is triggered", ->
+      try
+        a + 1
+      catch e
+        window.onerror.call(window, e.toString(), 'abc', 2, 3, e)
+
+      expect(atom.openDevTools).toHaveBeenCalled()
+      expect(atom.executeJavaScriptInDevTools).toHaveBeenCalled()
+
+    describe "::onWillThrowError", ->
+      willThrowSpy = null
+      beforeEach ->
+        willThrowSpy = jasmine.createSpy()
+
+      it "is called when there is an error", ->
+        error = null
+        atom.onWillThrowError(willThrowSpy)
+        try
+          a + 1
+        catch e
+          error = e
+          window.onerror.call(window, e.toString(), 'abc', 2, 3, e)
+
+        delete willThrowSpy.mostRecentCall.args[0].preventDefault
+        expect(willThrowSpy).toHaveBeenCalledWith
+          message: error.toString()
+          url: 'abc'
+          line: 2
+          column: 3
+          originalError: error
+
+      it "will not show the devtools when preventDefault() is called", ->
+        willThrowSpy.andCallFake (errorObject) -> errorObject.preventDefault()
+        atom.onWillThrowError(willThrowSpy)
+
+        try
+          a + 1
+        catch e
+          window.onerror.call(window, e.toString(), 'abc', 2, 3, e)
+
+        expect(willThrowSpy).toHaveBeenCalled()
+        expect(atom.openDevTools).not.toHaveBeenCalled()
+        expect(atom.executeJavaScriptInDevTools).not.toHaveBeenCalled()
+
+    describe "::onDidThrowError", ->
+      didThrowSpy = null
+      beforeEach ->
+        didThrowSpy = jasmine.createSpy()
+
+      it "is called when there is an error", ->
+        error = null
+        atom.onDidThrowError(didThrowSpy)
+        try
+          a + 1
+        catch e
+          error = e
+          window.onerror.call(window, e.toString(), 'abc', 2, 3, e)
+        expect(didThrowSpy).toHaveBeenCalledWith
+          message: error.toString()
+          url: 'abc'
+          line: 2
+          column: 3
+          originalError: error

spec/command-registry-spec.coffee

@@ -1,4 +1,5 @@
 CommandRegistry = require '../src/command-registry'
+_ = require 'underscore-plus'
 
 describe "CommandRegistry", ->
   [registry, parent, child, grandchild] = []
@@ -154,8 +155,15 @@ describe "CommandRegistry", ->
       registry.add '.grandchild', 'namespace:command-3', ->
       registry.add '.grandchild.no-match', 'namespace:command-4', ->
 
-      expect(registry.findCommands(target: grandchild)[0..2]).toEqual [
+      registry.add grandchild, 'namespace:inline-command-1', ->
+      registry.add child, 'namespace:inline-command-2', ->
+
+      commands = registry.findCommands(target: grandchild)
+      nonJqueryCommands = _.reject commands, (cmd) -> cmd.jQuery
+      expect(nonJqueryCommands).toEqual [
+        {name: 'namespace:inline-command-1', displayName: 'Namespace: Inline Command 1'}
         {name: 'namespace:command-3', displayName: 'Namespace: Command 3'}
+        {name: 'namespace:inline-command-2', displayName: 'Namespace: Inline Command 2'}
         {name: 'namespace:command-2', displayName: 'Namespace: Command 2'}
         {name: 'namespace:command-1', displayName: 'Namespace: Command 1'}
       ]

spec/config-spec.coffee

@@ -195,6 +195,52 @@ describe "Config", ->
         atom.config.restoreDefault('.source.coffee', 'foo.bar.baz')
         expect(atom.config.save.callCount).toBe 1
 
+      it "does not call ::save or add a scoped property when no value has been set", ->
+        # see https://github.com/atom/atom/issues/4175
+        atom.config.setDefaults("foo", bar: baz: 10)
+        atom.config.restoreDefault('.source.coffee', 'foo.bar.baz')
+        expect(atom.config.get(['.source.coffee'], 'foo.bar.baz')).toBe 10
+
+        expect(atom.config.save).not.toHaveBeenCalled()
+
+        scopedProperties = atom.config.scopedSettingsStore.propertiesForSource('user-config')
+        expect(scopedProperties['.coffee.source']).toBeUndefined()
+
+      it "removes the scoped value when it was the only set value on the object", ->
+        spyOn(CSON, 'writeFileSync')
+        jasmine.unspy atom.config, 'save'
+
+        atom.config.setDefaults("foo", bar: baz: 10)
+        atom.config.set('.source.coffee', 'foo.bar.baz', 55)
+        atom.config.set('.source.coffee', 'foo.bar.zfoo', 20)
+        CSON.writeFileSync.reset()
+        expect(atom.config.get(['.source.coffee'], 'foo.bar.baz')).toBe 55
+
+        atom.config.restoreDefault('.source.coffee', 'foo.bar.baz')
+        expect(atom.config.get(['.source.coffee'], 'foo.bar.baz')).toBe 10
+        expect(atom.config.get(['.source.coffee'], 'foo.bar.zfoo')).toBe 20
+        expect(CSON.writeFileSync).toHaveBeenCalled()
+        properties = CSON.writeFileSync.mostRecentCall.args[1]
+        expect(properties['.coffee.source']).toEqual
+          foo:
+            bar:
+              zfoo: 20
+
+        CSON.writeFileSync.reset()
+        atom.config.restoreDefault('.source.coffee', 'foo.bar.zfoo')
+        expect(CSON.writeFileSync).toHaveBeenCalled()
+        properties = CSON.writeFileSync.mostRecentCall.args[1]
+        expect(properties['.coffee.source']).toBeUndefined()
+
+      it "does not call ::save when the value is already at the default", ->
+        atom.config.setDefaults("foo", bar: baz: 10)
+        atom.config.set('.source.coffee', 'foo.bar.baz', 55)
+        atom.config.save.reset()
+
+        atom.config.restoreDefault('.source.coffee', 'foo.bar.ok')
+        expect(atom.config.save).not.toHaveBeenCalled()
+        expect(atom.config.get(['.source.coffee'], 'foo.bar.baz')).toBe 55
+
   describe ".getSettings()", ->
     it "returns all settings including defaults", ->
       atom.config.setDefaults("foo", bar: baz: 10)

spec/language-mode-spec.coffee

@@ -96,12 +96,13 @@ describe "LanguageMode", ->
         buffer.setText("//this is a single line comment")
         expect(languageMode.rowRangeForCommentAtBufferRow(0)).toBeUndefined()
 
-    describe "suggestedIndentForBufferRow", ->
-      it "returns the suggested indentation based on auto-indent/outdent rules", ->
+    describe ".suggestedIndentForBufferRow", ->
+      it "bases indentation off of the previous non-blank line", ->
         expect(languageMode.suggestedIndentForBufferRow(0)).toBe 0
         expect(languageMode.suggestedIndentForBufferRow(1)).toBe 1
         expect(languageMode.suggestedIndentForBufferRow(2)).toBe 2
         expect(languageMode.suggestedIndentForBufferRow(9)).toBe 1
+        expect(languageMode.suggestedIndentForBufferRow(11)).toBe 1
 
     describe "rowRangeForParagraphAtBufferRow", ->
       describe "with code and comments", ->

spec/package-manager-spec.coffee

@@ -294,16 +294,18 @@ describe "PackageManager", ->
           it "loads all stylesheets from the stylesheets directory", ->
             one = require.resolve("./fixtures/packages/package-with-stylesheets/stylesheets/1.css")
             two = require.resolve("./fixtures/packages/package-with-stylesheets/stylesheets/2.less")
-            three = require.resolve("./fixtures/packages/package-with-stylesheets/stylesheets/3.css")
-
+            three = require.resolve("./fixtures/packages/package-with-stylesheets/stylesheets/3.test-context.css")
+            four = require.resolve("./fixtures/packages/package-with-stylesheets/stylesheets/4.css")
 
             one = atom.themes.stringToId(one)
             two = atom.themes.stringToId(two)
             three = atom.themes.stringToId(three)
+            four = atom.themes.stringToId(four)
 
             expect(atom.themes.stylesheetElementForId(one)).toBeNull()
             expect(atom.themes.stylesheetElementForId(two)).toBeNull()
             expect(atom.themes.stylesheetElementForId(three)).toBeNull()
+            expect(atom.themes.stylesheetElementForId(four)).toBeNull()
 
             waitsForPromise ->
               atom.packages.activatePackage("package-with-stylesheets")
@@ -312,6 +314,7 @@ describe "PackageManager", ->
               expect(atom.themes.stylesheetElementForId(one)).not.toBeNull()
               expect(atom.themes.stylesheetElementForId(two)).not.toBeNull()
               expect(atom.themes.stylesheetElementForId(three)).not.toBeNull()
+              expect(atom.themes.stylesheetElementForId(four)).not.toBeNull()
               expect($('#jasmine-content').css('font-size')).toBe '3px'
 
         it "assigns the stylesheet's context based on the filename", ->
@@ -319,8 +322,26 @@ describe "PackageManager", ->
             atom.packages.activatePackage("package-with-stylesheets")
 
           runs ->
-            element = atom.styles.getStyleElements().find (element) -> element.context is 'test-context'
-            expect(element).toBeDefined()
+            count = 0
+
+            for styleElement in atom.styles.getStyleElements()
+              if styleElement.sourcePath.match /1.css/
+                expect(styleElement.context).toBe undefined
+                count++
+
+              if styleElement.sourcePath.match /2.less/
+                expect(styleElement.context).toBe undefined
+                count++
+
+              if styleElement.sourcePath.match /3.test-context.css/
+                expect(styleElement.context).toBe 'test-context'
+                count++
+
+              if styleElement.sourcePath.match /4.css/
+                expect(styleElement.context).toBe undefined
+                count++
+
+            expect(count).toBe 4
 
       describe "grammar loading", ->
         it "loads the package's grammars", ->

spec/pane-container-spec.coffee

@@ -33,6 +33,13 @@ describe "PaneContainer", ->
       [pane1B, pane2B, pane3B] = containerB.getPanes()
       expect(containerB.getActivePane()).toBe pane3B
 
+    it "makes the first pane active if no pane exists for the activePaneId", ->
+      pane3A.activate()
+      state = containerA.serialize()
+      state.activePaneId = -22
+      containerB = atom.deserializers.deserialize(state)
+      expect(containerB.getActivePane()).toBe containerB.getPanes()[0]
+
   it "does not allow the root pane to be destroyed", ->
     container = new PaneContainer
     container.getRoot().destroy()

spec/pane-spec.coffee

@@ -146,6 +146,24 @@ describe "Pane", ->
       pane.activateNextItem()
       expect(pane.getActiveItem()).toBe item1
 
+  describe "::moveItemRight() and ::moveItemLeft()", ->
+    it "moves the active item to the right and left, without looping around at either end", ->
+      pane = new Pane(items: [new Item("A"), new Item("B"), new Item("C")])
+      [item1, item2, item3] = pane.getItems()
+
+      pane.activateItemAtIndex(0)
+      expect(pane.getActiveItem()).toBe item1
+      pane.moveItemLeft()
+      expect(pane.getItems()).toEqual [item1, item2, item3]
+      pane.moveItemRight()
+      expect(pane.getItems()).toEqual [item2, item1, item3]
+      pane.moveItemLeft()
+      expect(pane.getItems()).toEqual [item1, item2, item3]
+      pane.activateItemAtIndex(2)
+      expect(pane.getActiveItem()).toBe item3
+      pane.moveItemRight()
+      expect(pane.getItems()).toEqual [item1, item2, item3]
+
   describe "::activateItemAtIndex(index)", ->
     it "activates the item at the given index", ->
       pane = new Pane(items: [new Item("A"), new Item("B"), new Item("C")])
@@ -565,6 +583,37 @@ describe "Pane", ->
       expect(pane1.isActive()).toBe false
       expect(pane2.isActive()).toBe true
 
+  describe "::close()", ->
+    it "prompts to save unsaved items before destroying the pane", ->
+      pane = new Pane(items: [new Item("A"), new Item("B")])
+      [item1, item2] = pane.getItems()
+
+      item1.shouldPromptToSave = -> true
+      item1.getUri = -> "/test/path"
+      item1.save = jasmine.createSpy("save")
+
+      spyOn(atom, 'confirm').andReturn(0)
+      pane.close()
+
+      expect(atom.confirm).toHaveBeenCalled()
+      expect(item1.save).toHaveBeenCalled()
+      expect(pane.isDestroyed()).toBe true
+
+    it "does not destroy the pane if cancel is called", ->
+      pane = new Pane(items: [new Item("A"), new Item("B")])
+      [item1, item2] = pane.getItems()
+
+      item1.shouldPromptToSave = -> true
+      item1.getUri = -> "/test/path"
+      item1.save = jasmine.createSpy("save")
+
+      spyOn(atom, 'confirm').andReturn(1)
+      pane.close()
+
+      expect(atom.confirm).toHaveBeenCalled()
+      expect(item1.save).not.toHaveBeenCalled()
+      expect(pane.isDestroyed()).toBe false
+
   describe "::destroy()", ->
     [container, pane1, pane2] = []
 

spec/pane-view-spec.coffee

@@ -144,12 +144,15 @@ describe "PaneView", ->
 
   describe "when an item is moved to another pane", ->
     it "detaches the item's view rather than removing it", ->
+      container.attachToDom()
+      expect(view1.is(':visible')).toBe true
       paneModel2 = paneModel.splitRight()
       view1.data('preservative', 1234)
       paneModel.moveItemToPane(view1, paneModel2, 1)
       expect(view1.data('preservative')).toBe 1234
       paneModel2.activateItemAtIndex(1)
       expect(view1.data('preservative')).toBe 1234
+      expect(view1.is(':visible')).toBe true
 
   describe "when the title of the active item changes", ->
     describe 'when there is no onDidChangeTitle method', ->

spec/panel-container-element-spec.coffee

@@ -34,8 +34,8 @@ describe "PanelContainerElement", ->
     element = container.getView()
     jasmineContent.appendChild(element)
 
-  it 'has a location attribute with value from the model', ->
-    expect(element.getAttribute('location')).toBe 'left'
+  it 'has a location class with value from the model', ->
+    expect(element).toHaveClass 'left'
 
   it 'removes the element when the container is destroyed', ->
     expect(element.parentNode).toBe jasmineContent
@@ -50,7 +50,7 @@ describe "PanelContainerElement", ->
         panel1 = new Panel({viewRegistry, item: new TestPanelContainerItem()})
         container.addPanel(panel1)
         expect(element.childNodes.length).toBe 1
-        expect(element.childNodes[0].getAttribute('location')).toBe 'left'
+        expect(element.childNodes[0]).toHaveClass 'left'
 
         expect(element.childNodes[0].tagName).toBe 'ATOM-PANEL'
 
@@ -79,7 +79,7 @@ describe "PanelContainerElement", ->
         panel1 = new Panel({viewRegistry, item: new TestPanelContainerItem(), className: 'one'})
         container.addPanel(panel1)
         expect(element.childNodes.length).toBe 1
-        expect(element.childNodes[0].getAttribute('location')).toBe 'bottom'
+        expect(element.childNodes[0]).toHaveClass 'bottom'
         expect(element.childNodes[0].tagName).toBe 'ATOM-PANEL'
         expect(panel1.getView()).toHaveClass 'one'
 

spec/styles-element-spec.coffee

@@ -59,8 +59,9 @@ describe "StylesElement", ->
     atom.styles.addStyleSheet("a {color: red;}", context: 'test-context')
     atom.styles.addStyleSheet("a {color: green;}")
 
-    expect(element.children.length).toBe initialChildCount + 1
-    expect(element.children[initialChildCount].textContent).toBe "a {color: green;}"
+    expect(element.children.length).toBe initialChildCount + 2
+    expect(element.children[initialChildCount].textContent).toBe "a {color: red;}"
+    expect(element.children[initialChildCount + 1].textContent).toBe "a {color: green;}"
 
     element.setAttribute('context', 'test-context')
 
@@ -73,3 +74,34 @@ describe "StylesElement", ->
     expect(element.children.length).toBe 2
     expect(element.children[0].textContent).toBe "a {color: red;}"
     expect(element.children[1].textContent).toBe "a {color: blue;}"
+
+  describe "atom-text-editor shadow DOM selector upgrades", ->
+    beforeEach ->
+      element.setAttribute('context', 'atom-text-editor')
+      spyOn(console, 'warn')
+
+    it "upgrades selectors containing .editor-colors", ->
+      atom.styles.addStyleSheet(".editor-colors {background: black;}", context: 'atom-text-editor')
+      expect(element.firstChild.sheet.cssRules[0].selectorText).toBe ':host'
+
+    it "upgrades selectors containing .editor", ->
+      atom.styles.addStyleSheet """
+        .editor {background: black;}
+        .editor.mini {background: black;}
+        .editor:focus {background: black;}
+      """, context: 'atom-text-editor'
+
+      expect(element.firstChild.sheet.cssRules[0].selectorText).toBe ':host'
+      expect(element.firstChild.sheet.cssRules[1].selectorText).toBe ':host(.mini)'
+      expect(element.firstChild.sheet.cssRules[2].selectorText).toBe ':host(:focus)'
+
+    it "defers selector upgrade until the element is attached", ->
+      element = new StylesElement
+      element.setAttribute('context', 'atom-text-editor')
+      element.initialize()
+
+      atom.styles.addStyleSheet ".editor {background: black;}", context: 'atom-text-editor'
+      expect(element.firstChild.sheet).toBeNull()
+
+      document.querySelector('#jasmine-content').appendChild(element)
+      expect(element.firstChild.sheet.cssRules[0].selectorText).toBe ':host'

spec/text-editor-component-spec.coffee

@@ -1131,6 +1131,13 @@ describe "TextEditorComponent", ->
       regions = componentNode.querySelectorAll('.test-highlight .region')
       expect(regions.length).toBe 2
 
+    it "renders classes on the regions directly if 'deprecatedRegionClass' option is defined", ->
+      decoration = editor.decorateMarker(marker, type: 'highlight', class: 'test-highlight', deprecatedRegionClass: 'test-highlight-region')
+      nextAnimationFrame()
+
+      regions = componentNode.querySelectorAll('.test-highlight .region.test-highlight-region')
+      expect(regions.length).toBe 2
+
     describe "when flashing a decoration via Decoration::flash()", ->
       highlightNode = null
       beforeEach ->
@@ -1196,6 +1203,221 @@ describe "TextEditorComponent", ->
         expect(componentNode.querySelector('.test-highlight')).toBeFalsy()
         expect(componentNode.querySelector('.new-test-highlight')).toBeTruthy()
 
