[ci skip]

Increase project import timeout from 4 minutes to 15 minutes

Many users were experiencing timeouts when we only allowed
4 minutes before a timeout. A 15 minute timeout is more
than reasonable and prevents us from having to add a
configuration for this.

Fixes gitlab-org/gitlab-ee#246

## Import screenshot

![Screen_Shot_2016-02-04_at_1.45.20_PM](/uploads/d9d71ec953afae31e6fbe54a8932b945/Screen_Shot_2016-02-04_at_1.45.20_PM.png)


See merge request !2717

do not rename .aToM but only .atom projects in migration

Sorry @DouweM forgot to add this.

See https://gitlab.com/gitlab-org/gitlab-ce/merge_requests/2651/diffs#bc35672f73f4ee025132aee428f383acdf0f755e_0_51

Fixes https://gitlab.com/gitlab-org/gitlab-ce/issues/3699

See merge request !2712

See merge request !2752

Improve CI builds API specs

This modifies a CI Runners Builds API, to improve performance, and add few missing examples.
Extracted from !2560 (cherry-picked + extended).

cc @ayufan 

See merge request !2698

Fix timeout issue for rake task gitlab:backup:create

This is a fix for a database timeout which can occur when the backup
create task is taking very long (1-2 hours).
It seems that ActiveRecord is loosing the connection after a hour
idleness and need to be reconnected before use.

See merge request !2757

Fix CurrentSettings autoload bug in development

_Originally opened at !2526 by @huacnlee._

- - -

In development env, when we changed any file hit Rails reload, it will failed with this message:

```
A copy of Gitlab::CurrentSettings has been removed from the module tree but is still active
```

See merge request !2753

Fix grammar in installation requirements.

Fixes #13274

See merge request !2759

Fixes #13274

Fixed init.d script not working on OS X

-s flag of su doesn't work correctly on OS X, logging in as the user
and not running the requested command. By moving the bash shell init
inside the su command we avoid the issue

Fixes Issue #3309 

See merge request !1728

suppress error in init-script while determining canonical path of gitlab_workhorse_dir

fixes #12693 
fixes #12954

See merge request !2697

-s flag of su doesn't work correctly on some systems, loging in the user
and not running the requested command. By moving the bash shell init
inside the su command we avoid the issue

This caches the output of the following methods:

* Repository#empty?
* Repository#has_visible_content?
* Repository#root_ref

The cache for Repository#has_visible_content? is flushed whenever a
commit is pushed to a new branch or an existing branch is removed.
The cache for Repository#root_ref is only flushed whenever a user
changes the default branch of a project. The cache for Repository#empty?
is never explicitly flushed as there's no need for it.

Error: A copy of Gitlab::CurrentSettings has been removed from the module tree but is still active

Remember user's inline/tabular diff view preference in a cookie

_Originally opened at !1677 by @kkm._

---

As per #3071, some users (we have a local EE installation) prefer 2-column view in diff. In this MR I add an implementation for this feature, using a cookie.

Fixes #3071.

See merge request !2723

Rearrange some sections in CONTRIBUTING.md

- Move 'Merge request description format' and
  'Contribution acceptance criteria' under 'Merge requests'
- Link to doc_styleguide where appropriate
- Provide markdown template for merge requests

See merge request !2748

[ci skip]

Add table of contents in CONTRIBUTING.md



See merge request !2745

Clarify when JIRA service was backported to CE



See merge request !2744

[ci skip]

[ci skip]

Change logo image name in markdown documentation

Closes #13233

See merge request !2743

[ci skip]

fixed Windows commands in SSH Help.

The current commands shown don't work in Command Line, or PowerShell. Command Line doesn't recognize the `~` character as the home directory, the `<` character is reserved in PowerShell, and `cat` doesn't work in Command Line. This commit provides commands that will work for both the Command Line, and PowerShell.

See merge request !2694

Changed the project switcher dropdown toggle

Moved the positioning of the dropdown to be more aligned with the title

Closes #13219 and #13214 

cc. @jschatz1 @dzaporozhets 

See merge request !2733

Dedicated method for counting commits between refs

Corresponding gitlab_git merge request: https://gitlab.com/gitlab-org/gitlab_git/merge_requests/66
Issue that lead to these changes: https://gitlab.com/gitlab-org/gitlab-ce/issues/12619

See merge request !2707

[ci skip]

Feature/jschatz1/sidebar features

* Changes sidebar width (290px).
* Makes shortcuts for <kbd>j</kbd> and <kbd>k</kbd> keys for next and previous issues.

![Screen_Shot_2016-02-05_at_3.06.22_PM](/uploads/8590be43dc1b9feffd4f32b4e8cb7790/Screen_Shot_2016-02-05_at_3.06.22_PM.png)

cc/ @dzaporozhets 

See merge request !2734

Fix diff and commit view on merge requests

with new sidebar
Fixes #3981

See merge request !2718

Fixes for issue with poor logo transition animation on Safari

See merge request !2690

updates after code review: moved coffee code to appropriate file, updated css to not use js-prefixed selectors

Updated comments and Changelog

Removed duplicate line in changelog