Allow to fetch LFS from CI

## What does this MR do?

This adds support for fetching LFS object from CI jobs (mostly it's made for supporting GitLab CI).

## What is left?

- [x] Write tests covering a new authorization mechanism

cc @grzesiek @marin

See merge request !4465

Set missing stages on ci builds to 'test' to avoid regressions in the pipelines view

## What does this MR do?

Sets a default stage on old `ci_builds`.

## Are there points in the code the reviewer needs to double check?

Is the migration acceptable for online execution?

## Why was this MR needed?

Old `ci_builds`with no stages cause a regression on the pipelines index view.

## What are the relevant issue numbers?

#17949 

Blocked by https://gitlab.com/gitlab-org/gitlab-ce/merge_requests/4680


See merge request !4381

Add notification_settings:events to schema

See merge request !4800

Display Star and Fork on mobile, fix #18537.

## What does this MR do?

Displays the Star and Fork buttons on mobile devices.

## Are there points in the code the reviewer needs to double check?

Nope.

## Why was this MR needed?

I wanted to star and/or fork projects while on my phone, I couldn't do that before.

## What are the relevant issue numbers?

#18537 

## Screenshots (if relevant)

![Screen_Shot_2016-06-16_at_11.41.24_AM](/uploads/053ac0c1b39a7b1b30fffb0a8d43cffb/Screen_Shot_2016-06-16_at_11.41.24_AM.png)

cc: @jschatz1 

See merge request !4714

Toggle whitespace button for compare page

## What does this MR do?

Adds whitespace button to compare branches page.

## Are there points in the code the reviewer needs to double check?

Ruby code.

## Why was this MR needed?

Compare branches UX

## What are the relevant issue numbers?

Closes #17881.

## Screenshots (if relevant)

![Screen_Shot_2016-06-09_at_18.39.48](/uploads/8995a7bc8bea7fa3ff19446ebe49fb88/Screen_Shot_2016-06-09_at_18.39.48.png)

## Does this MR meet the acceptance criteria?

- [x] [CHANGELOG](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/CHANGELOG) entry added
- [ ] [Documentation created/updated](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/doc/development/doc_styleguide.md)
- [ ] API support added
- [ ] Tests
  - [ ] Added for this feature/bug
  - [ ] All builds are passing
- [x] Conform by the [style guides](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/CONTRIBUTING.md#style-guides)
- [x] Branch has no merge conflicts with `master` (if you do - rebase it please)
- [x] [Squashed related commits together](https://git-scm.com/book/en/Git-Tools-Rewriting-History#Squashing-Commits)

See merge request !4569

Fixes item icon state when for issues that have the same labels assigned

## What does this MR do?
Previously if all issues had the same labels the dropdown was showing the labels with indeterminate stated which is wrong. This MR fixes that and shows the correct state.

## What are the relevant issue numbers?
Fixes #18714

## Screenshots (if relevant)

**Before**

![label-before](/uploads/c65aa051e773dfea898a0d19767d6ade/label-before.gif)

**After**

![label](/uploads/73fd657d104d1081e189e0a9547d483b/label.gif)

## Does this MR meet the acceptance criteria?

- [ ] [CHANGELOG](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/CHANGELOG) entry added
- [ ] [Documentation created/updated](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/doc/development/doc_styleguide.md)
- [ ] API support added
- [ ] Tests
  - [ ] Added for this feature/bug
  - [ ] All builds are passing
- [ ] Conform by the [style guides](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/CONTRIBUTING.md#style-guides)
- [x] Branch has no merge conflicts with `master` (if you do - rebase it please)
- [ ] [Squashed related commits together](https://git-scm.com/book/en/Git-Tools-Rewriting-History#Squashing-Commits)

See merge request !4721

Set path for pinned nav cookie

## What does this MR do?

Sets a path for the pinned nav cookie so it will be present across page reload.