+  describe "overlay decoration rendering", ->
+    [item] = []
+    beforeEach ->
+      item = document.createElement('div')
+      item.classList.add 'overlay-test'
+
+    describe "when the marker is empty", ->
+      it "renders an overlay decoration when added and removes the overlay when the decoration is destroyed", ->
+        marker = editor.displayBuffer.markBufferRange([[2, 13], [2, 13]], invalidate: 'never')
+        decoration = editor.decorateMarker(marker, {type: 'overlay', item})
+        nextAnimationFrame()
+
+        overlay = component.getTopmostDOMNode().querySelector('atom-overlay .overlay-test')
+        expect(overlay).toBe item
+
+        decoration.destroy()
+        nextAnimationFrame()
+
+        overlay = component.getTopmostDOMNode().querySelector('atom-overlay .overlay-test')
+        expect(overlay).toBe null
+
+      it "renders in the correct position on initial display and when the marker moves", ->
+        editor.setCursorBufferPosition([2, 5])
+
+        marker = editor.getLastCursor().getMarker()
+        decoration = editor.decorateMarker(marker, {type: 'overlay', item})
+        nextAnimationFrame()
+
+        position = editor.pixelPositionForBufferPosition([2, 5])
+
+        overlay = component.getTopmostDOMNode().querySelector('atom-overlay')
+        expect(overlay.style.left).toBe position.left + 'px'
+        expect(overlay.style.top).toBe position.top + editor.getLineHeightInPixels() + 'px'
+
+        editor.moveRight()
+        editor.moveRight()
+        nextAnimationFrame()
+
+        position = editor.pixelPositionForBufferPosition([2, 7])
+
+        expect(overlay.style.left).toBe position.left + 'px'
+        expect(overlay.style.top).toBe position.top + editor.getLineHeightInPixels() + 'px'
+
+    describe "when the marker is not empty", ->
+      it "renders at the head of the marker", ->
+        marker = editor.displayBuffer.markBufferRange([[2, 5], [2, 10]], invalidate: 'never')
+        decoration = editor.decorateMarker(marker, {type: 'overlay', item})
+        nextAnimationFrame()
+
+        position = editor.pixelPositionForBufferPosition([2, 10])
+
+        overlay = component.getTopmostDOMNode().querySelector('atom-overlay')
+        expect(overlay.style.left).toBe position.left + 'px'
+        expect(overlay.style.top).toBe position.top + editor.getLineHeightInPixels() + 'px'
+
+      it "renders at the head of the marker when the marker is reversed", ->
+        marker = editor.displayBuffer.markBufferRange([[2, 5], [2, 10]], invalidate: 'never', reversed: true)
+        decoration = editor.decorateMarker(marker, {type: 'overlay', item})
+        nextAnimationFrame()
+
+        position = editor.pixelPositionForBufferPosition([2, 5])
+
+        overlay = component.getTopmostDOMNode().querySelector('atom-overlay')
+        expect(overlay.style.left).toBe position.left + 'px'
+        expect(overlay.style.top).toBe position.top + editor.getLineHeightInPixels() + 'px'
+
+    describe "positioning the overlay when near the edge of the editor", ->
+      [itemWidth, itemHeight] = []
+      beforeEach ->
+        itemWidth = 4 * editor.getDefaultCharWidth()
+        itemHeight = 4 * editor.getLineHeightInPixels()
+
+        gutterWidth = componentNode.querySelector('.gutter').offsetWidth
+        windowWidth = gutterWidth + 30 * editor.getDefaultCharWidth()
+        windowHeight = 9 * editor.getLineHeightInPixels()
+
+        item.style.width = itemWidth + 'px'
+        item.style.height = itemHeight + 'px'
+
+        wrapperNode.style.width = windowWidth + 'px'
+        wrapperNode.style.height = windowHeight + 'px'
+
+        component.measureHeightAndWidth()
+        nextAnimationFrame()
+
+      it "flips horizontally when near the right edge", ->
+        marker = editor.displayBuffer.markBufferRange([[0, 26], [0, 26]], invalidate: 'never')
+        decoration = editor.decorateMarker(marker, {type: 'overlay', item})
+        nextAnimationFrame()
+
+        position = editor.pixelPositionForBufferPosition([0, 26])
+
+        overlay = component.getTopmostDOMNode().querySelector('atom-overlay')
+        expect(overlay.style.left).toBe position.left + 'px'
+        expect(overlay.style.top).toBe position.top + editor.getLineHeightInPixels() + 'px'
+
+        editor.insertText('a')
+        nextAnimationFrame()
+
+        position = editor.pixelPositionForBufferPosition([0, 27])
+
+        expect(overlay.style.left).toBe position.left - itemWidth + 'px'
+        expect(overlay.style.top).toBe position.top + editor.getLineHeightInPixels() + 'px'
+
+      it "flips vertically when near the bottom edge", ->
+        marker = editor.displayBuffer.markBufferRange([[4, 0], [4, 0]], invalidate: 'never')
+        decoration = editor.decorateMarker(marker, {type: 'overlay', item})
+        nextAnimationFrame()
+
+        position = editor.pixelPositionForBufferPosition([4, 0])
+
+        overlay = component.getTopmostDOMNode().querySelector('atom-overlay')
+        expect(overlay.style.left).toBe position.left + 'px'
+        expect(overlay.style.top).toBe position.top + editor.getLineHeightInPixels() + 'px'
+
+        editor.insertNewline()
+        nextAnimationFrame()
+
+        position = editor.pixelPositionForBufferPosition([5, 0])
+
+        expect(overlay.style.left).toBe position.left + 'px'
+        expect(overlay.style.top).toBe position.top - itemHeight + 'px'
+
+      describe "when the editor is very small", ->
+        beforeEach ->
+          gutterWidth = componentNode.querySelector('.gutter').offsetWidth
+          windowWidth = gutterWidth + 6 * editor.getDefaultCharWidth()
+          windowHeight = 6 * editor.getLineHeightInPixels()
+
+          wrapperNode.style.width = windowWidth + 'px'
+          wrapperNode.style.height = windowHeight + 'px'
+
+          component.measureHeightAndWidth()
+          nextAnimationFrame()
+
+        it "does not flip horizontally and force the overlay to have a negative left", ->
+          marker = editor.displayBuffer.markBufferRange([[0, 2], [0, 2]], invalidate: 'never')
+          decoration = editor.decorateMarker(marker, {type: 'overlay', item})
+          nextAnimationFrame()
+
+          position = editor.pixelPositionForBufferPosition([0, 2])
+
+          overlay = component.getTopmostDOMNode().querySelector('atom-overlay')
+          expect(overlay.style.left).toBe position.left + 'px'
+          expect(overlay.style.top).toBe position.top + editor.getLineHeightInPixels() + 'px'
+
+          editor.insertText('a')
+          nextAnimationFrame()
+
+          position = editor.pixelPositionForBufferPosition([0, 3])
+
+          expect(overlay.style.left).toBe position.left + 'px'
+          expect(overlay.style.top).toBe position.top + editor.getLineHeightInPixels() + 'px'
+
+        it "does not flip vertically and force the overlay to have a negative top", ->
+          marker = editor.displayBuffer.markBufferRange([[1, 0], [1, 0]], invalidate: 'never')
+          decoration = editor.decorateMarker(marker, {type: 'overlay', item})
+          nextAnimationFrame()
+
+          position = editor.pixelPositionForBufferPosition([1, 0])
+
+          overlay = component.getTopmostDOMNode().querySelector('atom-overlay')
+          expect(overlay.style.left).toBe position.left + 'px'
+          expect(overlay.style.top).toBe position.top + editor.getLineHeightInPixels() + 'px'
+
+          editor.insertNewline()
+          nextAnimationFrame()
+
+          position = editor.pixelPositionForBufferPosition([2, 0])
+
+          expect(overlay.style.left).toBe position.left + 'px'
+          expect(overlay.style.top).toBe position.top + editor.getLineHeightInPixels() + 'px'
+
+
+      describe "when editor scroll position is not 0", ->
+        it "flips horizontally when near the right edge", ->
+          editor.setScrollLeft(2 * editor.getDefaultCharWidth())
+          marker = editor.displayBuffer.markBufferRange([[0, 28], [0, 28]], invalidate: 'never')
+          decoration = editor.decorateMarker(marker, {type: 'overlay', item})
+          nextAnimationFrame()
+
+          position = editor.pixelPositionForBufferPosition([0, 28])
+
+          overlay = component.getTopmostDOMNode().querySelector('atom-overlay')
+          expect(overlay.style.left).toBe position.left + 'px'
+          expect(overlay.style.top).toBe position.top + editor.getLineHeightInPixels() + 'px'
+
+          editor.insertText('a')
+          nextAnimationFrame()
+
+          position = editor.pixelPositionForBufferPosition([0, 29])
+
+          expect(overlay.style.left).toBe position.left - itemWidth + 'px'
+          expect(overlay.style.top).toBe position.top + editor.getLineHeightInPixels() + 'px'
+
+        it "flips vertically when near the bottom edge", ->
+          editor.setScrollTop(2 * editor.getLineHeightInPixels())
+          marker = editor.displayBuffer.markBufferRange([[6, 0], [6, 0]], invalidate: 'never')
+          decoration = editor.decorateMarker(marker, {type: 'overlay', item})
+          nextAnimationFrame()
+
+          position = editor.pixelPositionForBufferPosition([6, 0])
+
+          overlay = component.getTopmostDOMNode().querySelector('atom-overlay')
+          expect(overlay.style.left).toBe position.left + 'px'
+          expect(overlay.style.top).toBe position.top + editor.getLineHeightInPixels() + 'px'
+
+          editor.insertNewline()
+          nextAnimationFrame()
+
+          position = editor.pixelPositionForBufferPosition([7, 0])
+
+          expect(overlay.style.left).toBe position.left + 'px'
+          expect(overlay.style.top).toBe position.top - itemHeight + 'px'
+
   describe "hidden input field", ->
     it "renders the hidden input field at the position of the last cursor if the cursor is on screen and the editor is focused", ->
       editor.setVerticalScrollMargin(0)
@@ -2462,6 +2684,28 @@ describe "TextEditorComponent", ->
         expect(line1LeafNodes[0].classList.contains('indent-guide')).toBe false
         expect(line1LeafNodes[1].classList.contains('indent-guide')).toBe false
 
+  describe "middle mouse paste on Linux", ->
+    it "pastes the previously selected text", ->
+      spyOn(require('ipc'), 'send').andCallFake (eventName, selectedText) ->
+        if eventName is 'write-text-to-selection-clipboard'
+          require('clipboard').writeText(selectedText, 'selection')
+
+      atom.clipboard.write('')
+      component.listenForMiddleMousePaste()
+
+      editor.setCursorBufferPosition([10, 0])
+      componentNode.querySelector('.scroll-view').dispatchEvent(buildMouseEvent('mouseup', which: 2))
+
+      expect(atom.clipboard.read()).toBe ''
+      expect(editor.lineTextForBufferRow(10)).toBe ''
+
+      editor.setSelectedBufferRange([[1, 6], [1, 10]])
+      editor.setCursorBufferPosition([10, 0])
+      componentNode.querySelector('.scroll-view').dispatchEvent(buildMouseEvent('mouseup', which: 2))
+
+      expect(atom.clipboard.read()).toBe 'sort'
+      expect(editor.lineTextForBufferRow(10)).toBe 'sort'
+
   buildMouseEvent = (type, properties...) ->
     properties = extend({bubbles: true, cancelable: true}, properties...)
     properties.detail ?= 1

spec/text-editor-element-spec.coffee

@@ -1,4 +1,5 @@
 TextEditorElement = require '../src/text-editor-element'
+TextEditor = require '../src/text-editor'
 
 # The rest of text-editor-component-spec will be moved to this file when React
 # is eliminated. This covers only concerns related to the wrapper element for now
@@ -19,6 +20,13 @@ describe "TextEditorElement", ->
       element = jasmineContent.firstChild
       expect(element.getModel().getPlaceholderText()).toBe 'testing'
 
+  describe "when the model is assigned", ->
+    it "adds the 'mini' attribute if .isMini() returns true on the model", ->
+      element = new TextEditorElement
+      model = new TextEditor(mini: true)
+      element.setModel(model)
+      expect(element.hasAttribute('mini')).toBe true
+
   describe "focus and blur handling", ->
     describe "when the editor.useShadowDOM config option is true", ->
       it "proxies focus/blur events to/from the hidden input inside the shadow root", ->
@@ -40,9 +48,6 @@ describe "TextEditorElement", ->
         expect(blurCalled).toBe true
 
     describe "when the editor.useShadowDOM config option is false", ->
-      afterEach ->
-        document.head.querySelector('atom-styles[context="atom-text-editor"]').remove()
-
       it "proxies focus/blur events to/from the hidden input", ->
         atom.config.set('editor.useShadowDOM', false)
 
@@ -59,3 +64,37 @@ describe "TextEditorElement", ->
 
         document.body.focus()
         expect(blurCalled).toBe true
+
+  describe "when the themes finish loading", ->
+    [themeReloadCallback, initialThemeLoadComplete, element] = []
+
+    beforeEach ->
+      themeReloadCallback = null
+      initialThemeLoadComplete = false
+
+      spyOn(atom.themes, 'isInitialLoadComplete').andCallFake ->
+        initialThemeLoadComplete
+      spyOn(atom.themes, 'onDidReloadAll').andCallFake (fn) ->
+        themeReloadCallback = fn
+
+      atom.config.set("editor.useShadowDOM", false)
+
+      element = new TextEditorElement()
+      element.style.height = '200px'
+      element.getModel().setText [0..20].join("\n")
+
+    it "re-renders the scrollbar", ->
+      jasmineContent.appendChild(element)
+
+      atom.styles.addStyleSheet """
+        ::-webkit-scrollbar {
+          width: 8px;
+        }
+      """
+
+      initialThemeLoadComplete = true
+      themeReloadCallback()
+
+      verticalScrollbarNode = element.querySelector(".vertical-scrollbar")
+      scrollbarWidth = verticalScrollbarNode.offsetWidth - verticalScrollbarNode.clientWidth
+      expect(scrollbarWidth).toEqual(8)

spec/text-editor-spec.coffee

@@ -98,12 +98,13 @@ describe "TextEditor", ->
       expect(editor2.isFoldedAtBufferRow(4)).not.toBe editor.isFoldedAtBufferRow(4)
 
   describe "config defaults", ->
-    it "uses the `editor.tabLength`, `editor.softWrap`, and `editor.softTabs` config values", ->
+    it "uses the `editor.tabLength`, `editor.softWrap`, and `editor.softTabs`, and `core.fileEncoding` config values", ->
       editor1 = null
       editor2 = null
       atom.config.set('editor.tabLength', 4)
       atom.config.set('editor.softWrap', true)
       atom.config.set('editor.softTabs', false)
+      atom.config.set('core.fileEncoding', 'utf16le')
 
       waitsForPromise ->
         atom.workspace.open('a').then (o) -> editor1 = o
@@ -112,10 +113,12 @@ describe "TextEditor", ->
         expect(editor1.getTabLength()).toBe 4
         expect(editor1.isSoftWrapped()).toBe true
         expect(editor1.getSoftTabs()).toBe false
+        expect(editor1.getEncoding()).toBe 'utf16le'
 
         atom.config.set('editor.tabLength', 8)
         atom.config.set('editor.softWrap', false)
         atom.config.set('editor.softTabs', true)
+        atom.config.set('core.fileEncoding', 'macroman')
 
       waitsForPromise ->
         atom.workspace.open('b').then (o) -> editor2 = o
@@ -124,6 +127,7 @@ describe "TextEditor", ->
         expect(editor2.getTabLength()).toBe 8
         expect(editor2.isSoftWrapped()).toBe false
         expect(editor2.getSoftTabs()).toBe true
+        expect(editor2.getEncoding()).toBe 'macroman'
 
   describe "title", ->
     describe ".getTitle()", ->
@@ -1158,6 +1162,21 @@ describe "TextEditor", ->
         editor.selectLinesContainingCursors()
         expect(editor.getSelectedBufferRange()).toEqual [[0,0], [2,0]]
 
+      it "autoscrolls to the selection", ->
+        editor.manageScrollPosition = true
+        editor.setLineHeightInPixels(10)
+        editor.setDefaultCharWidth(10)
+        editor.setHeight(50)
+        editor.setWidth(50)
+        editor.setHorizontalScrollbarHeight(0)
+        editor.setCursorScreenPosition([5, 6])
+
+        editor.scrollToTop()
+        expect(editor.getScrollTop()).toBe 0
+
+        editor.selectLinesContainingCursors()
+        expect(editor.getScrollBottom()).toBe (7 + editor.getVerticalScrollMargin()) * 10
+
     describe ".selectToBeginningOfWord()", ->
       it "selects text from cusor position to beginning of word", ->
         editor.setCursorScreenPosition [0,13]
@@ -2458,17 +2477,33 @@ describe "TextEditor", ->
           expect(editor.getCursorScreenPosition()).toEqual [0, editor.getTabLength() * 2]
 
     describe "clipboard operations", ->
-      beforeEach ->
-        editor.setSelectedBufferRanges([[[0, 4], [0, 13]], [[1, 6], [1, 10]]])
-
       describe ".cutSelectedText()", ->
         it "removes the selected text from the buffer and places it on the clipboard", ->
+          editor.setSelectedBufferRanges([[[0, 4], [0, 13]], [[1, 6], [1, 10]]])
           editor.cutSelectedText()
           expect(buffer.lineForRow(0)).toBe "var  = function () {"
           expect(buffer.lineForRow(1)).toBe "  var  = function(items) {"
-
           expect(clipboard.readText()).toBe 'quicksort\nsort'
 
+        describe "when no text is selected", ->
+          beforeEach ->
+            editor.setSelectedBufferRanges([
+              [[0, 0], [0, 0]],
+              [[5, 0], [5, 0]],
+            ])
+
+          it "cuts the lines on which there are cursors", ->
+            editor.cutSelectedText()
+            expect(buffer.getLineCount()).toBe(11)
+            expect(buffer.lineForRow(1)).toBe("    if (items.length <= 1) return items;")
+            expect(buffer.lineForRow(4)).toBe("      current < pivot ? left.push(current) : right.push(current);")
+            expect(atom.clipboard.read()).toEqual """
+              var quicksort = function () {
+
+                    current = items.shift();
+
+            """
+
       describe ".cutToEndOfLine()", ->
         describe "when soft wrap is on", ->
           it "cuts up to the end of the line", ->
@@ -2507,37 +2542,190 @@ describe "TextEditor", ->
           expect(buffer.lineForRow(1)).toBe "  var sort = function(items) {"
           expect(buffer.lineForRow(2)).toBe "    if (items.length <= 1) return items;"
           expect(clipboard.readText()).toBe 'quicksort\nsort\nitems'
-          expect(atom.clipboard.readWithMetadata().metadata.selections).toEqual([
-            'quicksort'
-            'sort'
-            'items'
-          ])
+          expect(atom.clipboard.read()).toEqual """
+            quicksort
+            sort
+            items
+          """
+
+        describe "when no text is selected", ->
+          beforeEach ->
+            editor.setSelectedBufferRanges([
+              [[1, 5], [1, 5]],
+              [[5, 8], [5, 8]]
+            ])
+
+          it "copies the lines on which there are cursors", ->
+            editor.copySelectedText()
+            expect(atom.clipboard.read()).toEqual([
+              "  var sort = function(items) {\n"
+              "      current = items.shift();\n"
+            ].join("\n"))
+            expect(editor.getSelectedBufferRanges()).toEqual([
+              [[1, 5], [1, 5]],
+              [[5, 8], [5, 8]]
+            ])
 
       describe ".pasteText()", ->
+        copyText = (text, {startColumn, textEditor}={}) ->
+          startColumn ?= 0
+          textEditor ?= editor
+          textEditor.setCursorBufferPosition([0, 0])
+          textEditor.insertText(text)
+          numberOfNewlines = text.match(/\n/g)?.length
+          endColumn = text.match(/[^\n]*$/)[0]?.length
+          textEditor.getLastSelection().setBufferRange([[0,startColumn], [numberOfNewlines,endColumn]])
+          textEditor.cutSelectedText()
+
         it "pastes text into the buffer", ->
+          editor.setSelectedBufferRanges([[[0, 4], [0, 13]], [[1, 6], [1, 10]]])
           atom.clipboard.write('first')
           editor.pasteText()
           expect(editor.lineTextForBufferRow(0)).toBe "var first = function () {"
           expect(editor.lineTextForBufferRow(1)).toBe "  var first = function(items) {"
 
+        describe "when `autoIndentOnPaste` is true", ->
+          beforeEach ->
+            atom.config.set("editor.autoIndentOnPaste", true)
+
+          describe "when only whitespace precedes the cursor", ->
+            it "auto-indents the lines spanned by the pasted text", ->
+              atom.clipboard.write("console.log(x);\nconsole.log(y);\n")
+              editor.setCursorBufferPosition([5, 2])
+              editor.pasteText()
+              expect(editor.lineTextForBufferRow(5)).toBe("      console.log(x);")
+              expect(editor.lineTextForBufferRow(6)).toBe("      console.log(y);")
+
+          describe "when non-whitespace characters precede the cursor", ->
+            it "does not auto-indent the first line being pasted", ->
+              editor.setText """
+              if (x) {
+                  y();
+              }
+              """
+
+              atom.clipboard.write(" z();")
+              editor.setCursorBufferPosition([1, Infinity])
+              editor.pasteText()
+
+              console.log JSON.stringify(editor.lineTextForBufferRow(1))
+              expect(editor.lineTextForBufferRow(1)).toBe("    y(); z();")
+
+        describe "when `autoIndentOnPaste` is false", ->
+          beforeEach ->
+            atom.config.set('editor.autoIndentOnPaste', false)
+
+          describe "when the inserted text contains no newlines", ->
+            it "does not adjust the indentation level of the text", ->
+              editor.setCursorBufferPosition([5, 2])
+              editor.insertText("foo", indentBasis: 5)
+              expect(editor.lineTextForBufferRow(5)).toBe "  foo    current = items.shift();"
+
+            it "does not adjust the whitespace if there are preceding characters", ->
+              copyText(" foo")
+              editor.setCursorBufferPosition([5, 30])
+              editor.pasteText()
+
+              expect(editor.lineTextForBufferRow(5)).toBe "      current = items.shift(); foo"
+
+          describe "when the inserted text contains newlines", ->
+            describe "when the cursor is preceded only by whitespace characters", ->
+              it "normalizes indented lines to each cursor's current indentation level", ->
+                editor.setSelectedBufferRanges([
+                  [[1,2], [3,0]],
+                  [[4,4], [6,0]]
+                ])
+                editor.copySelectedText()
+                expect(atom.clipboard.read()).toEqual """
+                  var sort = function(items) {
+                      if (items.length <= 1) return items;
+
+                  while(items.length > 0) {
+                        current = items.shift();
+
+                """
+
+                editor.setCursorBufferPosition([0,0])
+                editor.insertNewlineAbove()
+                editor.setSelectedBufferRanges([
+                  [[0,0], [0,0]],
+                  [[1,0], [1,0]]
+                ])
+                editor.pasteText()
+
+                expect(editor.lineTextForBufferRow(0)).toBe "var sort = function(items) {"
+                console.log JSON.stringify(editor.lineTextForBufferRow(1))
+                expect(editor.lineTextForBufferRow(1)).toBe "  if (items.length <= 1) return items;"
+                expect(editor.lineTextForBufferRow(2)).toBe ""
+                expect(editor.lineTextForBufferRow(3)).toBe "while(items.length > 0) {"
+                expect(editor.lineTextForBufferRow(4)).toBe "  current = items.shift();"
+
+            describe "when the cursor is preceded by non-whitespace characters", ->
+              it "normalizes the indentation level of all lines based on the level of the existing first line", ->
+                copyText("    while (true) {\n      foo();\n    }\n", {startColumn: 0})
+                editor.setCursorBufferPosition([1, Infinity])
+                editor.pasteText()
+
+                expect(editor.lineTextForBufferRow(1)).toBe "  var sort = function(items) {while (true) {"
+                expect(editor.lineTextForBufferRow(2)).toBe "    foo();"
+                expect(editor.lineTextForBufferRow(3)).toBe "  }"
+                expect(editor.lineTextForBufferRow(4)).toBe ""
+
         describe 'when the clipboard has many selections', ->
+          beforeEach ->
+            atom.config.set("editor.autoIndentOnPaste", false)
+            editor.setSelectedBufferRanges([[[0, 4], [0, 13]], [[1, 6], [1, 10]]])
+            editor.copySelectedText()
+
           it "pastes each selection separately into the buffer", ->
-            atom.clipboard.write('first\nsecond', {selections: ['first', 'second'] })
+            editor.copySelectedText()
+            editor.moveRight()
+            editor.insertText("_")
             editor.pasteText()
-            expect(editor.lineTextForBufferRow(0)).toBe "var first = function () {"
-            expect(editor.lineTextForBufferRow(1)).toBe "  var second = function(items) {"
+            expect(editor.lineTextForBufferRow(0)).toBe "var quicksort_quicksort = function () {"
+            expect(editor.lineTextForBufferRow(1)).toBe "  var sort_sort = function(items) {"
 
           describe 'and the selections count does not match', ->
-            it "pastes the whole text into the buffer", ->
-              atom.clipboard.write('first\nsecond\nthird', {selections: ['first', 'second', 'third'] })
-              editor.pasteText()
-              expect(editor.lineTextForBufferRow(0)).toBe "var first"
-              expect(editor.lineTextForBufferRow(1)).toBe "second"
-              expect(editor.lineTextForBufferRow(2)).toBe "third = function () {"
+            beforeEach ->
+              editor.setSelectedBufferRanges([[[0, 4], [0, 13]]])
 
-              expect(editor.lineTextForBufferRow(3)).toBe "  var first"
-              expect(editor.lineTextForBufferRow(4)).toBe "second"
-              expect(editor.lineTextForBufferRow(5)).toBe "third = function(items) {"
+            it "pastes the whole text into the buffer", ->
+              editor.pasteText()
+              expect(editor.lineTextForBufferRow(0)).toBe "var quicksort"
+              expect(editor.lineTextForBufferRow(1)).toBe "sort = function () {"
+
+        describe "when a full line was cut", ->
+          beforeEach ->
+            editor.setCursorBufferPosition([2, 13])
+            editor.cutSelectedText()
+            editor.setCursorBufferPosition([2, 13])
+
+          it "pastes the line above the cursor and retains the cursor's column", ->
+            editor.pasteText()
+            expect(editor.lineTextForBufferRow(2)).toBe("    if (items.length <= 1) return items;")
+            expect(editor.lineTextForBufferRow(3)).toBe("    var pivot = items.shift(), current, left = [], right = [];")
+            expect(editor.getCursorBufferPosition()).toEqual([3, 13])
+
+        describe "when a full line was copied", ->
+          beforeEach ->
+            editor.setCursorBufferPosition([2, 13])
+            editor.copySelectedText()
+
+          describe "when there is a selection", ->
+            it "overwrites the selection as with any copied text", ->
+              editor.setSelectedBufferRange([[1, 2], [1, Infinity]])
+              editor.pasteText()
+              expect(editor.lineTextForBufferRow(1)).toBe("  if (items.length <= 1) return items;")
+              expect(editor.lineTextForBufferRow(2)).toBe("  ")
+              expect(editor.lineTextForBufferRow(3)).toBe("    if (items.length <= 1) return items;")
+              expect(editor.getCursorBufferPosition()).toEqual([2, 2])
+
+          describe "when there is no selection", ->
+            it "pastes the line above the cursor and retains the cursor's column", ->
+              editor.pasteText()
+              expect(editor.lineTextForBufferRow(2)).toBe("    if (items.length <= 1) return items;")
+              expect(editor.lineTextForBufferRow(3)).toBe("    if (items.length <= 1) return items;")
+              expect(editor.getCursorBufferPosition()).toEqual([3, 13])
 
     describe ".indentSelectedRows()", ->
       describe "when nothing is selected", ->
@@ -2668,6 +2856,18 @@ describe "TextEditor", ->
 
           expect(editor.getSelectedBufferRange()).toEqual [[0, 1], [3, 0]]
 
+    describe ".autoIndentSelectedRows", ->
+      it "auto-indents the selection", ->
+        editor.setCursorBufferPosition([2, 0])
+        editor.insertText("function() {\ninside=true\n}\n  i=1\n")
+        editor.getLastSelection().setBufferRange([[2,0], [6,0]])
+        editor.autoIndentSelectedRows()
+
+        expect(editor.lineTextForBufferRow(2)).toBe "    function() {"
+        expect(editor.lineTextForBufferRow(3)).toBe "      inside=true"
+        expect(editor.lineTextForBufferRow(4)).toBe "    }"
+        expect(editor.lineTextForBufferRow(5)).toBe "    i=1"
+
     describe ".toggleLineCommentsInSelection()", ->
       it "toggles comments on the selected lines", ->
         editor.setSelectedBufferRange([[4, 5], [7, 5]])
@@ -3171,237 +3371,145 @@ describe "TextEditor", ->
         expect(editor.getGrammar()).toBe jsGrammar
         expect(editor.tokenizedLineForScreenRow(0).tokens.length).toBeGreaterThan 1
 
-  describe "auto-indent", ->
-    copyText = (text, {startColumn, textEditor}={}) ->
-      startColumn ?= 0
-      textEditor ?= editor
-      textEditor.setCursorBufferPosition([0, 0])
-      textEditor.insertText(text)
-      numberOfNewlines = text.match(/\n/g)?.length
-      endColumn = text.match(/[^\n]*$/)[0]?.length
-      textEditor.getLastSelection().setBufferRange([[0,startColumn], [numberOfNewlines,endColumn]])
-      textEditor.cutSelectedText()
-
-    describe "editor.autoIndent", ->
-      describe "when editor.autoIndent is false (default)", ->
-        describe "when `indent` is triggered", ->
-          it "does not auto-indent the line", ->
-            editor.setCursorBufferPosition([1, 30])
-            editor.insertText("\n ")
-            expect(editor.lineTextForBufferRow(2)).toBe " "
-
-            atom.config.set("editor.autoIndent", false)
-            editor.indent()
-            expect(editor.lineTextForBufferRow(2)).toBe "  "
-
-      describe "when editor.autoIndent is true", ->
-        beforeEach ->
-          atom.config.set("editor.autoIndent", true)
-
-        describe "when `indent` is triggered", ->
-          it "auto-indents the line", ->
-            editor.setCursorBufferPosition([1, 30])
-            editor.insertText("\n ")
-            expect(editor.lineTextForBufferRow(2)).toBe " "
-
-            atom.config.set("editor.autoIndent", true)
-            editor.indent()
-            expect(editor.lineTextForBufferRow(2)).toBe "    "
-
-        describe "when a newline is added", ->
-          describe "when the line preceding the newline adds a new level of indentation", ->
-            it "indents the newline to one additional level of indentation beyond the preceding line", ->
-              editor.setCursorBufferPosition([1, Infinity])
-              editor.insertText('\n')
-              expect(editor.indentationForBufferRow(2)).toBe editor.indentationForBufferRow(1) + 1
-
-          describe "when the line preceding the newline does't add a level of indentation", ->
-            it "indents the new line to the same level a as the preceding line", ->
-              editor.setCursorBufferPosition([5, 14])
-              editor.insertText('\n')
-              expect(editor.indentationForBufferRow(6)).toBe editor.indentationForBufferRow(5)
-
-          describe "when the line preceding the newline is a comment", ->
-            it "maintains the indent of the commented line", ->
-              editor.setCursorBufferPosition([0, 0])
-              editor.insertText('    //')
-              editor.setCursorBufferPosition([0, Infinity])
-              editor.insertText('\n')
-              expect(editor.indentationForBufferRow(1)).toBe 2
-
-          it "does not indent the line preceding the newline", ->
-            editor.setCursorBufferPosition([2, 0])
-            editor.insertText('  var this-line-should-be-indented-more\n')
-            expect(editor.indentationForBufferRow(1)).toBe 1
-
-            atom.config.set("editor.autoIndent", true)
-            editor.setCursorBufferPosition([2, Infinity])
-            editor.insertText('\n')
-            expect(editor.indentationForBufferRow(1)).toBe 1
-            expect(editor.indentationForBufferRow(2)).toBe 1
-
-          describe "when the cursor is before whitespace", ->
-            it "retains the whitespace following the cursor on the new line", ->
-              editor.setText("  var sort = function() {}")
-              editor.setCursorScreenPosition([0, 23])
-              editor.insertNewline()
-
-              expect(buffer.lineForRow(0)).toBe '  var sort = function()'
-              expect(buffer.lineForRow(1)).toBe '   {}'
-              expect(editor.getCursorScreenPosition()).toEqual [1, 2]
-
-        describe "when inserted text matches a decrease indent pattern", ->
-          describe "when the preceding line matches an increase indent pattern", ->
-            it "decreases the indentation to match that of the preceding line", ->
-              editor.setCursorBufferPosition([1, Infinity])
-              editor.insertText('\n')
-              expect(editor.indentationForBufferRow(2)).toBe editor.indentationForBufferRow(1) + 1
-              editor.insertText('}')
-              expect(editor.indentationForBufferRow(2)).toBe editor.indentationForBufferRow(1)
-
-          describe "when the preceding line doesn't match an increase indent pattern", ->
-            it "decreases the indentation to be one level below that of the preceding line", ->
-              editor.setCursorBufferPosition([3, Infinity])
-              editor.insertText('\n    ')
-              expect(editor.indentationForBufferRow(4)).toBe editor.indentationForBufferRow(3)
-              editor.insertText('}')
-              expect(editor.indentationForBufferRow(4)).toBe editor.indentationForBufferRow(3) - 1
-
-            it "doesn't break when decreasing the indentation on a row that has no indentation", ->
-              editor.setCursorBufferPosition([12, Infinity])
-              editor.insertText("\n}; # too many closing brackets!")
-              expect(editor.lineTextForBufferRow(13)).toBe "}; # too many closing brackets!"
-
-        describe "when inserted text does not match a decrease indent pattern", ->
-          it "does not decrease the indentation", ->
-            editor.setCursorBufferPosition([12, 0])
-            editor.insertText('  ')
-            expect(editor.lineTextForBufferRow(12)).toBe '  };'
-            editor.insertText('\t\t')
-            expect(editor.lineTextForBufferRow(12)).toBe '  \t\t};'
-
-        describe "when the current line does not match a decrease indent pattern", ->
-          it "leaves the line unchanged", ->
-            editor.setCursorBufferPosition([2, 4])
-            expect(editor.indentationForBufferRow(2)).toBe editor.indentationForBufferRow(1) + 1
-            editor.insertText('foo')
-            expect(editor.indentationForBufferRow(2)).toBe editor.indentationForBufferRow(1) + 1
-
-      describe 'when scoped settings are used', ->
-        coffeeEditor = null
-        beforeEach ->
-          waitsForPromise ->
-            atom.packages.activatePackage('language-coffee-script')
-          waitsForPromise ->
-            atom.project.open('coffee.coffee', autoIndent: false).then (o) -> coffeeEditor = o
-
-          runs ->
-            atom.config.set('.source.js', 'editor.autoIndent', true)
-            atom.config.set('.source.coffee', 'editor.autoIndent', false)
-
-        afterEach: ->
-          atom.packages.deactivatePackages()
-          atom.packages.unloadPackages()
-
-        it "does not auto-indent the line for javascript files", ->
+  describe "editor.autoIndent", ->
+    describe "when editor.autoIndent is false (default)", ->
+      describe "when `indent` is triggered", ->
+        it "does not auto-indent the line", ->
           editor.setCursorBufferPosition([1, 30])
-          editor.insertText("\n")
+          editor.insertText("\n ")
+          expect(editor.lineTextForBufferRow(2)).toBe " "
+
+          atom.config.set("editor.autoIndent", false)
+          editor.indent()
+          expect(editor.lineTextForBufferRow(2)).toBe "  "
+
+    describe "when editor.autoIndent is true", ->
+      beforeEach ->
+        atom.config.set("editor.autoIndent", true)
+
+      describe "when `indent` is triggered", ->
+        it "auto-indents the line", ->
+          editor.setCursorBufferPosition([1, 30])
+          editor.insertText("\n ")
+          expect(editor.lineTextForBufferRow(2)).toBe " "
+
+          atom.config.set("editor.autoIndent", true)
+          editor.indent()
           expect(editor.lineTextForBufferRow(2)).toBe "    "
 
-          coffeeEditor.setCursorBufferPosition([1, 18])
-          coffeeEditor.insertText("\n")
-          expect(coffeeEditor.lineTextForBufferRow(2)).toBe ""
-
-    describe "editor.normalizeIndentOnPaste", ->
-      beforeEach ->
-        atom.config.set('editor.normalizeIndentOnPaste', true)
-
-      it "does not normalize the indentation level of the text when editor.normalizeIndentOnPaste is false", ->
-        copyText("   function() {\nvar cool = 1;\n  }\n")
-        atom.config.set('editor.normalizeIndentOnPaste', false)
-        editor.setCursorBufferPosition([5, 2])
-        editor.pasteText()
-        expect(editor.lineTextForBufferRow(5)).toBe "     function() {"
-        expect(editor.lineTextForBufferRow(6)).toBe "var cool = 1;"
-        expect(editor.lineTextForBufferRow(7)).toBe "  }"
-
-      describe "when the inserted text contains no newlines", ->
-        it "does not adjust the indentation level of the text", ->
-          editor.setCursorBufferPosition([5, 2])
-          editor.insertText("foo", indentBasis: 5)
-          expect(editor.lineTextForBufferRow(5)).toBe "  foo    current = items.shift();"
-
-        it "does not adjust the whitespace if there are preceding characters", ->
-          copyText(" foo")
-          editor.setCursorBufferPosition([5, 30])
-          editor.pasteText()
-
-          expect(editor.lineTextForBufferRow(5)).toBe "      current = items.shift(); foo"
-
-      describe "when the inserted text contains newlines", ->
-        describe "when the cursor is preceded only by whitespace characters", ->
-          it "normalizes indented lines to the cursor's current indentation level", ->
-            copyText("    while (true) {\n      foo();\n    }\n", {startColumn: 2})
-            editor.setCursorBufferPosition([3, 4])
-            editor.pasteText()
-
-            expect(editor.lineTextForBufferRow(3)).toBe "    while (true) {"
-            expect(editor.lineTextForBufferRow(4)).toBe "      foo();"
-            expect(editor.lineTextForBufferRow(5)).toBe "    }"
-            expect(editor.lineTextForBufferRow(6)).toBe "var pivot = items.shift(), current, left = [], right = [];"
-
-        describe "when the cursor is preceded by non-whitespace characters", ->
-          it "normalizes the indentation level of all lines based on the level of the existing first line", ->
-            copyText("    while (true) {\n      foo();\n    }\n", {startColumn: 0})
+      describe "when a newline is added", ->
+        describe "when the line preceding the newline adds a new level of indentation", ->
+          it "indents the newline to one additional level of indentation beyond the preceding line", ->
             editor.setCursorBufferPosition([1, Infinity])
-            editor.pasteText()
+            editor.insertText('\n')
+            expect(editor.indentationForBufferRow(2)).toBe editor.indentationForBufferRow(1) + 1
 
-            expect(editor.lineTextForBufferRow(1)).toBe "  var sort = function(items) {while (true) {"
-            expect(editor.lineTextForBufferRow(2)).toBe "    foo();"
-            expect(editor.lineTextForBufferRow(3)).toBe "  }"
-            expect(editor.lineTextForBufferRow(4)).toBe ""
+        describe "when the line preceding the newline does't add a level of indentation", ->
+          it "indents the new line to the same level a as the preceding line", ->
+            editor.setCursorBufferPosition([5, 14])
+            editor.insertText('\n')
+            expect(editor.indentationForBufferRow(6)).toBe editor.indentationForBufferRow(5)
 
-      describe 'when scoped settings are used', ->
-        coffeeEditor = null
-        beforeEach ->
-          waitsForPromise ->
-            atom.packages.activatePackage('language-coffee-script')
-          waitsForPromise ->
-            atom.project.open('coffee.coffee', autoIndent: false).then (o) -> coffeeEditor = o
+        describe "when the line preceding the newline is a comment", ->
+          it "maintains the indent of the commented line", ->
+            editor.setCursorBufferPosition([0, 0])
+            editor.insertText('    //')
+            editor.setCursorBufferPosition([0, Infinity])
+            editor.insertText('\n')
+            expect(editor.indentationForBufferRow(1)).toBe 2
 
-          runs ->
-            atom.config.set('.source.js', 'editor.normalizeIndentOnPaste', true)
-            atom.config.set('.source.coffee', 'editor.normalizeIndentOnPaste', false)
+        describe "when the line preceding the newline contains only whitespace", ->
+          it "bases the new line's indentation on only the preceding line", ->
+            editor.setCursorBufferPosition([6, Infinity])
+            editor.insertText("\n  ")
+            expect(editor.getCursorBufferPosition()).toEqual([7, 2])
 
-        afterEach: ->
-          atom.packages.deactivatePackages()
-          atom.packages.unloadPackages()
+            editor.insertNewline()
+            editor.logScreenLines()
+            expect(editor.lineTextForBufferRow(8)).toBe("  ")
 
-        it "normalizes the indentation level based on scoped settings", ->
-          copyText("    while (true) {\n      foo();\n    }\n", {startColumn: 2, textEditor: coffeeEditor})
-          coffeeEditor.setCursorBufferPosition([4, 4])
-          coffeeEditor.pasteText()
-          expect(coffeeEditor.lineTextForBufferRow(4)).toBe "      while (true) {"
-          expect(coffeeEditor.lineTextForBufferRow(5)).toBe "      foo();"
-          expect(coffeeEditor.lineTextForBufferRow(6)).toBe "    }"
+        it "does not indent the line preceding the newline", ->
+          editor.setCursorBufferPosition([2, 0])
+          editor.insertText('  var this-line-should-be-indented-more\n')
+          expect(editor.indentationForBufferRow(1)).toBe 1
 
-          copyText("    while (true) {\n      foo();\n    }\n", {startColumn: 2})
-          editor.setCursorBufferPosition([3, 4])
-          editor.pasteText()
-          expect(editor.lineTextForBufferRow(3)).toBe "    while (true) {"
-          expect(editor.lineTextForBufferRow(4)).toBe "      foo();"
-          expect(editor.lineTextForBufferRow(5)).toBe "    }"
+          atom.config.set("editor.autoIndent", true)
+          editor.setCursorBufferPosition([2, Infinity])
+          editor.insertText('\n')
+          expect(editor.indentationForBufferRow(1)).toBe 1
+          expect(editor.indentationForBufferRow(2)).toBe 1
 
-    it "autoIndentSelectedRows auto-indents the selection", ->
-      editor.setCursorBufferPosition([2, 0])
-      editor.insertText("function() {\ninside=true\n}\n  i=1\n")
-      editor.getLastSelection().setBufferRange([[2,0], [6,0]])
-      editor.autoIndentSelectedRows()
+        describe "when the cursor is before whitespace", ->
+          it "retains the whitespace following the cursor on the new line", ->
+            editor.setText("  var sort = function() {}")
+            editor.setCursorScreenPosition([0, 23])
+            editor.insertNewline()
 
-      expect(editor.lineTextForBufferRow(2)).toBe "    function() {"
-      expect(editor.lineTextForBufferRow(3)).toBe "      inside=true"
-      expect(editor.lineTextForBufferRow(4)).toBe "    }"
-      expect(editor.lineTextForBufferRow(5)).toBe "    i=1"
+            expect(buffer.lineForRow(0)).toBe '  var sort = function()'
+            expect(buffer.lineForRow(1)).toBe '   {}'
+            expect(editor.getCursorScreenPosition()).toEqual [1, 2]
+
+      describe "when inserted text matches a decrease indent pattern", ->
+        describe "when the preceding line matches an increase indent pattern", ->
+          it "decreases the indentation to match that of the preceding line", ->
+            editor.setCursorBufferPosition([1, Infinity])
+            editor.insertText('\n')
+            expect(editor.indentationForBufferRow(2)).toBe editor.indentationForBufferRow(1) + 1
+            editor.insertText('}')
+            expect(editor.indentationForBufferRow(2)).toBe editor.indentationForBufferRow(1)
+
+        describe "when the preceding line doesn't match an increase indent pattern", ->
+          it "decreases the indentation to be one level below that of the preceding line", ->
+            editor.setCursorBufferPosition([3, Infinity])
+            editor.insertText('\n    ')
+            expect(editor.indentationForBufferRow(4)).toBe editor.indentationForBufferRow(3)
+            editor.insertText('}')
+            expect(editor.indentationForBufferRow(4)).toBe editor.indentationForBufferRow(3) - 1
+
+          it "doesn't break when decreasing the indentation on a row that has no indentation", ->
+            editor.setCursorBufferPosition([12, Infinity])
+            editor.insertText("\n}; # too many closing brackets!")
+            expect(editor.lineTextForBufferRow(13)).toBe "}; # too many closing brackets!"
+
+      describe "when inserted text does not match a decrease indent pattern", ->
+        it "does not decrease the indentation", ->
+          editor.setCursorBufferPosition([12, 0])
+          editor.insertText('  ')
+          expect(editor.lineTextForBufferRow(12)).toBe '  };'
+          editor.insertText('\t\t')
+          expect(editor.lineTextForBufferRow(12)).toBe '  \t\t};'
+
+      describe "when the current line does not match a decrease indent pattern", ->
+        it "leaves the line unchanged", ->
+          editor.setCursorBufferPosition([2, 4])
+          expect(editor.indentationForBufferRow(2)).toBe editor.indentationForBufferRow(1) + 1
+          editor.insertText('foo')
+          expect(editor.indentationForBufferRow(2)).toBe editor.indentationForBufferRow(1) + 1
+
+    describe 'when scoped settings are used', ->
+      coffeeEditor = null
+      beforeEach ->
+        waitsForPromise ->
+          atom.packages.activatePackage('language-coffee-script')
+        waitsForPromise ->
+          atom.project.open('coffee.coffee', autoIndent: false).then (o) -> coffeeEditor = o
+
+        runs ->
+          atom.config.set('.source.js', 'editor.autoIndent', true)
+          atom.config.set('.source.coffee', 'editor.autoIndent', false)
+
+      afterEach: ->
+        atom.packages.deactivatePackages()
+        atom.packages.unloadPackages()
+
+      it "does not auto-indent the line for javascript files", ->
+        editor.setCursorBufferPosition([1, 30])
+        editor.insertText("\n")
+        expect(editor.lineTextForBufferRow(2)).toBe "    "
+
+        coffeeEditor.setCursorBufferPosition([1, 18])
+        coffeeEditor.insertText("\n")
+        expect(coffeeEditor.lineTextForBufferRow(2)).toBe ""
 
   describe "soft and hard tabs", ->
     afterEach ->
@@ -3423,6 +3531,19 @@ describe "TextEditor", ->
       runs ->
         expect(editor.softTabs).toBe false
 