Closes #18836 

See merge request !4784

Fixed placement of close button on merge requests

## What does this MR do?

Fixes the order in which the MR buttons appear

## Screenshots (if relevant)

![Screen_Shot_2016-06-18_at_21.41.38](/uploads/66a88ebc287b7c21160af193ee9de54c/Screen_Shot_2016-06-18_at_21.41.38.png)

![Screen_Shot_2016-06-18_at_21.41.44](/uploads/ba8f6776d79f4eb0af7877c3c71fbb54/Screen_Shot_2016-06-18_at_21.41.44.png)


See merge request !4778

Document environments and deployments

## What does this MR do?

Adds an introduction to environments and deployments and tweaks the `environments` entry in `.gitlab-ci.yml` documentation.

## Are there points in the code the reviewer needs to double check?

## Why was this MR needed?

## What are the relevant issue numbers?

Closes #18683.

## Screenshots (if relevant)

![image](/uploads/1e3355c543abaf7b358f3c37596b1f0b/image.png)

![image](/uploads/58a51505674bcf605039db46833a8ae6/image.png)

/cc @ayufan @axil 

See merge request !4725

Move part of admin area navigation from tabs into settings dropdown

Partly fix https://gitlab.com/gitlab-org/gitlab-ce/issues/18799 

See merge request !4796

Avoid autoload issue such as 'Mail::Parsers::AddressStruct'

This is mostly a shot in the dark but at least it shouldn't break anything.

Fixes #18810.

See merge request !4793

Remove Duplicated keys adding UNIQUE index to fingerprint

See merge request !4787

Fixed a couple of errors on import/export spotted in production

Fixes https://gitlab.com/gitlab-org/gitlab-ce/issues/18828 and https://gitlab.com/gitlab-org/gitlab-ce/issues/18829

A couple of tiny bugs spotted after deploying in prod

See merge request !4782

Fix RangeError exceptions when referring to issues or merge requests outside of max database values

When using #XYZ in Markdown text, if XYZ exceeds the maximum value of a signed 32-bit integer, we get an exception when the Markdown render attempts to run `where(iids: XYZ)`. Introduce a method that will throw out out-of-bounds values.
    
Closes #18777

See merge request !4777

Grammar tweaks

## What does this MR do?

* Updates grammar in recent CI documentation.

## Are there points in the code the reviewer needs to double check?

## Why was this MR needed?

Because grammar.

## What are the relevant issue numbers?

Needed because of !4200 and !4201.

## Screenshots (if relevant)


See merge request !4772

Add merge request data to the progress information on Milestones pages.

## What does this MR do?

Adds data about merge requests to the Milestone show view. It previously only showed something like `3 issues: 2 open and 1 closed 20% complete`, now it shows `3 issues: 2 open and 1 closed 2 merge requests: 2 open and 0 merged 20% complete`.

## Are there points in the code the reviewer needs to double check?

I don't think so.

## Why was this MR needed?

The milestone progress % didn't accurately reflect the open/merged MRs.

## What are the relevant issue numbers?

Fixes #13980

## Screenshots (if relevant)

Before:

![Screen_Shot_2016-06-16_at_2.12.57_PM](/uploads/99a044ea918b23fe93cef3305c21086e/Screen_Shot_2016-06-16_at_2.12.57_PM.png)

After:

![Screen_Shot_2016-06-16_at_2.12.38_PM](/uploads/be17e723b9c9bbe33099d1f0e94192d0/Screen_Shot_2016-06-16_at_2.12.38_PM.png)

## Does this MR meet the acceptance criteria?

- [x] [CHANGELOG](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/CHANGELOG) entry added
- [x] All builds are passing
- [x] Conform by the [style guides](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/CONTRIBUTING.md#style-guides)
- [x] Branch has no merge conflicts with `master` (if you do - rebase it please)
- [x] [Squashed related commits together](https://git-scm.com/book/en/Git-Tools-Rewriting-History#Squashing-Commits)

cc: @jschatz1

See merge request !4719

New Project page improvements for mobile

## What does this MR do?

Redesigns the "Project path" fields on the New Project page.

## Are there points in the code the reviewer needs to double check?

Not that I know of, nothing I changed should break any other pages.