+    it "uses hard tabs in Makefile files", ->
+      # FIXME remove once this is handled by a scoped setting in the
+      # language-make package
+
+      waitsForPromise ->
+        atom.packages.activatePackage('language-make')
+
+      waitsForPromise ->
+        atom.project.open('Makefile').then (o) -> editor = o
+
+      runs ->
+        expect(editor.softTabs).toBe false
+
   describe ".destroy()", ->
     it "destroys all markers associated with the edit session", ->
       expect(buffer.getMarkerCount()).toBeGreaterThan 0

spec/theme-manager-spec.coffee

@@ -70,7 +70,7 @@ describe "ThemeManager", ->
   describe "when the core.themes config value changes", ->
     it "add/removes stylesheets to reflect the new config value", ->
       themeManager.onDidReloadAll reloadHandler = jasmine.createSpy()
-      spyOn(themeManager, 'getUserStylesheetPath').andCallFake -> null
+      spyOn(atom.styles, 'getUserStyleSheetPath').andCallFake -> null
 
       waitsForPromise ->
         themeManager.activateThemes()
@@ -92,7 +92,7 @@ describe "ThemeManager", ->
 
       runs ->
         reloadHandler.reset()
-        expect($('style[group=theme]')).toHaveLength 1
+        expect($('style[group=theme]')).toHaveLength 2
         expect($('style[group=theme]:eq(0)').attr('source-path')).toMatch /atom-dark-ui/
         atom.config.set('core.themes', ['atom-light-ui', 'atom-dark-ui'])
 
@@ -111,7 +111,7 @@ describe "ThemeManager", ->
 
       runs ->
         reloadHandler.reset()
-        expect($('style[group=theme]')).toHaveLength 1
+        expect($('style[group=theme]')).toHaveLength 2
         # atom-dark-ui has an directory path, the syntax one doesn't
         atom.config.set('core.themes', ['theme-with-index-less', 'atom-dark-ui'])
 
@@ -268,7 +268,7 @@ describe "ThemeManager", ->
       [stylesheetRemovedHandler, stylesheetAddedHandler, stylesheetsChangedHandler] = []
       userStylesheetPath = path.join(temp.mkdirSync("atom"), 'styles.less')
       fs.writeFileSync(userStylesheetPath, 'body {border-style: dotted !important;}')
-      spyOn(themeManager, 'getUserStylesheetPath').andReturn userStylesheetPath
+      spyOn(atom.styles, 'getUserStyleSheetPath').andReturn userStylesheetPath
 
       waitsForPromise ->
         themeManager.activateThemes()

spec/workspace-view-spec.coffee

@@ -277,15 +277,15 @@ describe "WorkspaceView", ->
       workspaceElement = atom.views.getView(atom.workspace)
 
     it 'inserts panel container elements in the correct places in the DOM', ->
-      leftContainer = workspaceElement.querySelector('atom-panel-container[location="left"]')
-      rightContainer = workspaceElement.querySelector('atom-panel-container[location="right"]')
+      leftContainer = workspaceElement.querySelector('atom-panel-container.left')
+      rightContainer = workspaceElement.querySelector('atom-panel-container.right')
       expect(leftContainer.nextSibling).toBe workspaceElement.verticalAxis
       expect(rightContainer.previousSibling).toBe workspaceElement.verticalAxis
 
-      topContainer = workspaceElement.querySelector('atom-panel-container[location="top"]')
-      bottomContainer = workspaceElement.querySelector('atom-panel-container[location="bottom"]')
+      topContainer = workspaceElement.querySelector('atom-panel-container.top')
+      bottomContainer = workspaceElement.querySelector('atom-panel-container.bottom')
       expect(topContainer.nextSibling).toBe workspaceElement.paneContainer
       expect(bottomContainer.previousSibling).toBe workspaceElement.paneContainer
 
-      modalContainer = workspaceElement.querySelector('atom-panel-container[location="modal"]')
+      modalContainer = workspaceElement.querySelector('atom-panel-container.modal')
       expect(modalContainer.parentNode).toBe workspaceElement

src/atom.coffee

@@ -137,6 +137,9 @@ class Atom extends Model
   # Public: A {ThemeManager} instance
   themes: null
 
+  # Public: A {StyleManager} instance
+  styles: null
+
   # Public: A {DeserializerManager} instance
   deserializers: null
 
@@ -173,11 +176,21 @@ class Atom extends Model
       require('grim').deprecate = ->
 
     window.onerror = =>
-      @openDevTools()
-      @executeJavaScriptInDevTools('InspectorFrontendAPI.showConsole()')
       @lastUncaughtError = Array::slice.call(arguments)
+      [message, url, line, column, originalError] = @lastUncaughtError
+      eventObject = {message, url, line, column, originalError}
+
+      openDevTools = true
+      eventObject.preventDefault = -> openDevTools = false
+
+      @emitter.emit 'will-throw-error', eventObject
+
+      if openDevTools
+        @openDevTools()
+        @executeJavaScriptInDevTools('InspectorFrontendAPI.showConsole()')
+
       @emit 'uncaught-error', arguments...
-      @emitter.emit 'did-throw-error', arguments...
+      @emitter.emit 'did-throw-error', {message, url, line, column, originalError}
 
     @unsubscribe()
     @setBodyPlatformClass()
@@ -248,10 +261,31 @@ class Atom extends Model
   onDidBeep: (callback) ->
     @emitter.on 'did-beep', callback
 
+  # Extended: Invoke the given callback when there is an unhandled error, but
+  # before the devtools pop open
+  #
+  # * `callback` {Function} to be called whenever there is an unhandled error
+  #   * `event` {Object}
+  #     * `originalError` {Object} the original error object
+  #     * `message` {String} the original error object
+  #     * `url` {String} Url to the file where the error originated.
+  #     * `line` {Number}
+  #     * `column` {Number}
+  #     * `preventDefault` {Function} call this to avoid popping up the dev tools.
+  #
+  # Returns a {Disposable} on which `.dispose()` can be called to unsubscribe.
+  onWillThrowError: (callback) ->
+    @emitter.on 'will-throw-error', callback
+
   # Extended: Invoke the given callback whenever there is an unhandled error.
   #
   # * `callback` {Function} to be called whenever there is an unhandled error
-  #   * `errorMessage` {String}
+  #   * `event` {Object}
+  #     * `originalError` {Object} the original error object
+  #     * `message` {String} the original error object
+  #     * `url` {String} Url to the file where the error originated.
+  #     * `line` {Number}
+  #     * `column` {Number}
   #
   # Returns a {Disposable} on which `.dispose()` can be called to unsubscribe.
   onDidThrowError: (callback) ->
@@ -503,7 +537,11 @@ class Atom extends Model
     @packages.activate()
     @keymaps.loadUserKeymap()
     @requireUserInitScript() unless safeMode
+
     @menu.update()
+    @subscribe @config.onDidChange 'core.autoHideMenuBar', ({newValue}) =>
+      @setAutoHideMenuBar(newValue)
+    @setAutoHideMenuBar(true) if @config.get('core.autoHideMenuBar')
 
     maximize = dimensions?.maximized and process.platform isnt 'darwin'
     @displayWindow({maximize})
@@ -723,3 +761,7 @@ class Atom extends Model
 
   setBodyPlatformClass: ->
     document.body.classList.add("platform-#{process.platform}")
+
+  setAutoHideMenuBar: (autoHide) ->
+    ipc.send('call-window-method', 'setAutoHideMenuBar', autoHide)
+    ipc.send('call-window-method', 'setMenuBarVisibility', !autoHide)

src/browser/atom-application.coffee

@@ -238,6 +238,11 @@ class AtomApplication
       win = BrowserWindow.fromWebContents(event.sender)
       win[method](args...)
 
+    clipboard = null
+    ipc.on 'write-text-to-selection-clipboard', (event, selectedText) ->
+      clipboard ?= require 'clipboard'
+      clipboard.writeText(selectedText, 'selection')
+
   # Public: Executes the given command.
   #
   # If it isn't handled globally, delegate to the currently focused window.

src/browser/auto-update-manager.coffee

@@ -15,15 +15,20 @@ class AutoUpdateManager
 
   constructor: (@version) ->
     @state = IdleState
-    @feedUrl = "https://atom.io/api/updates?version=#{@version}"
+    if process.platform is 'win32'
+      # Squirrel for Windows can't handle query params
+      # https://github.com/Squirrel/Squirrel.Windows/issues/132
+      @feedUrl = 'https://atom.io/api/updates'
+    else
+      @feedUrl = "https://atom.io/api/updates?version=#{@version}"
 
     process.nextTick => @setupAutoUpdater()
 
   setupAutoUpdater: ->
-    autoUpdater = require 'auto-updater'
-
     if process.platform is 'win32'
-      autoUpdater.checkForUpdates = => @checkForUpdatesShim()
+      autoUpdater = require './auto-updater-win32'
+    else
+      autoUpdater = require 'auto-updater'
 
     autoUpdater.setFeedUrl @feedUrl
 
@@ -48,24 +53,6 @@ class AutoUpdateManager
     unless /\w{7}/.test(@version)
       @check(hidePopups: true)
 
-  # Windows doesn't have an auto-updater, so use this method to shim the events.
-  checkForUpdatesShim: ->
-    autoUpdater.emit 'checking-for-update'
-
-    https = require 'https'
-    request = https.get @feedUrl, (response) ->
-      if response.statusCode == 200
-        body = ""
-        response.on 'data', (chunk) -> body += chunk
-        response.on 'end', ->
-          {notes, name} = JSON.parse(body)
-          autoUpdater.emit 'update-downloaded', null, notes, name
-      else
-        autoUpdater.emit 'update-not-available'
-
-    request.on 'error', (error) ->
-      autoUpdater.emit 'error', null, error.message
-
   emitUpdateAvailableEvent: (windows...) ->
     return unless @releaseVersion? and @releaseNotes
     for atomWindow in windows

src/browser/auto-updater-win32.coffee

@@ -0,0 +1,69 @@
+{EventEmitter} = require 'events'
+_ = require 'underscore-plus'
+shellAutoUpdater = require 'auto-updater'
+SquirrelUpdate = require './squirrel-update'
+
+class AutoUpdater
+  _.extend @prototype, EventEmitter.prototype
+
+  setFeedUrl: (@updateUrl) ->
+
+  quitAndInstall: ->
+    unless SquirrelUpdate.existsSync()
+      shellAutoUpdater.quitAndInstall()
+      return
+
+    @installUpdate (error) ->
+      return if error?
+
+      SquirrelUpdate.spawn ['--processStart', 'atom.exe'], ->
+        shellAutoUpdater.quitAndInstall()
+
+  downloadUpdate: (callback) ->
+    SquirrelUpdate.spawn ['--download', @updateUrl], (error, stdout) ->
+      return callback(error) if error?
+
+      try
+        # Last line of output is the JSON details about the releases
+        json = stdout.trim().split('\n').pop()
+        update = JSON.parse(json)?.releasesToApply?.pop?()
+      catch error
+        error.stdout = stdout
+        return callback(error)
+
+      callback(null, update)
+
+  installUpdate: (callback) ->
+    SquirrelUpdate.spawn(['--update', @updateUrl], callback)
+
+  checkForUpdates: ->
+    throw new Error('Update URL is not set') unless @updateUrl
+
+    @emit 'checking-for-update'
+
+    unless SquirrelUpdate.existsSync()
+      @emit 'update-not-available'
+      return
+
+    @downloadUpdate (error, update) =>
+      if error?
+        console.log "Failed to download: #{error.message} - #{error.code} - #{error.stdout}"
+        @emit 'update-not-available'
+        return
+
+      unless update?
+        @emit 'update-not-available'
+        return
+
+      @installUpdate (error) =>
+        if error?
+          console.log "Failed to update: #{error.message} - #{error.code} - #{error.stdout}"
+          @emit 'update-not-available'
+          return
+
+        console.log "Updated to #{update.version}"
+
+        @emit 'update-available'
+        @emit 'update-downloaded', {}, update.releaseNotes, update.version, new Date(), 'https://atom.io', => @quitAndInstall()
+
+module.exports = new AutoUpdater()

src/browser/main.coffee

@@ -14,6 +14,10 @@ process.on 'uncaughtException', (error={}) ->
   nslog(error.stack) if error.stack?
 
 start = ->
+  if process.platform is 'win32'
+    SquirrelUpdate = require './squirrel-update'
+    return if SquirrelUpdate.handleStartupEvent()
+
   args = parseCommandLine()
 
   addPathToOpen = (event, pathToOpen) ->

src/browser/squirrel-update.coffee

@@ -0,0 +1,198 @@
+app = require 'app'
+ChildProcess = require 'child_process'
+fs = require 'fs-plus'
+path = require 'path'
+
+rootAtomFolder = path.resolve(process.execPath, '..', '..')
+binFolder = path.join(rootAtomFolder, 'bin')
+updateDotExe = path.join(rootAtomFolder, 'Update.exe')
+exeName = path.basename(process.execPath)
+
+if process.env.SystemRoot
+  system32Path = path.join(process.env.SystemRoot, 'System32')
+  regPath = path.join(system32Path, 'reg.exe')
+  setxPath = path.join(system32Path, 'setx.exe')
+else
+  regPath = 'reg.exe'
+  setxPath = 'setx.exe'
+
+# Registry keys used for context menu
+fileKeyPath = 'HKCU\\Software\\Classes\\*\\shell\\Atom'
+directoryKeyPath = 'HKCU\\Software\\Classes\\directory\\shell\\Atom'
+backgroundKeyPath = 'HKCU\\Software\\Classes\\directory\\background\\shell\\Atom'
+environmentKeyPath = 'HKCU\\Environment'
+
+# Spawn a command and invoke the callback when it completes with an error
+# and the output from standard out.
+spawn = (command, args, callback) ->
+  spawnedProcess = ChildProcess.spawn(command, args)
+
+  stdout = ''
+  spawnedProcess.stdout.on 'data', (data) -> stdout += data
+
+  error = null
+  spawnedProcess.on 'error', (processError) -> error ?= processError
+  spawnedProcess.on 'close', (code, signal) ->
+    error ?= new Error("Command failed: #{signal ? code}") if code isnt 0
+    error?.code ?= code
+    error?.stdout ?= stdout
+    callback(error, stdout)
+
+# Spawn reg.exe and callback when it completes
+spawnReg = (args, callback) ->
+  spawn(regPath, args, callback)
+
+# Spawn setx.exe and callback when it completes
+spawnSetx = (args, callback) ->
+  spawn(setxPath, args, callback)
+
+# Spawn the Update.exe with the given arguments and invoke the callback when
+# the command completes.
+spawnUpdate = (args, callback) ->
+  spawn(updateDotExe, args, callback)
+
+# Install the Open with Atom explorer context menu items via the registry.
+installContextMenu = (callback) ->
+  addToRegistry = (args, callback) ->
+    args.unshift('add')
+    args.push('/f')
+    spawnReg(args, callback)
+
+  installMenu = (keyPath, arg, callback) ->
+    args = [keyPath, '/ve', '/d', 'Open with Atom']
+    addToRegistry args, ->
+      args = [keyPath, '/v', 'Icon', '/d', process.execPath]
+      addToRegistry args, ->
+        args = ["#{keyPath}\\command", '/ve', '/d', "#{process.execPath} \"#{arg}\""]
+        addToRegistry(args, callback)
+
+  installMenu fileKeyPath, '%1', ->
+    installMenu directoryKeyPath, '%1', ->
+      installMenu(backgroundKeyPath, '%V', callback)
+
+# Get the user's PATH environment variable registry value.
+getPath = (callback) ->
+  spawnReg ['query', environmentKeyPath, '/v', 'Path'], (error, stdout) ->
+    if error?
+      if error.code is 1
+        # The query failed so the Path does not exist yet in the registry
+        return callback(null, '')
+      else
+        return callback(error)
+
+    # Registry query output is in the form:
+    #
+    # HKEY_CURRENT_USER\Environment
+    #     Path    REG_SZ    C:\a\folder\on\the\path;C\another\folder
+    #
+
+    lines = stdout.split(/[\r\n]+/).filter (line) -> line
+    segments = lines[lines.length - 1]?.split('    ')
+    if segments[1] is 'Path' and segments.length >= 3
+      pathEnv = segments?[3..].join('    ')
+      callback(null, pathEnv)
+    else
+      callback(new Error('Registry query for PATH failed'))
+
+# Uninstall the Open with Atom explorer context menu items via the registry.
+uninstallContextMenu = (callback) ->
+  deleteFromRegistry = (keyPath, callback) ->
+    spawnReg(['delete', keyPath, '/f'], callback)
+
+  deleteFromRegistry fileKeyPath, ->
+    deleteFromRegistry directoryKeyPath, ->
+      deleteFromRegistry(backgroundKeyPath, callback)
+
+# Add atom and apm to the PATH
+#
+# This is done by adding .cmd shims to the root bin folder in the Atom
+# install directory that point to the newly installed versions inside
+# the versioned app directories.
+addCommandsToPath = (callback) ->
+  installCommands = (callback) ->
+    atomCommandPath = path.join(binFolder, 'atom.cmd')
+    relativeExePath = path.relative(binFolder, process.execPath)
+    atomCommand = """
+      @echo off
+      "%~dp0\\#{relativeExePath}" %*
+    """
+
+    apmCommandPath = path.join(binFolder, 'apm.cmd')
+    relativeApmPath = path.relative(binFolder, path.join(process.resourcesPath, 'app', 'apm', 'node_modules', 'atom-package-manager', 'bin', 'apm.cmd'))
+    apmCommand = """
+      @echo off
+      "%~dp0\\#{relativeApmPath}" %*
+    """
+
+    fs.writeFile atomCommandPath, atomCommand, ->
+      fs.writeFile apmCommandPath, apmCommand, ->
+        callback()
+
+  addBinToPath = (pathSegments, callback) ->
+    pathSegments.push(binFolder)
+    newPathEnv = pathSegments.join(';')
+    spawnSetx(['Path', newPathEnv], callback)
+
+  installCommands (error) ->
+    return callback(error) if error?
+
+    getPath (error, pathEnv) ->
+      return callback(error) if error?
+
+      pathSegments = pathEnv.split(/;+/).filter (pathSegment) -> pathSegment
+      if pathSegments.indexOf(binFolder) is -1
+        addBinToPath(pathSegments, callback)
+      else
+        callback()
+
+# Remove atom and apm from the PATH
+removeCommandsFromPath = (callback) ->
+  getPath (error, pathEnv) ->
+    return callback(error) if error?
+
+    pathSegments = pathEnv.split(/;+/).filter (pathSegment) ->
+      pathSegment and pathSegment isnt binFolder
+    newPathEnv = pathSegments.join(';')
+
+    if pathEnv isnt newPathEnv
+      spawnSetx(['Path', newPathEnv], callback)
+    else
+      callback()
+
+
+# Create a desktop and start menu shortcut by using the command line API
+# provided by Squirrel's Update.exe
+createShortcut = (callback) ->
+  spawnUpdate(['--createShortcut', exeName], callback)
+
+# Remove the desktop and start menu shortcuts by using the command line API
+# provided by Squirrel's Update.exe
+removeShortcut = (callback) ->
+  spawnUpdate(['--removeShortcut', exeName], callback)
+
+exports.spawn = spawnUpdate
+
+# Is the Update.exe installed with Atom?
+exports.existsSync = ->
+  fs.existsSync(updateDotExe)
+
+# Handle squirrel events denoted by --squirrel-* command line arguments.
+exports.handleStartupEvent = ->
+  switch process.argv[1]
+    when '--squirrel-install', '--squirrel-updated'
+      createShortcut ->
+        installContextMenu ->
+          addCommandsToPath ->
+            app.quit()
+      true
+    when '--squirrel-uninstall'
+      removeShortcut ->
+        uninstallContextMenu ->
+          removeCommandsFromPath ->
+            app.quit()
+      true
+    when '--squirrel-obsolete'
+      app.quit()
+      true
+    else
+      false

src/command-registry.coffee

@@ -35,9 +35,7 @@ SpecificityCache = {}
 # ```coffee
 # atom.commands.add 'atom-text-editor',
 #   'user:insert-date': (event) ->
-#     editor = $(this).view().getModel()
-#     # soon the above above line will be:
-#     # editor = @getModel()
+#     editor = @getModel()
 #     editor.insertText(new Date().toLocaleString())
 # ```
 module.exports =
@@ -130,25 +128,26 @@ class CommandRegistry
   #  * `jQuery` Present if the command was registered with the legacy
   #    `$::command` method.
   findCommands: ({target}) ->
+    commandNames = new Set
     commands = []
     currentTarget = target
     loop
+      for name, listeners of @inlineListenersByCommandName
+        if listeners.has(currentTarget) and not commandNames.has(name)
+          commandNames.add(name)
+          commands.push({name, displayName: _.humanizeEventName(name)})
+
       for commandName, listeners of @selectorBasedListenersByCommandName
         for listener in listeners
           if currentTarget.webkitMatchesSelector?(listener.selector)
-            commands.push
-              name: commandName
-              displayName: _.humanizeEventName(commandName)
+            unless commandNames.has(commandName)
+              commandNames.add(commandName)
+              commands.push
+                name: commandName
+                displayName: _.humanizeEventName(commandName)
 
-      break if currentTarget is @rootNode
-      currentTarget = currentTarget.parentNode
-      break unless currentTarget?
-
-    for name, displayName of $(target).events() when displayName
-      commands.push({name, displayName, jQuery: true})
-
-    for name, displayName of $(window).events() when displayName
-      commands.push({name, displayName, jQuery: true})
+      break if currentTarget is window
+      currentTarget = currentTarget.parentNode ? window
 
     commands
 

src/config-schema.coffee

@@ -35,6 +35,47 @@ module.exports =
       destroyEmptyPanes:
         type: 'boolean'
         default: true
+      fileEncoding:
+        description: 'Default character set encoding to use when reading and writing files.'
+        type: 'string'
+        default: 'utf8'
+        enum: [
+          'cp437',
+          'eucjp',
+          'euckr',
+          'gbk',
+          'iso88591',
+          'iso885910',
+          'iso885913',
+          'iso885914',
+          'iso885915',
+          'iso885916',
+          'iso88592',
+          'iso88593',
+          'iso88594',
+          'iso88595',
+          'iso88596',
+          'iso88597',
+          'iso88597',
+          'iso88598',
+          'koi8r',
+          'koi8u',
+          'macroman',
+          'shiftjis',
+          'utf16be',
+          'utf16le',
+          'utf8',
+          'windows1250',
+          'windows1251',
+          'windows1252',
+          'windows1253',
+          'windows1254',
+          'windows1255',
+          'windows1256',
+          'windows1257',
+          'windows1258',
+          'windows866'
+        ]
 
   editor:
     type: 'object'
@@ -74,6 +115,10 @@ module.exports =
       autoIndent:
         type: 'boolean'
         default: true
+        description: 'Automatically indent the cursor when inserting a newline'
+      autoIndentOnPaste:
+        type: 'boolean'
+        default: true
       normalizeIndentOnPaste:
         type: 'boolean'
         default: true
@@ -142,3 +187,9 @@ module.exports =
         type: 'boolean'
         default: process.platform isnt 'darwin'
         description: 'Increase/decrease the editor font size when pressing the Ctrl key and scrolling the mouse up/down.'
+
+if process.platform in ['win32', 'linux']
+  module.exports.core.properties.autoHideMenuBar =
+    type: 'boolean'
+    default: false
+    description: 'Automatically hide the menu bar and toggle it by pressing Alt. This is only supported on Windows & Linux.'

src/config.coffee

@@ -536,11 +536,13 @@ class Config
 
     if scopeSelector?
       settings = @scopedSettingsStore.propertiesForSourceAndSelector('user-config', scopeSelector)
-      @scopedSettingsStore.removePropertiesForSourceAndSelector('user-config', scopeSelector)
-      _.setValueForKeyPath(settings, keyPath, undefined)
-      @addScopedSettings('user-config', scopeSelector, settings, @usersScopedSettingPriority)
-      @save() unless @configFileHasErrors
-      @getDefault(scopeSelector, keyPath)
+      if _.valueForKeyPath(settings, keyPath)?
+        @scopedSettingsStore.removePropertiesForSourceAndSelector('user-config', scopeSelector)
+        _.setValueForKeyPath(settings, keyPath, undefined)
+        settings = withoutEmptyObjects(settings)
+        @addScopedSettings('user-config', scopeSelector, settings, @usersScopedSettingPriority) if settings?
+        @save() unless @configFileHasErrors
+        @getDefault(scopeSelector, keyPath)
     else
       @set(keyPath, _.valueForKeyPath(@defaultSettings, keyPath))
       @get(keyPath)
@@ -1046,3 +1048,15 @@ splitKeyPath = (keyPath) ->
       startIndex = i + 1
   keyPathArray.push keyPath.substr(startIndex, keyPath.length)
   keyPathArray
+
+withoutEmptyObjects = (object) ->
+  resultObject = undefined
+  if isPlainObject(object)
+    for key, value of object
+      newValue = withoutEmptyObjects(value)
+      if newValue?
+        resultObject ?= {}
+        resultObject[key] = newValue
+  else
+    resultObject = object
+  resultObject

src/context-menu-manager.coffee

@@ -76,8 +76,8 @@ class ContextMenuManager
   #     * `event` The click event that deployed the context menu.
   add: (itemsBySelector) ->
     # Detect deprecated file path as first argument
-    unless typeof itemsBySelector is 'object'
-      Grim.deprecate("ContextMenuManage::add has changed to take a single object as its argument. Please consult the documentation.")
+    if itemsBySelector? and typeof itemsBySelector isnt 'object'
+      Grim.deprecate("ContextMenuManager::add has changed to take a single object as its argument. Please consult the documentation.")
       itemsBySelector = arguments[1]
       devMode = arguments[2]?.devMode
 

src/cursor.coffee

@@ -17,7 +17,7 @@ class Cursor extends Model
   visible: true
   needsAutoscroll: null
 
-  # Instantiated by an {TextEditor}
+  # Instantiated by a {TextEditor}
   constructor: ({@editor, @marker, id}) ->
     @emitter = new Emitter
 
@@ -171,6 +171,10 @@ class Cursor extends Model
   Section: Cursor Position Details
   ###
 
+  # Public: Returns the underlying {Marker} for the cursor.
+  # Useful with overlay {Decoration}s.
+  getMarker: -> @marker
+
   # Public: Identifies if the cursor is surrounded by whitespace.
   #
   # "Surrounded" here means that the character directly before and after the
@@ -392,7 +396,7 @@ class Cursor extends Model
 
   # Public: Moves the cursor to the next word boundary.
   moveToNextWordBoundary: ->
-    if position = @getMoveNextWordBoundaryBufferPosition()
+    if position = @getNextWordBoundaryBufferPosition()
       @setBufferPosition(position)
 
   # Public: Moves the cursor to the beginning of the buffer line, skipping all
@@ -420,6 +424,61 @@ class Cursor extends Model
   Section: Local Positions and Ranges
   ###
 
+  # Public: Returns buffer position of previous word boundary. It might be on
+  # the current word, or the previous word.
+  #
+  # * `options` (optional) {Object} with the following keys:
+  #   * `wordRegex` A {RegExp} indicating what constitutes a "word"
+  #      (default: {::wordRegExp})
+  getPreviousWordBoundaryBufferPosition: (options = {}) ->
+    currentBufferPosition = @getBufferPosition()
+    previousNonBlankRow = @editor.buffer.previousNonBlankRow(currentBufferPosition.row)
+    scanRange = [[previousNonBlankRow, 0], currentBufferPosition]
+
+    beginningOfWordPosition = null
+    @editor.backwardsScanInBufferRange (options.wordRegex ? @wordRegExp()), scanRange, ({range, stop}) ->
+      if range.start.row < currentBufferPosition.row and currentBufferPosition.column > 0
+        # force it to stop at the beginning of each line
+        beginningOfWordPosition = new Point(currentBufferPosition.row, 0)
+      else if range.end.isLessThan(currentBufferPosition)
+        beginningOfWordPosition = range.end
+      else
+        beginningOfWordPosition = range.start
+
+      if not beginningOfWordPosition?.isEqual(currentBufferPosition)
+        stop()
+
+    beginningOfWordPosition or currentBufferPosition
+
+  # Public: Returns buffer position of the next word boundary. It might be on
+  # the current word, or the previous word.
+  #
+  # * `options` (optional) {Object} with the following keys:
+  #   * `wordRegex` A {RegExp} indicating what constitutes a "word"
+  #      (default: {::wordRegExp})
+  getNextWordBoundaryBufferPosition: (options = {}) ->
+    currentBufferPosition = @getBufferPosition()
+    scanRange = [currentBufferPosition, @editor.getEofBufferPosition()]
+
+    endOfWordPosition = null
+    @editor.scanInBufferRange (options.wordRegex ? @wordRegExp()), scanRange, ({range, stop}) ->
+      if range.start.row > currentBufferPosition.row
+        # force it to stop at the beginning of each line
+        endOfWordPosition = new Point(range.start.row, 0)
+      else if range.start.isGreaterThan(currentBufferPosition)
+        endOfWordPosition = range.start
+      else
+        endOfWordPosition = range.end
+
+      if not endOfWordPosition?.isEqual(currentBufferPosition)
+        stop()
+
+    endOfWordPosition or currentBufferPosition
+
+  getMoveNextWordBoundaryBufferPosition: (options) ->
+    deprecate 'Use `::getNextWordBoundaryBufferPosition(options)` instead'
+    @getNextWordBoundaryBufferPosition(options)
+
   # Public: Retrieves the buffer position of where the current word starts.
   #
   # * `options` (optional) An {Object} with the following keys:
@@ -452,49 +511,6 @@ class Cursor extends Model
     else
       currentBufferPosition
 
-  # Public: Retrieves buffer position of previous word boundary. It might be on
-  # the current word, or the previous word.
-  getPreviousWordBoundaryBufferPosition: (options = {}) ->
-    currentBufferPosition = @getBufferPosition()
-    previousNonBlankRow = @editor.buffer.previousNonBlankRow(currentBufferPosition.row)
-    scanRange = [[previousNonBlankRow, 0], currentBufferPosition]
-
-    beginningOfWordPosition = null
-    @editor.backwardsScanInBufferRange (options.wordRegex ? @wordRegExp()), scanRange, ({range, stop}) ->
-      if range.start.row < currentBufferPosition.row and currentBufferPosition.column > 0
-        # force it to stop at the beginning of each line
-        beginningOfWordPosition = new Point(currentBufferPosition.row, 0)
-      else if range.end.isLessThan(currentBufferPosition)
-        beginningOfWordPosition = range.end
-      else
-        beginningOfWordPosition = range.start
-
-      if not beginningOfWordPosition?.isEqual(currentBufferPosition)
-        stop()
-
-    beginningOfWordPosition or currentBufferPosition
-
-  # Public: Retrieves buffer position of the next word boundary. It might be on
-  # the current word, or the previous word.
-  getMoveNextWordBoundaryBufferPosition: (options = {}) ->
-    currentBufferPosition = @getBufferPosition()
-    scanRange = [currentBufferPosition, @editor.getEofBufferPosition()]
-
-    endOfWordPosition = null
-    @editor.scanInBufferRange (options.wordRegex ? @wordRegExp()), scanRange, ({range, stop}) ->
-      if range.start.row > currentBufferPosition.row
-        # force it to stop at the beginning of each line
-        endOfWordPosition = new Point(range.start.row, 0)
-      else if range.start.isGreaterThan(currentBufferPosition)
-        endOfWordPosition = range.start
-      else
-        endOfWordPosition = range.end
-
-      if not endOfWordPosition?.isEqual(currentBufferPosition)
-        stop()
-
-    endOfWordPosition or currentBufferPosition
-
   # Public: Retrieves the buffer position of where the current word ends.
   #
   # * `options` (optional) {Object} with the following keys:

src/highlight-component.coffee

@@ -14,9 +14,9 @@ HighlightComponent = React.createClass
 
     div {className},
       if endPixelPosition.top is startPixelPosition.top
-        @renderSingleLineRegions()
+        @renderSingleLineRegions(decoration.deprecatedRegionClass)
       else
-        @renderMultiLineRegions()
+        @renderMultiLineRegions(decoration.deprecatedRegionClass)
 
   componentDidMount: ->
     {editor, decoration} = @props
@@ -41,25 +41,32 @@ HighlightComponent = React.createClass
       removeFlashClass = -> node.classList.remove(flash.class)
       @flashTimeoutId = setTimeout(removeFlashClass, flash.duration)
 
-  renderSingleLineRegions: ->
+  renderSingleLineRegions: (regionClass) ->
     {startPixelPosition, endPixelPosition, lineHeightInPixels} = @props
 
+    className = 'region'
+    className += " #{regionClass}" if regionClass?
+
     [
-      div className: 'region', key: 0, style:
+      div className: className, key: 0, style:
         top: startPixelPosition.top
         height: lineHeightInPixels
         left: startPixelPosition.left
         width: endPixelPosition.left - startPixelPosition.left
     ]
 
-  renderMultiLineRegions: ->
+  renderMultiLineRegions: (regionClass) ->
     {startPixelPosition, endPixelPosition, lineHeightInPixels} = @props
+
+    className = 'region'
+    className += " #{regionClass}" if regionClass?
+
     regions = []
     index = 0
 
     # First row, extending from selection start to the right side of screen
     regions.push(
-      div className: 'region', key: index++, style:
+      div className: className, key: index++, style:
         top: startPixelPosition.top
         left: startPixelPosition.left
         height: lineHeightInPixels
@@ -69,7 +76,7 @@ HighlightComponent = React.createClass
     # Middle rows, extending from left side to right side of screen
     if endPixelPosition.top - startPixelPosition.top > lineHeightInPixels
       regions.push(
-        div className: 'region', key: index++, style:
+        div className: className, key: index++, style:
           top: startPixelPosition.top + lineHeightInPixels
           height: endPixelPosition.top - startPixelPosition.top - lineHeightInPixels
           left: 0
@@ -78,7 +85,7 @@ HighlightComponent = React.createClass
 
     # Last row, extending from left side of screen to selection end
     regions.push(
-      div className: 'region', key: index, style:
+      div className: className, key: index, style:
         top: endPixelPosition.top
         height: lineHeightInPixels
         left: 0
@@ -88,4 +95,4 @@ HighlightComponent = React.createClass
     regions
 
   shouldComponentUpdate: (newProps) ->
-    not isEqualForProperties(newProps, @props, 'startPixelPosition', 'endPixelPosition', 'lineHeightInPixels')
+    not isEqualForProperties(newProps, @props, 'startPixelPosition', 'endPixelPosition', 'lineHeightInPixels', 'decoration')

src/highlights-component.coffee

@@ -17,7 +17,7 @@ HighlightsComponent = React.createClass
     highlightComponents = []
     for markerId, {startPixelPosition, endPixelPosition, decorations} of highlightDecorations
       for decoration in decorations
-        highlightComponents.push(HighlightComponent({editor, key: "#{markerId}-#{decoration.class}", startPixelPosition, endPixelPosition, decoration, lineHeightInPixels}))
+        highlightComponents.push(HighlightComponent({editor, key: "#{markerId}-#{decoration.id}", startPixelPosition, endPixelPosition, decoration, lineHeightInPixels}))
 
     highlightComponents
 

src/language-mode.coffee

@@ -244,14 +244,18 @@ class LanguageMode
   # bufferRow - A {Number} indicating the buffer row
   #
   # Returns a {Number}.
-  suggestedIndentForBufferRow: (bufferRow) ->
+  suggestedIndentForBufferRow: (bufferRow, options) ->
     currentIndentLevel = @editor.indentationForBufferRow(bufferRow)
     scopeDescriptor = @editor.scopeDescriptorForBufferPosition([bufferRow, 0])
     return currentIndentLevel unless increaseIndentRegex = @increaseIndentRegexForScopeDescriptor(scopeDescriptor)
 
     currentLine = @buffer.lineForRow(bufferRow)
-    precedingRow = if bufferRow > 0 then bufferRow - 1 else null
-    return currentIndentLevel unless precedingRow?
+    if options?.skipBlankLines ? true
+      precedingRow = @buffer.previousNonBlankRow(bufferRow)
+      return 0 unless precedingRow?
+    else
+      precedingRow = bufferRow - 1
+      return currentIndentLevel if precedingRow < 0
 
     precedingLine = @buffer.lineForRow(precedingRow)
     desiredIndentLevel = @editor.indentationForBufferRow(precedingRow)
@@ -285,7 +289,7 @@ class LanguageMode
   # bufferRow - The row {Number}.
   # options - An options {Object} to pass through to {TextEditor::setIndentationForBufferRow}.
   autoIndentBufferRow: (bufferRow, options) ->
-    indentLevel = @suggestedIndentForBufferRow(bufferRow)
+    indentLevel = @suggestedIndentForBufferRow(bufferRow, options)
     @editor.setIndentationForBufferRow(bufferRow, indentLevel, options)
 
   # Given a buffer row, this decreases the indentation.

src/lines-component.coffee

@@ -7,6 +7,7 @@ React = require 'react-atom-fork'
 Decoration = require './decoration'
 CursorsComponent = require './cursors-component'
 HighlightsComponent = require './highlights-component'
+OverlayManager = require './overlay-manager'
 
 DummyLineNode = $$(-> @div className: 'line', style: 'position: absolute; visibility: hidden;', => @span 'x')[0]
 AcceptFilter = {acceptNode: -> NodeFilter.FILTER_ACCEPT}
@@ -20,7 +21,7 @@ LinesComponent = React.createClass
     {performedInitialMeasurement, cursorBlinkPeriod, cursorBlinkResumeDelay} = @props
 
     if performedInitialMeasurement
-      {editor, highlightDecorations, scrollHeight, scrollWidth, placeholderText, backgroundColor} = @props
+      {editor, overlayDecorations, highlightDecorations, scrollHeight, scrollWidth, placeholderText, backgroundColor} = @props
       {lineHeightInPixels, defaultCharWidth, scrollViewHeight, scopedCharacterWidthsChangeCount} = @props
       {scrollTop, scrollLeft, cursorPixelRects, mini} = @props
       style =
@@ -58,15 +59,22 @@ LinesComponent = React.createClass
     @renderedDecorationsByLineId = {}
 
   componentDidMount: ->
-    if atom.config.get('editor.useShadowDOM')
+    if @props.useShadowDOM
       insertionPoint = document.createElement('content')
       insertionPoint.setAttribute('select', '.overlayer')
       @getDOMNode().appendChild(insertionPoint)
 
+      insertionPoint = document.createElement('content')
+      insertionPoint.setAttribute('select', 'atom-overlay')
+      @overlayManager = new OverlayManager(@props.hostElement)
+      @getDOMNode().appendChild(insertionPoint)
+    else
+      @overlayManager = new OverlayManager(@getDOMNode())
+
   shouldComponentUpdate: (newProps) ->
     return true unless isEqualForProperties(newProps, @props,
       'renderedRowRange', 'lineDecorations', 'highlightDecorations', 'lineHeightInPixels', 'defaultCharWidth',
-      'scrollTop', 'scrollLeft', 'showIndentGuide', 'scrollingVertically', 'visible',
+      'overlayDecorations', 'scrollTop', 'scrollLeft', 'showIndentGuide', 'scrollingVertically', 'visible',
       'scrollViewHeight', 'mouseWheelScreenRow', 'scopedCharacterWidthsChangeCount', 'lineWidth', 'useHardwareAcceleration',
       'placeholderText', 'performedInitialMeasurement', 'backgroundColor', 'cursorPixelRects'
     )
@@ -92,6 +100,8 @@ LinesComponent = React.createClass
     @updateLines(@props.lineWidth isnt prevProps.lineWidth)
     @measureCharactersInNewLines() if visible and not scrollingVertically
 
+    @overlayManager?.render(@props)
+
   clearScreenRowCaches: ->
     @screenRowsByLineId = {}
     @lineIdsByScreenRow = {}

src/menu-helpers.coffee

@@ -44,7 +44,7 @@ normalizeLabel = (label) ->
     label.replace(/\&/g, '')
 
 cloneMenuItem = (item) ->
-  item = _.pick(item, 'type', 'label', 'enabled', 'command', 'submenu', 'commandDetail')
+  item = _.pick(item, 'type', 'label', 'enabled', 'visible', 'command', 'submenu', 'commandDetail')
   if item.submenu?
     item.submenu = item.submenu.map (submenuItem) -> cloneMenuItem(submenuItem)
   item

src/overlay-manager.coffee

@@ -0,0 +1,43 @@
+module.exports =
+class OverlayManager
+  constructor: (@container) ->
+    @overlays = {}
+
+  render: (props) ->
+    {editor, overlayDecorations, lineHeightInPixels} = props
+
+    existingDecorations = null
+    for markerId, {isMarkerReversed, headPixelPosition, decorations} of overlayDecorations
+      for decoration in decorations
+        @renderOverlay(editor, decoration, headPixelPosition, lineHeightInPixels)
+
+        existingDecorations ?= {}
+        existingDecorations[decoration.id] = true
+
+    for id, overlay of @overlays
+      unless existingDecorations? and id of existingDecorations
+        @container.removeChild(overlay)
+        delete @overlays[id]
+
+    return
+
+  renderOverlay: (editor, decoration, pixelPosition, lineHeightInPixels) ->
+    item = atom.views.getView(decoration.item)
+    unless overlay = @overlays[decoration.id]
+      overlay = @overlays[decoration.id] = document.createElement('atom-overlay')
+      overlay.appendChild(item)
+      @container.appendChild(overlay)
+
+    itemWidth = item.offsetWidth
+    itemHeight = item.offsetHeight
+
+    left = pixelPosition.left
+    if left + itemWidth - editor.getScrollLeft() > editor.getWidth() and left - itemWidth >= editor.getScrollLeft()
+      left -= itemWidth
+
+    top = pixelPosition.top + lineHeightInPixels
+    if top + itemHeight - editor.getScrollTop() > editor.getHeight() and top - itemHeight - lineHeightInPixels >= editor.getScrollTop()
+      top -= itemHeight + lineHeightInPixels
+
+    overlay.style.top = top + 'px'
+    overlay.style.left = left + 'px'

src/package.coffee

@@ -176,7 +176,6 @@ class Package
   activateStylesheets: ->
     return if @stylesheetsActivated
 