## Why was this MR needed?

The new project page was unusable on mobile because the project name text field didn't have enough space.

## What are the relevant issue numbers?

Fixes #18599.

## Screenshots (if relevant)

Before:

![Screen_Shot_2016-06-15_at_12.38.58_PM](/uploads/046a824b283e24266cabc9ea3dfb169c/Screen_Shot_2016-06-15_at_12.38.58_PM.png)

After:

![Screen_Shot_2016-06-15_at_12.37.19_PM](/uploads/6d01310192965b413bfedd9c8d2129f7/Screen_Shot_2016-06-15_at_12.37.19_PM.png)

![Screen_Shot_2016-06-15_at_12.37.28_PM](/uploads/3944a0f0ab04373ec92f7cafe90872df/Screen_Shot_2016-06-15_at_12.37.28_PM.png)

## Does this MR meet the acceptance criteria?

- [ ] [CHANGELOG](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/CHANGELOG) entry added
- [ ] Tests
  - [x] Added for this feature/bug
  - [ ] All builds are passing
- [x] Conform by the [style guides](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/CONTRIBUTING.md#style-guides)
- [ ] Branch has no merge conflicts with `master` (if you do - rebase it please)
- [ ] [Squashed related commits together](https://git-scm.com/book/en/Git-Tools-Rewriting-History#Squashing-Commits)

cc: @jschatz1 @dzaporozhets 

See merge request !4687

Limit push email diff size

Restrict the size of diffs in push emails to 30 lines / 150 KB (whichever is smaller),
following https://gitlab.com/gitlab-org/gitlab_git/merge_requests/85.

Emails on push can get very large if they contain a lot of files that sneak under the single-file limit.

https://gitlab.com/gitlab-org/gitlab-ee/issues/490

See merge request !4566

Fix margin & padding on activity btn

## What does this MR do?
Fixes alignment of activity btn

## What are the relevant issue numbers?
Closes #18762 

## Screenshots (if relevant)
![Screen_Shot_2016-06-17_at_9.29.06_AM](/uploads/4ab9fb33d450dda72811a5ce2570b8c7/Screen_Shot_2016-06-17_at_9.29.06_AM.png)


See merge request !4750

Move admin->runners tab as subnav of overview tab

cc @annabeldunstone 

See merge request !4716

Fixed alignment of buttons in note forms

## What does this MR do?

Due to a CSS change on some buttons, the alignment of the save button on the note form went off. Also, it made no sense to have `.btn-grouped` as the button wasn't in a group.

## Screenshots (if relevant)

![Screen_Shot_2016-06-17_at_11.43.33](/uploads/5d9037a48ff6179fc906bdf0c6d5ff47/Screen_Shot_2016-06-17_at_11.43.33.png)

![Screen_Shot_2016-06-17_at_11.43.43](/uploads/8b130a25e8f73e79578d38f5f7aff4fb/Screen_Shot_2016-06-17_at_11.43.43.png)


See merge request !4740

Fixed tooltip placement on edit tags button

## What does this MR do?

Moves the placement of the tooltip to the body so not to affect the movement of the button.

## Screenshots (if relevant)

Old:

![tooltip-old](/uploads/9ecb9bb919578881994698cd8b1d1826/tooltip-old.gif)

New:

![tooltip-new](/uploads/66f90cf95c2ee4001bfa3c65b9de8c05/tooltip-new.gif)


See merge request !4737

Fixed size of buttons in branches list

## What does this MR do?

The buttons on the branch list were using `btn-xs` this MR removes that so the buttons are a normal size to match https://gitlab.com/gitlab-org/gitlab-ce/tags

## What are the relevant issue numbers?

#18677 

## Screenshots (if relevant)

![Screen_Shot_2016-06-17_at_10.38.31](/uploads/19fc173e3f549a84bb14517613403792/Screen_Shot_2016-06-17_at_10.38.31.png)

See merge request !4735

Aligns create merge request button vertically

## What does this MR do?

Based on https://gitlab.com/gitlab-org/gitlab-ce/merge_requests/4644#note_12507178 I have vertically aligned the button correctly.