-
     group = @getStylesheetType()
     @stylesheetDisposables = new CompositeDisposable
     for [sourcePath, source] in @stylesheets
@@ -184,6 +183,8 @@ class Package
         context = match[1]
       else if @metadata.theme is 'syntax'
         context = 'atom-text-editor'
+      else
+        context = undefined
 
       @stylesheetDisposables.add(atom.styles.addStyleSheet(source, {sourcePath, group, context}))
     @stylesheetsActivated = true
@@ -191,8 +192,8 @@ class Package
   activateResources: ->
     @activationDisposables = new CompositeDisposable
     @activationDisposables.add(atom.keymaps.add(keymapPath, map)) for [keymapPath, map] in @keymaps
-    @activationDisposables.add(atom.contextMenu.add(map['context-menu'])) for [menuPath, map] in @menus
-    @activationDisposables.add(atom.menu.add(map.menu)) for [menuPath, map] in @menus when map.menu
+    @activationDisposables.add(atom.contextMenu.add(map['context-menu'])) for [menuPath, map] in @menus when map['context-menu']?
+    @activationDisposables.add(atom.menu.add(map['menu'])) for [menuPath, map] in @menus when map['menu']?
 
     unless @grammarsActivated
       grammar.activate() for grammar in @grammars

src/pane-container.coffee

@@ -40,6 +40,8 @@ class PaneContainer extends Model
     @registerViewProviders()
 
     @setRoot(params?.root ? new Pane)
+    @setActivePane(@getPanes()[0]) unless @getActivePane()
+
     @destroyEmptyPanes() if params?.destroyEmptyPanes
 
     @monitorActivePaneItem()
@@ -137,6 +139,9 @@ class PaneContainer extends Model
 
   setActivePane: (activePane) ->
     if activePane isnt @activePane
+      unless activePane in @getPanes()
+        throw new Error("Setting active pane that is not present in pane container")
+
       @activePane = activePane
       @emitter.emit 'did-change-active-pane', @activePane
     @activePane
@@ -147,6 +152,9 @@ class PaneContainer extends Model
   paneForUri: (uri) ->
     find @getPanes(), (pane) -> pane.itemForUri(uri)?
 
+  paneForItem: (item) ->
+    @getPanes().find (pane) -> item in pane.getItems()
+
   saveAll: ->
     pane.saveItems() for pane in @getPanes()
 

src/pane-element.coffee

@@ -43,32 +43,6 @@ class PaneElement extends HTMLElement
   createSpacePenShim: ->
     @__spacePenView = new PaneView(this)
 
-    addCommands = (handlersByName) =>
-      for name, handler of handlersByName
-        do (handler) =>
-          @__spacePenView.command name, => handler.apply(this, arguments)
-
-    addCommands(
-      'pane:save-items': -> @getModel().saveItems()
-      'pane:show-next-item': -> @getModel().activateNextItem()
-      'pane:show-previous-item': -> @getModel().activatePreviousItem()
-      'pane:show-item-1': -> @getModel().activateItemAtIndex(0)
-      'pane:show-item-2': -> @getModel().activateItemAtIndex(1)
-      'pane:show-item-3': -> @getModel().activateItemAtIndex(2)
-      'pane:show-item-4': -> @getModel().activateItemAtIndex(3)
-      'pane:show-item-5': -> @getModel().activateItemAtIndex(4)
-      'pane:show-item-6': -> @getModel().activateItemAtIndex(5)
-      'pane:show-item-7': -> @getModel().activateItemAtIndex(6)
-      'pane:show-item-8': -> @getModel().activateItemAtIndex(7)
-      'pane:show-item-9': -> @getModel().activateItemAtIndex(8)
-      'pane:split-left': -> @getModel().splitLeft(copyActiveItem: true)
-      'pane:split-right': -> @getModel().splitRight(copyActiveItem: true)
-      'pane:split-up': -> @getModel().splitUp(copyActiveItem: true)
-      'pane:split-down': -> @getModel().splitDown(copyActiveItem: true)
-      'pane:close': -> @getModel().destroy()
-      'pane:close-other-items': -> @getModel().destroyInactiveItems()
-    )
-
   getModel: -> @model
 
   setModel: (@model) ->
@@ -94,16 +68,16 @@ class PaneElement extends HTMLElement
     hasFocus = @hasFocus()
     itemView = @model.getView(item)
 
+    unless @itemViews.contains(itemView)
+      @itemViews.appendChild(itemView)
+      callAttachHooks(itemView)
+
     for child in @itemViews.children
       if child is itemView
         @showItemView(child) if @attached
       else
         @hideItemView(child)
 
-    unless @itemViews.contains(itemView)
-      @itemViews.appendChild(itemView)
-      callAttachHooks(itemView)
-
     itemView.focus() if hasFocus
 
   showItemView: (itemView) ->
@@ -132,4 +106,26 @@ class PaneElement extends HTMLElement
   hasFocus: ->
     this is document.activeElement or @contains(document.activeElement)
 
+atom.commands.add 'atom-pane',
+  'pane:save-items': -> @getModel().saveItems()
+  'pane:show-next-item': -> @getModel().activateNextItem()
+  'pane:show-previous-item': -> @getModel().activatePreviousItem()
+  'pane:show-item-1': -> @getModel().activateItemAtIndex(0)
+  'pane:show-item-2': -> @getModel().activateItemAtIndex(1)
+  'pane:show-item-3': -> @getModel().activateItemAtIndex(2)
+  'pane:show-item-4': -> @getModel().activateItemAtIndex(3)
+  'pane:show-item-5': -> @getModel().activateItemAtIndex(4)
+  'pane:show-item-6': -> @getModel().activateItemAtIndex(5)
+  'pane:show-item-7': -> @getModel().activateItemAtIndex(6)
+  'pane:show-item-8': -> @getModel().activateItemAtIndex(7)
+  'pane:show-item-9': -> @getModel().activateItemAtIndex(8)
+  'pane:move-item-right': -> @getModel().moveItemRight()
+  'pane:move-item-left': -> @getModel().moveItemLeft()
+  'pane:split-left': -> @getModel().splitLeft(copyActiveItem: true)
+  'pane:split-right': -> @getModel().splitRight(copyActiveItem: true)
+  'pane:split-up': -> @getModel().splitUp(copyActiveItem: true)
+  'pane:split-down': -> @getModel().splitDown(copyActiveItem: true)
+  'pane:close': -> @getModel().close()
+  'pane:close-other-items': -> @getModel().destroyInactiveItems()
+
 module.exports = PaneElement = document.registerElement 'atom-pane', prototype: PaneElement.prototype

src/pane.coffee

@@ -289,6 +289,18 @@ class Pane extends Model
     else
       @activateItemAtIndex(@items.length - 1)
 
+  # Public: Move the active tab to the right.
+  moveItemRight: ->
+    index = @getActiveItemIndex()
+    rightItemIndex = index + 1
+    @moveItem(@getActiveItem(), rightItemIndex) unless rightItemIndex > @items.length - 1
+
+  # Public: Move the active tab to the left
+  moveItemLeft: ->
+    index = @getActiveItemIndex()
+    leftItemIndex = index - 1
+    @moveItem(@getActiveItem(), leftItemIndex) unless leftItemIndex < 0
+
   # Public: Get the index of the active item.
   #
   # Returns a {Number}.
@@ -502,6 +514,8 @@ class Pane extends Model
 
   # Public: Makes this pane the *active* pane, causing it to gain focus.
   activate: ->
+    throw new Error("Pane has been destroyed") if @isDestroyed()
+
     @container?.setActivePane(this)
     @emit 'activated'
     @emitter.emit 'did-activate'
@@ -606,3 +620,11 @@ class Pane extends Model
         rightmostSibling
     else
       @splitRight()
+
+  close: ->
+    @destroy() if @confirmClose()
+
+  confirmClose: ->
+    for item in @getItems()
+      return false unless @promptToSaveItem(item)
+    true

src/panel-container-element.coffee

@@ -10,12 +10,11 @@ class PanelContainerElement extends HTMLElement
     @subscriptions.add @model.onDidAddPanel(@panelAdded.bind(this))
     @subscriptions.add @model.onDidRemovePanel(@panelRemoved.bind(this))
     @subscriptions.add @model.onDidDestroy(@destroyed.bind(this))
-
-    @setAttribute('location', @model.getLocation())
+    @classList.add(@model.getLocation())
 
   panelAdded: ({panel, index}) ->
     panelElement = panel.getView()
-    panelElement.setAttribute('location', @model.getLocation())
+    panelElement.classList.add(@model.getLocation())
     if index >= @childNodes.length
       @appendChild(panelElement)
     else

src/project.coffee

@@ -323,6 +323,7 @@ class Project extends Model
   # Still needed when deserializing a tokenized buffer
   buildBufferSync: (absoluteFilePath) ->
     buffer = new TextBuffer({filePath: absoluteFilePath})
+    buffer.setEncoding(atom.config.get('core.fileEncoding'))
     @addBuffer(buffer)
     buffer.loadSync()
     buffer
@@ -338,6 +339,7 @@ class Project extends Model
       throw new Error("Atom can only handle files < 2MB for now.")
 
     buffer = new TextBuffer({filePath: absoluteFilePath})
+    buffer.setEncoding(atom.config.get('core.fileEncoding'))
     @addBuffer(buffer)
     buffer.load()
       .then((buffer) -> buffer)

src/scroll-view.coffee

@@ -1,6 +1,6 @@
 {View} = require './space-pen-extensions'
 
-# Extended: Represents a view that scrolls.
+# Deprecated: Represents a view that scrolls.
 #
 # Handles several core events to update scroll position:
 #

src/select-list-view.coffee

@@ -2,7 +2,7 @@
 TextEditorView = require './text-editor-view'
 fuzzyFilter = require('fuzzaldrin').filter
 
-# Essential: Provides a view that renders a list of items with an editor that
+# Deprecated: Provides a view that renders a list of items with an editor that
 # filters the items. Used by many packages such as the fuzzy-finder,
 # command-palette, symbols-view and autocomplete.
 #

src/selection.coffee

@@ -4,6 +4,8 @@
 {Emitter} = require 'event-kit'
 Grim = require 'grim'
 
+NonWhitespaceRegExp = /\S/
+
 # Extended: Represents a selection in the {TextEditor}.
 module.exports =
 class Selection extends Model
@@ -322,7 +324,7 @@ class Selection extends Model
   # * `row` The line {Number} to select (default: the row of the cursor).
   selectLine: (row=@cursor.getBufferPosition().row) ->
     range = @editor.bufferRangeForBufferRow(row, includeNewline: true)
-    @setBufferRange(@getBufferRange().union(range))
+    @setBufferRange(@getBufferRange().union(range), autoscroll: true)
     @linewise = true
     @wordwise = false
     @initialScreenRange = @getScreenRange()
@@ -368,13 +370,16 @@ class Selection extends Model
       @cursor.setBufferPosition(newBufferRange.end, skipAtomicTokens: true) if wasReversed
 
     if options.autoIndent
-      @editor.autoIndentBufferRow(row) for row in newBufferRange.getRows()
+      precedingText = @editor.getTextInBufferRange([[newBufferRange.start.row, 0], newBufferRange.start])
+      unless NonWhitespaceRegExp.test(precedingText)
+        @editor.autoIndentBufferRow(newBufferRange.getRows()[0])
+      @editor.autoIndentBufferRow(row) for row, i in newBufferRange.getRows() when i > 0
     else if options.autoIndentNewline and text == '\n'
       currentIndentation = @editor.indentationForBufferRow(newBufferRange.start.row)
-      @editor.autoIndentBufferRow(newBufferRange.end.row, preserveLeadingWhitespace: true)
+      @editor.autoIndentBufferRow(newBufferRange.end.row, preserveLeadingWhitespace: true, skipBlankLines: false)
       if @editor.indentationForBufferRow(newBufferRange.end.row) < currentIndentation
         @editor.setIndentationForBufferRow(newBufferRange.end.row, currentIndentation)
-    else if options.autoDecreaseIndent and /\S/.test text
+    else if options.autoDecreaseIndent and NonWhitespaceRegExp.test(text)
       @editor.autoDecreaseIndentForBufferRow(newBufferRange.start.row)
 
     newBufferRange
@@ -541,8 +546,9 @@ class Selection extends Model
   # Public: Copies the selection to the clipboard and then deletes it.
   #
   # * `maintainClipboard` {Boolean} (default: false) See {::copy}
-  cut: (maintainClipboard=false) ->
-    @copy(maintainClipboard)
+  # * `fullLine` {Boolean} (default: false) See {::copy}
+  cut: (maintainClipboard=false, fullLine=false) ->
+    @copy(maintainClipboard, fullLine)
     @delete()
 
   # Public: Copies the current selection to the clipboard.
@@ -551,22 +557,33 @@ class Selection extends Model
   #   is created to store each content copied to the clipboard. The clipboard
   #   `text` still contains the concatenation of the clipboard with the
   #   current selection. (default: false)
-  copy: (maintainClipboard=false) ->
+  # * `fullLine` {Boolean} if `true`, the copied text will always be pasted
+  #   at the beginning of the line containing the cursor, regardless of the
+  #   cursor's horizontal position. (default: false)
+  copy: (maintainClipboard=false, fullLine=false) ->
     return if @isEmpty()
-    text = @editor.buffer.getTextInRange(@getBufferRange())
+    selectionText = @editor.buffer.getTextInRange(@getBufferRange())
+    selectionIndentation = @editor.indentationForBufferRow(@getBufferRange().start.row)
+
     if maintainClipboard
       {text: clipboardText, metadata} = atom.clipboard.readWithMetadata()
-
-      if metadata?.selections?
-        metadata.selections.push(text)
-      else
-        metadata = { selections: [clipboardText, text] }
-
-      text = "" + (clipboardText) + "\n" + text
+      metadata ?= {}
+      unless metadata.selections?
+        metadata.selections = [{
+          text: clipboardText,
+          indentBasis: metadata.indentBasis,
+        }]
+      metadata.selections.push({
+        text: selectionText,
+        indentBasis: selectionIndentation,
+        fullLine: fullLine
+      })
+      atom.clipboard.write([clipboardText, selectionText].join("\n"), metadata)
     else
-      metadata = { indentBasis: @editor.indentationForBufferRow(@getBufferRange().start.row) }
-
-    atom.clipboard.write(text, metadata)
+      atom.clipboard.write(selectionText, {
+        indentBasis: selectionIndentation,
+        fullLine: fullLine
+      })
 
   # Public: Creates a fold containing the current selection.
   fold: ->

src/space-pen-extensions.coffee

@@ -20,7 +20,7 @@ NativeEventNames.add(nativeEvent) for nativeEvent in ["blur", "focus", "focusin"
 "focusout", "load", "resize", "scroll", "unload", "click", "dblclick", "mousedown",
 "mouseup", "mousemove", "mouseover", "mouseout", "mouseenter", "mouseleave", "change",
 "select", "submit", "keydown", "keypress", "keyup", "error", "contextmenu", "textInput",
-"textinput"]
+"textinput", "beforeunload"]
 
 JQueryTrigger = jQuery.fn.trigger
 jQuery.fn.trigger = (eventName, data) ->

src/style-manager.coffee

@@ -1,5 +1,12 @@
+fs = require 'fs-plus'
+path = require 'path'
 {Emitter, Disposable} = require 'event-kit'
 
+# Extended: A singleton instance of this class available via `atom.styles`,
+# which you can use to globally query and observe the set of active style
+# sheets. The `StyleManager` doesn't add any style elements to the DOM on its
+# own, but is instead subscribed to by individual `<atom-styles>` elements,
+# which clone and attach style elements in different contexts.
 module.exports =
 class StyleManager
   constructor: ->
@@ -7,19 +14,78 @@ class StyleManager
     @styleElements = []
     @styleElementsBySourcePath = {}
 
+  ###
+  Section: Event Subscription
+  ###
+
+  # Extended: Invoke `callback` for all current and future style elements.
+  #
+  # * `callback` {Function} that is called with style elements.
+  #   * `styleElement` An `HTMLStyleElement` instance. The `.sheet` property
+  #     will be null because this element isn't attached to the DOM. If you want
+  #     to attach this element to the DOM, be sure to clone it first by calling
+  #     `.cloneNode(true)` on it. The style element will also have the following
+  #     non-standard properties:
+  #     * `sourcePath` A {String} containing the path from which the style
+  #       element was loaded.
+  #     * `context` A {String} indicating the target context of the style
+  #       element.
+  #
+  # Returns a {Disposable} on which `.dispose()` can be called to cancel the
+  # subscription.
   observeStyleElements: (callback) ->
     callback(styleElement) for styleElement in @getStyleElements()
     @onDidAddStyleElement(callback)
 
+  # Extended: Invoke `callback` when a style element is added.
+  #
+  # * `callback` {Function} that is called with style elements.
+  #   * `styleElement` An `HTMLStyleElement` instance. The `.sheet` property
+  #     will be null because this element isn't attached to the DOM. If you want
+  #     to attach this element to the DOM, be sure to clone it first by calling
+  #     `.cloneNode(true)` on it. The style element will also have the following
+  #     non-standard properties:
+  #     * `sourcePath` A {String} containing the path from which the style
+  #       element was loaded.
+  #     * `context` A {String} indicating the target context of the style
+  #       element.
+  #
+  # Returns a {Disposable} on which `.dispose()` can be called to cancel the
+  # subscription.
   onDidAddStyleElement: (callback) ->
     @emitter.on 'did-add-style-element', callback
 
+  # Extended: Invoke `callback` when a style element is removed.
+  #
+  # * `callback` {Function} that is called with style elements.
+  #   * `styleElement` An `HTMLStyleElement` instance.
+  #
+  # Returns a {Disposable} on which `.dispose()` can be called to cancel the
+  # subscription.
   onDidRemoveStyleElement: (callback) ->
     @emitter.on 'did-remove-style-element', callback
 
+  # Extended: Invoke `callback` when an existing style element is updated.
+  #
+  # * `callback` {Function} that is called with style elements.
+  #   * `styleElement` An `HTMLStyleElement` instance. The `.sheet` property
+  #      will be null because this element isn't attached to the DOM. The style
+  #      element will also have the following non-standard properties:
+  #     * `sourcePath` A {String} containing the path from which the style
+  #       element was loaded.
+  #     * `context` A {String} indicating the target context of the style
+  #       element.
+  #
+  # Returns a {Disposable} on which `.dispose()` can be called to cancel the
+  # subscription.
   onDidUpdateStyleElement: (callback) ->
     @emitter.on 'did-update-style-element', callback
 
+  ###
+  Section: Reading Style Elements
+  ###
+
+  # Extended: Get all loaded style elements.
   getStyleElements: ->
     @styleElements.slice()
 
@@ -85,3 +151,17 @@ class StyleManager
     existingStyleElements = @getStyleElements()
     for styleElement in styleElementsToRestore
       @addStyleElement(styleElement) unless styleElement in existingStyleElements
+
+  ###
+  Section: Paths
+  ###
+
+  # Extended: Get the path of the user style sheet in `~/.atom`.
+  #
+  # Returns a {String}.
+  getUserStyleSheetPath: ->
+    stylesheetPath = fs.resolve(path.join(atom.getConfigDirPath(), 'styles'), ['css', 'less'])
+    if fs.isFileSync(stylesheetPath)
+      stylesheetPath
+    else
+      path.join(atom.getConfigDirPath(), 'styles.less')

src/styles-element.coffee

@@ -18,6 +18,9 @@ class StylesElement extends HTMLElement
     @styleElementClonesByOriginalElement = new WeakMap
 
   attachedCallback: ->
+    if @context is 'atom-text-editor'
+      for styleElement in @children
+        @upgradeDeprecatedSelectors(styleElement)
     @initialize()
 
   detachedCallback: ->
@@ -45,9 +48,10 @@ class StylesElement extends HTMLElement
     @styleElementAdded(styleElement) for styleElement in atom.styles.getStyleElements()
 
   styleElementAdded: (styleElement) ->
-    return unless styleElement.context is @context
+    return unless @styleElementMatchesContext(styleElement)
 
     styleElementClone = styleElement.cloneNode(true)
+    styleElementClone.sourcePath = styleElement.sourcePath
     styleElementClone.context = styleElement.context
     @styleElementClonesByOriginalElement.set(styleElement, styleElementClone)
 
@@ -59,20 +63,53 @@ class StylesElement extends HTMLElement
           break
 
     @insertBefore(styleElementClone, insertBefore)
+
+    if @context is 'atom-text-editor'
+      @upgradeDeprecatedSelectors(styleElementClone)
+
     @emitter.emit 'did-add-style-element', styleElementClone
 
   styleElementRemoved: (styleElement) ->
-    return unless styleElement.context is @context
+    return unless @styleElementMatchesContext(styleElement)
 
     styleElementClone = @styleElementClonesByOriginalElement.get(styleElement) ? styleElement
     styleElementClone.remove()
     @emitter.emit 'did-remove-style-element', styleElementClone
 
   styleElementUpdated: (styleElement) ->
-    return unless styleElement.context is @context
+    return unless @styleElementMatchesContext(styleElement)
 
     styleElementClone = @styleElementClonesByOriginalElement.get(styleElement)
     styleElementClone.textContent = styleElement.textContent
     @emitter.emit 'did-update-style-element', styleElementClone
 
+  styleElementMatchesContext: (styleElement) ->
+    not @context? or styleElement.context is @context
+
+  upgradeDeprecatedSelectors: (styleElement) ->
+    return unless styleElement.sheet?
+
+    upgradedSelectors = []
+
+    for rule in styleElement.sheet.cssRules
+      continue if /\:host/.test(rule.selectorText)
+
+      inputSelector = rule.selectorText
+      outputSelector = rule.selectorText
+        .replace(/\.editor-colors($|[ >])/g, ':host$1')
+        .replace(/\.editor([:.][^ ,>]+)/g, ':host($1)')
+        .replace(/\.editor($|[ ,>])/g, ':host$1')
+
+      unless inputSelector is outputSelector
+        rule.selectorText = outputSelector
+        upgradedSelectors.push({inputSelector, outputSelector})
+
+    if upgradedSelectors.length > 0
+      warning = "Upgraded the following syntax theme selectors in `#{styleElement.sourcePath}` for shadow DOM compatibility:\n\n"
+      for {inputSelector, outputSelector} in upgradedSelectors
+        warning += "`#{inputSelector}` => `#{outputSelector}`\n"
+
+      warning += "\nSee the upgrade guide for information on removing this warning."
+      console.warn(warning)
+
 module.exports = StylesElement = document.registerElement 'atom-styles', prototype: StylesElement.prototype

src/text-editor-component.coffee

@@ -6,6 +6,7 @@ scrollbarStyle = require 'scrollbar-style'
 {Range, Point} = require 'text-buffer'
 grim = require 'grim'
 {CompositeDisposable} = require 'event-kit'
+ipc = require 'ipc'
 
 GutterComponent = require './gutter-component'
 InputComponent = require './input-component'
@@ -50,7 +51,7 @@ TextEditorComponent = React.createClass
 
   render: ->
     {focused, showIndentGuide, showLineNumbers, visible} = @state
-    {editor, mini, cursorBlinkPeriod, cursorBlinkResumeDelay} = @props
+    {editor, mini, cursorBlinkPeriod, cursorBlinkResumeDelay, hostElement, useShadowDOM} = @props
     maxLineNumberDigits = editor.getLineCount().toString().length
     hasSelection = editor.getLastSelection()? and !editor.getLastSelection().isEmpty()
     style = {}
@@ -66,6 +67,7 @@ TextEditorComponent = React.createClass
 
       decorations = editor.decorationsForScreenRowRange(renderedStartRow, renderedEndRow)
       highlightDecorations = @getHighlightDecorations(decorations)
+      overlayDecorations = @getOverlayDecorations(decorations)
       lineDecorations = @getLineDecorations(decorations)
       placeholderText = editor.getPlaceholderText() if editor.isEmpty()
       visible = @isVisible()
@@ -89,7 +91,10 @@ TextEditorComponent = React.createClass
 
       style.height = scrollViewHeight if @autoHeight
 
-    className = 'editor-contents'
+    if useShadowDOM
+      className = 'editor-contents--private'
+    else
+      className = 'editor-contents'
     className += ' is-focused' if focused
     className += ' has-selection' if hasSelection
 
@@ -110,12 +115,13 @@ TextEditorComponent = React.createClass
 
         LinesComponent {
           ref: 'lines',
-          editor, lineHeightInPixels, defaultCharWidth, tokenizedLines, lineDecorations, highlightDecorations,
+          editor, lineHeightInPixels, defaultCharWidth, tokenizedLines,
+          lineDecorations, highlightDecorations, overlayDecorations, hostElement,
           showIndentGuide, renderedRowRange, @pendingChanges, scrollTop, scrollLeft,
           @scrollingVertically, scrollHeight, scrollWidth, mouseWheelScreenRow,
           visible, scrollViewHeight, @scopedCharacterWidthsChangeCount, lineWidth, @useHardwareAcceleration,
           placeholderText, @performedInitialMeasurement, @backgroundColor, cursorPixelRects,
-          cursorBlinkPeriod, cursorBlinkResumeDelay, mini
+          cursorBlinkPeriod, cursorBlinkResumeDelay, mini, useShadowDOM
         }
 
         ScrollbarComponent
@@ -182,7 +188,7 @@ TextEditorComponent = React.createClass
     @subscribe stylesElement.onDidUpdateStyleElement @onStylesheetsChanged
     @subscribe stylesElement.onDidRemoveStyleElement @onStylesheetsChanged
     unless atom.themes.isInitialLoadComplete()
-      @subscribe atom.themes.onDidReloadAll @onStylesheetsChanged
+      @subscribe atom.themes.onDidReloadAll @onAllThemesLoaded
     @subscribe scrollbarStyle.changes, @refreshScrollbars
 
     @domPollingIntervalId = setInterval(@pollDOM, @domPollingInterval)
@@ -351,7 +357,23 @@ TextEditorComponent = React.createClass
               endPixelPosition: editor.pixelPositionForScreenPosition(screenRange.end)
               decorations: []
             filteredDecorations[markerId].decorations.push decorationParams
+    filteredDecorations
 
+  getOverlayDecorations: (decorationsByMarkerId) ->
+    {editor} = @props
+    filteredDecorations = {}
+    for markerId, decorations of decorationsByMarkerId
+      marker = editor.getMarker(markerId)
+      headBufferPosition = marker.getHeadBufferPosition()
+      if marker.isValid()
+        for decoration in decorations
+          if decoration.isType('overlay')
+            decorationParams = decoration.getProperties()
+            filteredDecorations[markerId] ?=
+              id: markerId
+              headPixelPosition: editor.pixelPositionForScreenPosition(headBufferPosition)
+              decorations: []
+            filteredDecorations[markerId].decorations.push decorationParams
     filteredDecorations
 
   observeEditor: ->
@@ -384,6 +406,7 @@ TextEditorComponent = React.createClass
     window.addEventListener 'resize', @requestHeightAndWidthMeasurement
 
     @listenForIMEEvents()
+    @listenForMiddleMousePaste() if process.platform is 'linux'
 
   listenForIMEEvents: ->
     node = @getDOMNode()
@@ -411,6 +434,22 @@ TextEditorComponent = React.createClass
       editor.insertText(selectedText, select: true, undo: 'skip')
       event.target.value = ''
 
+  listenForMiddleMousePaste: ->
+    clipboard = require 'clipboard'
+
+    @refs.scrollView.getDOMNode().addEventListener 'mouseup', ({which}) =>
+      return unless which is 2
+
+      if selection = clipboard.readText('selection')
+        @props.editor.insertText(selection)
+
+    @subscribe @props.editor.onDidChangeSelectionRange =>
+      if selectedText = @props.editor.getSelectedText()
+        # This uses ipc.send instead of clipboard.writeText because
+        # clipboard.writeText is a sync ipc call on Linux and that
+        # will slow down selections.
+        ipc.send('write-text-to-selection-clipboard', selectedText)
+
   observeConfig: ->
     @subscribe atom.config.observe 'editor.useHardwareAcceleration', @setUseHardwareAcceleration
     @subscribe atom.config.onDidChange 'editor.fontSize', @sampleFontStyling
@@ -627,8 +666,14 @@ TextEditorComponent = React.createClass
   onStylesheetsChanged: (styleElement) ->
     return unless @performedInitialMeasurement
     return unless atom.themes.isInitialLoadComplete()
-
     @refreshScrollbars() if not styleElement.sheet? or @containsScrollbarSelector(styleElement.sheet)
+    @handleStylingChange()
+
+  onAllThemesLoaded: ->
+    @refreshScrollbars()
+    @handleStylingChange()
+
+  handleStylingChange: ->
     @sampleFontStyling()
     @sampleBackgroundColors()
     @remeasureCharacterWidths()

src/text-editor-element.coffee

@@ -1,12 +1,13 @@
 {View, $, callRemoveHooks} = require 'space-pen'
 React = require 'react-atom-fork'
+Path = require 'path'
 {defaults} = require 'underscore-plus'
 TextBuffer = require 'text-buffer'
 TextEditor = require './text-editor'
 TextEditorComponent = require './text-editor-component'
 TextEditorView = null
 
-GlobalStylesElement = null
+ShadowStyleSheet = null
 
 class TextEditorElement extends HTMLElement
   model: null
@@ -27,30 +28,31 @@ class TextEditorElement extends HTMLElement
     @setAttribute('tabindex', -1)
 
     if atom.config.get('editor.useShadowDOM')
+      @useShadowDOM = true
+
+      unless ShadowStyleSheet?
+        ShadowStyleSheet = document.createElement('style')
+        ShadowStyleSheet.textContent = atom.themes.loadLessStylesheet(require.resolve('../static/text-editor-shadow.less'))
+
       @createShadowRoot()
 
+      @shadowRoot.appendChild(ShadowStyleSheet.cloneNode(true))
       @stylesElement = document.createElement('atom-styles')
       @stylesElement.setAttribute('context', 'atom-text-editor')
       @stylesElement.initialize()
 
       @rootElement = document.createElement('div')
-      @rootElement.classList.add('shadow')
+      @rootElement.classList.add('editor--private')
 
       @shadowRoot.appendChild(@stylesElement)
       @shadowRoot.appendChild(@rootElement)
     else
-      unless GlobalStylesElement?
-        GlobalStylesElement = document.createElement('atom-styles')
-        GlobalStylesElement.setAttribute('context', 'atom-text-editor')
-        GlobalStylesElement.initialize()
-        document.head.appendChild(GlobalStylesElement)
+      @useShadowDOM = false
 
-      @stylesElement = GlobalStylesElement
+      @classList.add('editor', 'editor-colors')
+      @stylesElement = document.head.querySelector('atom-styles')
       @rootElement = this
 
-    @rootElement.classList.add('editor', 'editor-colors')
-
-
   createSpacePenShim: ->
     TextEditorView ?= require './text-editor-view'
     @__spacePenView = new TextEditorView(this)
@@ -68,6 +70,7 @@ class TextEditorElement extends HTMLElement
     @model = model
     @mountComponent()
     @addGrammarScopeAttribute()
+    @addMiniAttributeIfNeeded()
     @model.onDidChangeGrammar => @addGrammarScopeAttribute()
     @addEncodingAttribute()
     @model.onDidChangeEncoding => @addEncodingAttribute()
@@ -96,10 +99,11 @@ class TextEditorElement extends HTMLElement
       editor: @model
       mini: @model.mini
       lineOverdrawMargin: @lineOverdrawMargin
+      useShadowDOM: @useShadowDOM
     )
     @component = React.renderComponent(@componentDescriptor, @rootElement)
 
-    unless atom.config.get('editor.useShadowDOM')
+    unless @useShadowDOM
       inputNode = @component.refs.input.getDOMNode()
       inputNode.addEventListener 'focus', @focused.bind(this)
       inputNode.addEventListener 'blur', => @dispatchEvent(new FocusEvent('blur', bubbles: false))
@@ -117,7 +121,7 @@ class TextEditorElement extends HTMLElement
       @focusOnAttach = true
 
   blurred: (event) ->
-    unless atom.config.get('editor.useShadowDOM')
+    unless @useShadowDOM
       if event.relatedTarget is @component?.refs.input?.getDOMNode()
         event.stopImmediatePropagation()
         return
@@ -128,6 +132,9 @@ class TextEditorElement extends HTMLElement
     grammarScope = @model.getGrammar()?.scopeName?.replace(/\./g, ' ')
     @dataset.grammar = grammarScope
 
+  addMiniAttributeIfNeeded: ->
+    @setAttributeNode(document.createAttribute("mini")) if @model.isMini()
+
   addEncodingAttribute: ->
     @dataset.encoding = @model.getEncoding()
 
@@ -207,7 +214,7 @@ atom.commands.add 'atom-text-editor', stopEventPropagationAndGroupUndo(
   'editor:lower-case': -> @lowerCase()
 )
 
-atom.commands.add 'atom-text-editor:not(.mini)', stopEventPropagationAndGroupUndo(
+atom.commands.add 'atom-text-editor:not([mini])', stopEventPropagationAndGroupUndo(
   'core:move-up': -> @moveUp()
   'core:move-down': -> @moveDown()
   'core:move-to-top': -> @moveToTop()

src/text-editor-view.coffee

@@ -7,7 +7,7 @@ TextEditorElement = require './text-editor-element'
 TextEditorComponent = require './text-editor-component'
 {deprecate} = require 'grim'
 
-# Public: Represents the entire visual pane in Atom.
+# Deprecated: Represents the entire visual pane in Atom.
 #
 # The TextEditorView manages the {TextEditor}, which manages the file buffers.
 # `TextEditorView` is intentionally sparse. Most of the things you'll want
@@ -77,7 +77,6 @@ class TextEditorView extends View
 
     @scrollView = @root.find('.scroll-view')
 
-
     if atom.config.get('editor.useShadowDOM')
       @underlayer = $("<div class='underlayer'></div>").appendTo(this)
       @overlayer = $("<div class='overlayer'></div>").appendTo(this)

src/text-editor.coffee

@@ -6,7 +6,7 @@ Delegator = require 'delegato'
 {Model} = require 'theorist'
 EmitterMixin = require('emissary').Emitter
 {CompositeDisposable, Emitter} = require 'event-kit'
-{Point, Range} = require 'text-buffer'
+{Point, Range} = TextBuffer = require 'text-buffer'
 LanguageMode = require './language-mode'
 DisplayBuffer = require './display-buffer'
 Cursor = require './cursor'
@@ -84,6 +84,7 @@ class TextEditor extends Model
     @cursors = []
     @selections = []
 
+    buffer ?= new TextBuffer
     @displayBuffer ?= new DisplayBuffer({buffer, tabLength, softWrapped})
     @buffer = @displayBuffer.buffer
     @softTabs = @usesSoftTabs() ? @softTabs ? atom.config.get('editor.softTabs') ? true
@@ -2243,6 +2244,10 @@ class TextEditor extends Model
   # Returns a {Boolean} or undefined if no non-comment lines had leading
   # whitespace.
   usesSoftTabs: ->
+    # FIXME Remove once this can be specified as a scoped setting in the
+    # language-make package
+    return false if @getGrammar().scopeName is 'source.makefile'
+
     for bufferRow in [0..@buffer.getLastRow()]
       continue if @displayBuffer.tokenizedBuffer.tokenizedLineForRow(bufferRow).isComment()
 
@@ -2443,7 +2448,8 @@ class TextEditor extends Model
       @commentScopeSelector.matches(scopeDescriptor)
 
   logCursorScope: ->
-    console.log @getLastCursor().getScopeDescriptor()
+    scopeDescriptor = @getLastCursor().getScopeDescriptor()
+    console.log scopeDescriptor.scopes, scopeDescriptor
 
   # {Delegates to: DisplayBuffer.tokenForBufferPosition}
   tokenForBufferPosition: (bufferPosition) -> @displayBuffer.tokenForBufferPosition(bufferPosition)
@@ -2463,14 +2469,24 @@ class TextEditor extends Model
   copySelectedText: ->
     maintainClipboard = false
     for selection in @getSelections()
-      selection.copy(maintainClipboard)
+      if selection.isEmpty()
+        previousRange = selection.getBufferRange()
+        selection.selectLine()
+        selection.copy(maintainClipboard, true)
+        selection.setBufferRange(previousRange)
+      else
+        selection.copy(maintainClipboard, false)
       maintainClipboard = true
 
   # Essential: For each selection, cut the selected text.
   cutSelectedText: ->
     maintainClipboard = false
     @mutateSelectedText (selection) ->
-      selection.cut(maintainClipboard)
+      if selection.isEmpty()
+        selection.selectLine()
+        selection.cut(maintainClipboard, true)
+      else
+        selection.cut(maintainClipboard, false)
       maintainClipboard = true
 
   # Essential: For each selection, replace the selected text with the contents of
@@ -2482,22 +2498,32 @@ class TextEditor extends Model
   #
   # * `options` (optional) See {Selection::insertText}.
   pasteText: (options={}) ->
-    {text, metadata} = atom.clipboard.readWithMetadata()
+    {text: clipboardText, metadata} = atom.clipboard.readWithMetadata()
+    metadata ?= {}
+    options.autoIndent = @shouldAutoIndentOnPaste()
 
-    containsNewlines = text.indexOf('\n') isnt -1
+    @mutateSelectedText (selection, index) =>
+      if metadata.selections?.length is @getSelections().length
+        {text, indentBasis, fullLine} = metadata.selections[index]
+      else
+        {indentBasis, fullLine} = metadata
+        text = clipboardText
 
-    if metadata?.selections? and metadata.selections.length is @getSelections().length
-      @mutateSelectedText (selection, index) ->
-        text = metadata.selections[index]
+      delete options.indentBasis
+      {cursor} = selection
+      if indentBasis?
+        containsNewlines = text.indexOf('\n') isnt -1
+        if containsNewlines or !cursor.hasPrecedingCharactersOnLine()
+          options.indentBasis ?= indentBasis
+
+      if fullLine and selection.isEmpty()
+        oldPosition = selection.getBufferRange().start
+        selection.setBufferRange([[oldPosition.row, 0], [oldPosition.row, 0]])
+        selection.insertText(text, options)
+        newPosition = oldPosition.translate([1, 0])
+        selection.setBufferRange([newPosition, newPosition])
+      else
         selection.insertText(text, options)
-
-      return
-
-    else if atom.config.get(@getLastCursor().getScopeDescriptor(), "editor.normalizeIndentOnPaste") and metadata?.indentBasis?
-      if !@getLastCursor().hasPrecedingCharactersOnLine() or containsNewlines
-        options.indentBasis ?= metadata.indentBasis
-
-    @insertText(text, options)
 
   # Public: For each selection, if the selection is empty, cut all characters
   # of the containing line following the cursor. Otherwise cut the selected
@@ -2713,6 +2739,9 @@ class TextEditor extends Model
   shouldAutoIndent: ->
     atom.config.get(@getRootScopeDescriptor(), "editor.autoIndent")
 
+  shouldAutoIndentOnPaste: ->
+    atom.config.get(@getRootScopeDescriptor(), "editor.autoIndentOnPaste")
+
   shouldShowInvisibles: ->
     not @mini and atom.config.get(@getRootScopeDescriptor(), 'editor.showInvisibles')
 

src/theme-manager.coffee

@@ -6,7 +6,7 @@ EmitterMixin = require('emissary').Emitter
 {File} = require 'pathwatcher'
 fs = require 'fs-plus'
 Q = require 'q'
-{deprecate} = require 'grim'
+Grim = require 'grim'
 
 Package = require './package'
 
@@ -57,61 +57,66 @@ class ThemeManager
   Section: Event Subscription
   ###
 
-  # Essential: Invoke `callback` when all styles have been reloaded.
+  # Essential: Invoke `callback` when style sheet changes associated with
+  # updating the list of active themes have completed.
   #
   # * `callback` {Function}
   onDidReloadAll: (callback) ->
     @emitter.on 'did-reload-all', callback
 
-  # Essential: Invoke `callback` when a stylesheet has been added to the dom.
+  # Deprecated: Invoke `callback` when a stylesheet has been added to the dom.
   #
   # * `callback` {Function}
   #   * `stylesheet` {StyleSheet} the style node
   #
   # Returns a {Disposable} on which `.dispose()` can be called to unsubscribe.
   onDidAddStylesheet: (callback) ->
+    Grim.deprecate("Use atom.styles.onDidAddStyleElement instead")
     @emitter.on 'did-add-stylesheet', callback
 
-  # Essential: Invoke `callback` when a stylesheet has been removed from the dom.
+  # Deprecated: Invoke `callback` when a stylesheet has been removed from the dom.
   #
   # * `callback` {Function}
   #   * `stylesheet` {StyleSheet} the style node
   #
   # Returns a {Disposable} on which `.dispose()` can be called to unsubscribe.
   onDidRemoveStylesheet: (callback) ->
+    Grim.deprecate("Use atom.styles.onDidRemoveStyleElement instead")
     @emitter.on 'did-remove-stylesheet', callback
 
-  # Essential: Invoke `callback` when a stylesheet has been updated.
+  # Deprecated: Invoke `callback` when a stylesheet has been updated.
   #
   # * `callback` {Function}
   #   * `stylesheet` {StyleSheet} the style node
   #
   # Returns a {Disposable} on which `.dispose()` can be called to unsubscribe.
   onDidUpdateStylesheet: (callback) ->
+    Grim.deprecate("Use atom.styles.onDidUpdateStyleElement instead")
     @emitter.on 'did-update-stylesheet', callback
 
-  # Essential: Invoke `callback` when any stylesheet has been updated, added, or removed.
+  # Deprecated: Invoke `callback` when any stylesheet has been updated, added, or removed.
   #
   # * `callback` {Function}
   #
   # Returns a {Disposable} on which `.dispose()` can be called to unsubscribe.
   onDidChangeStylesheets: (callback) ->
+    Grim.deprecate("Use atom.styles.onDidAdd/RemoveStyleElement instead")
     @emitter.on 'did-change-stylesheets', callback
 
   on: (eventName) ->
     switch eventName
       when 'reloaded'
-        deprecate 'Use ThemeManager::onDidReloadAll instead'
+        Grim.deprecate 'Use ThemeManager::onDidReloadAll instead'
       when 'stylesheet-added'
-        deprecate 'Use ThemeManager::onDidAddStylesheet instead'
+        Grim.deprecate 'Use ThemeManager::onDidAddStylesheet instead'
       when 'stylesheet-removed'
-        deprecate 'Use ThemeManager::onDidRemoveStylesheet instead'
+        Grim.deprecate 'Use ThemeManager::onDidRemoveStylesheet instead'
       when 'stylesheet-updated'
-        deprecate 'Use ThemeManager::onDidUpdateStylesheet instead'
+        Grim.deprecate 'Use ThemeManager::onDidUpdateStylesheet instead'
       when 'stylesheets-changed'
-        deprecate 'Use ThemeManager::onDidChangeStylesheets instead'
+        Grim.deprecate 'Use ThemeManager::onDidChangeStylesheets instead'
       else
-        deprecate 'ThemeManager::on is deprecated. Use event subscription methods instead.'
+        Grim.deprecate 'ThemeManager::on is deprecated. Use event subscription methods instead.'
     EmitterMixin::on.apply(this, arguments)
 
   ###
@@ -197,18 +202,15 @@ class ThemeManager
     atom.config.set('core.themes', enabledThemeNames)
 
   ###
-  Section: Managing Stylesheets
+  Section: Private
   ###
 
-  # Public: Returns the {String} path to the user's stylesheet under ~/.atom
+  # Returns the {String} path to the user's stylesheet under ~/.atom
   getUserStylesheetPath: ->
-    stylesheetPath = fs.resolve(path.join(@configDirPath, 'styles'), ['css', 'less'])
-    if fs.isFileSync(stylesheetPath)
-      stylesheetPath
-    else
-      path.join(@configDirPath, 'styles.less')
+    Grim.deprecate("Call atom.styles.getUserStyleSheetPath() instead")
+    atom.styles.getUserStyleSheetPath()
 
-  # Public: Resolve and apply the stylesheet specified by the path.
+  # Resolve and apply the stylesheet specified by the path.
   #
   # This supports both CSS and Less stylsheets.
   #
@@ -231,7 +233,7 @@ class ThemeManager
 
   loadUserStylesheet: ->
     @unwatchUserStylesheet()
-    userStylesheetPath = @getUserStylesheetPath()
+    userStylesheetPath = atom.styles.getUserStyleSheetPath()
     return unless fs.isFileSync(userStylesheetPath)
 
     @userStylesheetPath = userStylesheetPath
@@ -249,9 +251,6 @@ class ThemeManager
     if nativeStylesheetPath = fs.resolveOnLoadPath(process.platform, ['css', 'less'])
       @requireStylesheet(nativeStylesheetPath)
 
-    textEditorStylesPath = path.join(@resourcePath, 'static', 'text-editor-shadow.less')
-    atom.styles.addStyleSheet(@loadLessStylesheet(textEditorStylesPath), sourcePath: textEditorStylesPath, context: 'atom-text-editor')
-
   stylesheetElementForId: (id) ->
     document.head.querySelector("atom-styles style[source-path=\"#{id}\"]")
 
@@ -295,10 +294,6 @@ class ThemeManager
   applyStylesheet: (path, text, type='bundled') ->
     @styleSheetDisposablesBySourcePath[path] = atom.styles.addStyleSheet(text, sourcePath: path, group: type)
 
-  ###
-  Section: Private
-  ###
-
   stringToId: (string) ->
     string.replace(/\\/g, '/')
 

src/window-event-handler.coffee

@@ -28,7 +28,7 @@ class WindowEventHandler
 
     @subscribe $(window), 'blur', -> document.body.classList.add('is-blurred')
 
-    @subscribe $(window), 'window:open-path', (event, {pathToOpen, initialLine, initialColumn}) ->
+    @subscribeToCommand $(window), 'window:open-path', (event, {pathToOpen, initialLine, initialColumn}) ->
       unless atom.project?.getPath()
         if fs.existsSync(pathToOpen) or fs.existsSync(path.dirname(pathToOpen))
           atom.project?.setPath(pathToOpen)
@@ -61,6 +61,10 @@ class WindowEventHandler
 
     @subscribeToCommand $(window), 'window:toggle-dev-tools', -> atom.toggleDevTools()
 
+    if process.platform in ['win32', 'linux']
+      @subscribeToCommand $(window), 'window:toggle-menu-bar', ->
+        atom.config.set('core.autoHideMenuBar', !atom.config.get('core.autoHideMenuBar'))
+
     @subscribeToCommand $(document), 'core:focus-next', @focusNext
 
     @subscribeToCommand $(document), 'core:focus-previous', @focusPrevious

src/workspace-element.coffee

@@ -23,6 +23,7 @@ class WorkspaceElement extends HTMLElement
     @focus()
 
   detachedCallback: ->
+    @subscriptions.dispose()
     @model.destroy()
 
   initializeGlobalTextEditorStyleSheet: ->
@@ -66,11 +67,7 @@ class WorkspaceElement extends HTMLElement
   setModel: (@model) ->
     @paneContainer = atom.views.getView(@model.paneContainer)
     @verticalAxis.appendChild(@paneContainer)
-
     @addEventListener 'focus', @handleFocus.bind(this)
-    handleWindowFocus = @handleWindowFocus.bind(this)
-    window.addEventListener 'focus', handleWindowFocus
-    @subscriptions.add(new Disposable -> window.removeEventListener 'focus', handleWindowFocus)
 
     @panelContainers =
       top: @model.panelContainers.top.getView()
@@ -106,9 +103,6 @@ class WorkspaceElement extends HTMLElement
   handleFocus: (event) ->
     @model.getActivePane().activate()
 
-  handleWindowFocus: (event) ->
-    @handleFocus(event) if document.activeElement is document.body
-
   focusPaneViewAbove: -> @paneContainer.focusPaneViewAbove()
 
   focusPaneViewBelow: -> @paneContainer.focusPaneViewBelow()

src/workspace-view.coffee

@@ -12,7 +12,7 @@ PaneView = require './pane-view'
 PaneContainerView = require './pane-container-view'
 TextEditor = require './text-editor'
 
-# Extended: The top-level view for the entire window. An instance of this class is
+# Deprecated: The top-level view for the entire window. An instance of this class is
 # available via the `atom.workspaceView` global.
 #
 # It is backed by a model object, an instance of {Workspace}, which is available

src/workspace.coffee

@@ -61,7 +61,7 @@ class Workspace extends Model
     @addOpener (filePath) =>
       switch filePath
         when 'atom://.atom/stylesheet'
-          @open(atom.themes.getUserStylesheetPath())
+          @open(atom.styles.getUserStyleSheetPath())
         when 'atom://.atom/keymap'
           @open(atom.keymaps.getUserKeymapPath())
         when 'atom://.atom/config'
@@ -552,7 +552,7 @@ class Workspace extends Model
   activatePreviousPane: ->
     @paneContainer.activatePreviousPane()
 
-  # Extended: Get the first pane {Pane} with an item for the given URI.
+  # Extended: Get the first {Pane} with an item for the given URI.
   #
   # * `uri` {String} uri
   #
@@ -560,6 +560,14 @@ class Workspace extends Model
   paneForUri: (uri) ->
     @paneContainer.paneForUri(uri)
 
+  # Extended: Get the {Pane} containing the given item.
+  #
+  # * `item` Item the returned pane contains.
+  #
+  # Returns a {Pane} or `undefined` if no pane exists for the given item.
+  paneForItem: (item) ->
+    @paneContainer.paneForItem(item)
+
   # Destroy (close) the active pane.
   destroyActivePane: ->
     @activePane?.destroy()

static/bootstrap.less

@@ -22,6 +22,8 @@
 @import "../node_modules/bootstrap/less/badges.less";
 @import "../node_modules/bootstrap/less/alerts.less";
 @import "../node_modules/bootstrap/less/list-group.less";
+@import "../node_modules/bootstrap/less/thumbnails.less";
+@import "../node_modules/bootstrap/less/close.less";
 
 // Components w/ JavaScript
 @import "../node_modules/bootstrap/less/tooltip.less";

static/panels.less

@@ -44,8 +44,8 @@
 
 // Tool panels
 
-atom-panel-container[location="left"],
-atom-panel-container[location="right"] {
+atom-panel-container.left,
+atom-panel-container.right {
   display: -webkit-flex;
   -webkit-flex-direction: row;
   -webkit-align-items: stretch;
@@ -59,10 +59,10 @@ atom-panel {
   display: block;
 }
 
-atom-panel[location="top"],
-atom-panel[location="bottom"],
-atom-panel[location="left"],
-atom-panel[location="right"] {
+atom-panel.top,
+atom-panel.bottom,
+atom-panel.left,
+atom-panel.right {
   background-color: @tool-panel-background-color;
 }
 
@@ -75,7 +75,7 @@ atom-panel[location="right"] {
 // Modal panels
 
 .overlay, // deprecated .overlay
-atom-panel[location="modal"] {
+atom-panel.modal {
   position: absolute;
   left: 50%;
   width: 500px;
@@ -99,7 +99,7 @@ atom-panel[location="modal"] {
     font-size: 1.3em;
   }
 
-  atom-text-editor.mini {
+  atom-text-editor[mini] {
     margin-bottom: 10px;
   }
 
@@ -117,7 +117,7 @@ atom-panel[location="modal"] {
 
 // deprecated: from-top, from-bottom
 .overlay.from-top,
-atom-panel[location="modal"] {
+atom-panel.modal {
   top: 0;
   border-top: none;
   border-top-left-radius: 0;

static/text-editor-light.less

@@ -1,4 +1,6 @@
 @import "ui-variables";
+@import "octicon-utf-codes";
+@import "octicon-mixins";
 
 atom-text-editor {
   display: block;
@@ -6,8 +8,218 @@ atom-text-editor {
   line-height: 1.3;
 }
 
-atom-text-editor.mini {
+atom-text-editor[mini] {
   font-size: @input-font-size;
   line-height: @component-line-height;
   max-height: @component-line-height + 2; // +2 for borders
 }
+
+atom-overlay {
+  position: absolute;
+  display: block;
+  z-index: 4;
+}
+
+// TODO: Remove the following styles when the editor shadow DOM can no longer be disabled
+atom-text-editor {
+  display: -webkit-flex;
+
+  .editor-contents {
+    width: 100%;
+    overflow: hidden;
+    cursor: text;
+    display: -webkit-flex;
+    -webkit-user-select: none;
+    position: relative;
+  }
+
+  .gutter {
+    overflow: hidden;
+    text-align: right;
+    cursor: default;
+    min-width: 1em;
+    box-sizing: border-box;
+  }
+
+  .line-numbers {
+    position: relative;
+  }
+
+  .line-number {
+    white-space: nowrap;
+    padding-left: .5em;
+    opacity: 0.6;
+
+    &.cursor-line {
+      opacity: 1;
+    }
+
+    .icon-right {
+      .octicon(chevron-down, 0.8em);
+      display: inline-block;
+      visibility: hidden;
+      opacity: .6;
+      padding: 0 .4em;
+
+      &:before {
+        text-align: center;
+      }
+    }
+  }
+
+  .gutter:hover {
+    .line-number.foldable .icon-right {
+      visibility: visible;
+
+      &:hover {
+        opacity: 1;
+      }
+    }
+  }
+
+  .gutter, .gutter:hover {
+    .line-number.folded .icon-right {
+      .octicon(chevron-right, 0.8em);
+
+      visibility: visible;
+
+      &:before {
+        position: relative;
+        left: -.1em;
+      }
+    }
+  }
+
+  .scroll-view {
+    position: relative;
+    z-index: 0;
+
+    overflow: hidden;
+    -webkit-flex: 1;
+    min-width: 0;
+  }
+
+  .underlayer {
+    position: absolute;
+    z-index: -2;
+    top: 0;
+    bottom: 0;
+    left: 0;
+    right: 0;
+  }
+
+  .highlight {
+    background: none;
+    padding: 0;
+  }
+
+  .highlight .region {
+    position: absolute;
+    pointer-events: none;
+    z-index: -1;
+  }
+
+  .lines {
+    min-width: 100%;
+    position: relative;
+    z-index: 1;
+  }
+
+  .line {
+    white-space: pre;
+
+    &.cursor-line .fold-marker:after {
+      opacity: 1;
+    }
+  }
+
+  .fold-marker {
+    cursor: default;
+
+    &:after {
+      .icon(0.8em, inline);
+
+      content: @ellipsis;
+      padding-left: 0.2em;
+    }
+  }
+
+  .placeholder-text {
+    position: absolute;
+    color: @text-color-subtle;
+  }
+
+  .invisible-character {
+    font-weight: normal !important;
+    font-style: normal !important;
+  }
+
+  .indent-guide {
+    box-shadow: inset 1px 0;
+  }
+
+  .hidden-input {
+    padding: 0;
+    border: 0;
+    position: absolute;
+    z-index: -1;
+    top: 0;
+    left: 0;
+    opacity: 0;
+    width: 1px;
+  }
+
+  .cursor {
+    z-index: 4;
+    pointer-events: none;
+    box-sizing: border-box;
+    position: absolute;
+    border-left: 1px solid;
+    opacity: 0;
+  }
+
+  &.is-focused .cursor {
+    opacity: 1;
+  }
+
+  .cursors.blink-off .cursor {
+    opacity: 0;
+  }
+
+  .horizontal-scrollbar {
+    position: absolute;
+    left: 0;
+    right: 0;
+    bottom: 0;
+
+    height: 15px;
+    overflow-x: auto;
+    overflow-y: hidden;
+    z-index: 3;
+    cursor: default;
+
+    .scrollbar-content {
+      height: 15px;
+    }
+  }
+
+  .vertical-scrollbar {
+    position: absolute;
+    top: 0;
+    right: 0;
+    bottom: 0;
+
+    width: 15px;
+    overflow-x: hidden;
+    overflow-y: auto;
+    z-index: 3;
+    cursor: default;
+  }
+
+  .scrollbar-corner {
+    position: absolute;
+    overflow: auto;
+    bottom: 0;
+    right: 0;
+  }
+}

static/text-editor-shadow.less

@@ -2,26 +2,154 @@
 @import "octicon-utf-codes";
 @import "octicon-mixins";
 
-.editor-contents {
-  width: 100%;
-}
-
-.editor.shadow, .editor.shadow .editor-contents {
+.editor--private, .editor-contents--private {
   height: 100%;
   width: 100%;
 }
 
+.editor-contents--private {
+  width: 100%;
+  overflow: hidden;
+  cursor: text;
+  display: -webkit-flex;
+  -webkit-user-select: none;
+  position: relative;
+}
+
+.gutter {
+  overflow: hidden;
+  text-align: right;
+  cursor: default;
+  min-width: 1em;
+  box-sizing: border-box;
+}
+
+.line-numbers {
+  position: relative;
+}
+
+.line-number {
+  white-space: nowrap;
+  padding-left: .5em;
+  opacity: 0.6;
+
+  &.cursor-line {
+    opacity: 1;
+  }
+
+  .icon-right {
+    .octicon(chevron-down, 0.8em);
+    display: inline-block;
+    visibility: hidden;
+    opacity: .6;
+    padding: 0 .4em;
+
+    &:before {
+      text-align: center;
+    }
+  }
+}
+
+.gutter:hover {
+  .line-number.foldable .icon-right {
+    visibility: visible;
+
+    &:hover {
+      opacity: 1;
+    }
+  }
+}
+
+.gutter, .gutter:hover {
+  .line-number.folded .icon-right {
+    .octicon(chevron-right, 0.8em);
+
+    visibility: visible;
+
+    &:before {
+      position: relative;
+      left: -.1em;
+    }
+  }
+}
+
+.scroll-view {
+  position: relative;
+  z-index: 0;
+
+  overflow: hidden;
+  -webkit-flex: 1;
+  min-width: 0;
+}
+
 .underlayer {
   position: absolute;
+  z-index: -2;
   top: 0;
   bottom: 0;
   left: 0;
   right: 0;
-  z-index: -2;
+}
+
+.highlight {
+  background: none;
+  padding: 0;
+}
+
+.highlight .region {
+  position: absolute;
+  pointer-events: none;
+  z-index: -1;
 }
 
 .lines {
   min-width: 100%;
+  position: relative;
+  z-index: 1;
+}
+
+.line {
+  white-space: pre;
+
+  &.cursor-line .fold-marker:after {
+    opacity: 1;
+  }
+}
+
+.fold-marker {
+  cursor: default;
+
+  &:after {
+    .icon(0.8em, inline);
+
+    content: @ellipsis;
+    padding-left: 0.2em;
+  }
+}
+
+.placeholder-text {
+  position: absolute;
+  color: @text-color-subtle;
+}
+
+.invisible-character {
+  font-weight: normal !important;
+  font-style: normal !important;
+}
+
+.indent-guide {
+  box-shadow: inset 1px 0;
+}
+
+.hidden-input {
+  padding: 0;
+  border: 0;
+  position: absolute;
+  z-index: -1;
+  top: 0;
+  left: 0;
+  opacity: 0;
+  width: 1px;
 }
 
 .cursor {
@@ -33,7 +161,7 @@
   opacity: 0;
 }
 
-.is-focused .cursor {
+&.is-focused .cursor {
   opacity: 1;
 }
 
@@ -77,180 +205,3 @@
   bottom: 0;
   right: 0;
 }
-
-.scroll-view {
-  overflow: hidden;
-  z-index: 0;
-  -webkit-flex: 1;
-  min-width: 0;
-  position: relative;
-}
-
-.gutter {
-  .line-number {
-    white-space: nowrap;
-    padding-left: .5em;
-
-    .icon-right {
-      padding: 0 .4em;
-      &:before {
-        text-align: center;
-      }
-    }
-  }
-}
-
-.placeholder-text {
-  position: absolute;
-  color: @text-color-subtle;
-}
-
-.editor {
-  z-index: 0;
-}
-
-.editor, .editor-contents {
-  overflow: hidden;
-  cursor: text;
-  display: -webkit-flex;
-  -webkit-user-select: none;
-  position: relative;
-}
-
-.gutter .line-number.cursor-line {
-  opacity: 1;
-}
-
-.gutter {
-  overflow: hidden;
-  text-align: right;
-  cursor: default;
-  min-width: 1em;
-  box-sizing: border-box;
-}
-
-.gutter .line-number {
-  padding-left: .5em;
-  opacity: 0.6;
-}
-
-.gutter .line-numbers {
-  position: relative;
-}
-
-.gutter .line-number.folded.cursor-line {
-  opacity: 1;
-}
-
-.gutter .line-number .icon-right {
-  .octicon(chevron-down, 0.8em);
-  display: inline-block;
-  visibility: hidden;
-  padding-left: .1em;
-  padding-right: .5em;
-  opacity: .6;
-}
-
-.gutter:hover .line-number.foldable .icon-right {
-  visibility: visible;
-
-  &:before {
-    content: @chevron-down;
-  }
-
-  &:hover {
-    opacity: 1;
-  }
-}
-
-.gutter, .gutter:hover {
-  .line-number.folded .icon-right {
-    .octicon(chevron-right, 0.8em);
-    visibility: visible;
-
-    &:before { // chevron-right renders too far right compared to chevron-down
-      position: relative;
-      left: -.1em;
-      content: @chevron-right;
-    }
-  }
-}
-
-.fold-marker {
-  cursor: default;
-}
-
-.fold-marker:after {
-  .icon(0.8em, inline);
-  content: @ellipsis;
-  padding-left: 0.2em;
-}
-
-.line.cursor-line .fold-marker:after {
-  opacity: 1;
-}
-
-.editor.is-blurred .line.cursor-line {
-  background: rgba(0, 0, 0, 0);
-}
-
-.invisible-character {
-  font-weight: normal !important;
-  font-style: normal !important;
-}
-
-.indent-guide {
-  display: inline-block;
-  box-shadow: inset 1px 0;
-}
-
-.editor.soft-wrap .scroll-view {
-  overflow-x: hidden;
-}
-
-.underlayer {
-  z-index: 0;
-  position: absolute;
-  min-height: 100%;
-}
-
-.lines {
-  position: relative;
-  z-index: 1;
-}
-
-.overlayer {
-  z-index: 2;
-  position: absolute;
-}
-
-.line {
-  white-space: pre;
-}
-
-.line span {
-  vertical-align: top;
-}
-
-.hidden-input {
-  padding: 0;
-  border: 0;
-  position: absolute;
-  z-index: -1;
-  top: 0;
-  left: 0;
-  opacity: 0;
-  width: 1px;
-}
-
-.highlight {
-  background: none;
-  padding: 0;
-}
-
-.highlight .region,
-.selection .region {
-  position: absolute;
-  pointer-events: none;
-  z-index: -1;
-}