## Screenshots (if relevant)

Here is my awesome screenshot to show it is centered vertically 

![Screen_Shot_2016-06-17_at_10.17.19](/uploads/e7bf5bcc5b254ed4db376c16460d79a5/Screen_Shot_2016-06-17_at_10.17.19.png)

See merge request !4733

Ci scala example

## What does this MR do?

Add a scala CI example.

## Why was this MR needed?

Supersedes https://gitlab.com/gitlab-org/gitlab-ce/merge_requests/2984

See merge request !4774

Hide tooltip manually

## What does this MR do?
Fixes an issue with tooltips not dissapearing  on Firefox after toggling label priority

## What are the relevant issue numbers?
Closes #18707

## Screenshots (if relevant)

**Test on Firefox**

![label-firefox](/uploads/09ed05f81b9861d666e5d9ad805fb501/label-firefox.gif)
## Does this MR meet the acceptance criteria?

- [ ] [CHANGELOG](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/CHANGELOG) entry added
- [ ] [Documentation created/updated](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/doc/development/doc_styleguide.md)
- [ ] API support added
- [ ] Tests
  - [ ] Added for this feature/bug
  - [x] All builds are passing
- [x] Conform by the [style guides](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/CONTRIBUTING.md#style-guides)
- [x] Branch has no merge conflicts with `master` (if you do - rebase it please)
- [x] [Squashed related commits together](https://git-scm.com/book/en/Git-Tools-Rewriting-History#Squashing-Commits)

See merge request !4715

# Conflicts:
#	app/controllers/projects/todos_controller.rb

Ensure that group owner cannot request access to a project of their group

## What does this MR do?

It fixes two things:

- 91ad995d69e1a0f8991fd896f1d9febc109273fe Ensure that group owner cannot request access to a project of their group
- ec3ff061148d556757e7cd486cdc6083d77acf34 Ensure group/project owners can see their members' access_level (see the commit message for details)

## Are there points in the code the reviewer needs to double check?

Not really, these are pretty simple fixes.

## Why was this MR needed?

Because there was an issue created!

## What are the relevant issue numbers?

Fixes #18717.

## Does this MR meet the acceptance criteria?

- [x] CHANGELOG is not needed since the bug is only present in a 8.9 RC
- [x] Tests
  - [x] Added for this feature/bug
  - [x] All builds are passing
- [x] Conform by the [style guides](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/CONTRIBUTING.md#style-guides)
- [x] Branch has no merge conflicts with `master` (if you do - rebase it please)
- [x] [Squashed related commits together](https://git-scm.com/book/en/Git-Tools-Rewriting-History#Squashing-Commits)

See merge request !4729

Avoid that GitHub import fails when retrieving Webhooks for non GitHub admins

Closes #18729 

See merge request !4723

API endpoints for award emoji

Closes #10884 

See merge request !4575

Implement custom notification level options

![Screen_Shot_2016-06-17_at_15.31.43](/uploads/3fc47d2f461b3e8b67bb8acaa304cf99/Screen_Shot_2016-06-17_at_15.31.43.png)

![Screenshot_from_2016-06-15_10-52-27](/uploads/88dbdd21d97e80ee772fe08fa0c9b393/Screenshot_from_2016-06-15_10-52-27.png)

part of #12758 

See merge request !4389

Fixed issue with assignee dropdown not selecting correctly

## What does this MR do?

Fixes an issue with assignee dropdown not selecting correctly.

See merge request !4762

Do not check repos without push events

Reduce false positives from automatic repository checks by skipping
projects without push events.

See merge request !4684

Ensure Todos counters doesn't count Todos for projects pending delete

Use `TodosFinder` instead of `current_user.todos` to filter projects
pending delete on Todos counters helpers.

Counters should not reflect the number of Todos displayed on the tabs.

Fixes #18633

See merge request !4663

Disable the unlink feature for SAML connected accounts (social login).

This disables the ability to manually unlink your SAML account, if you have one connected. In certain scenarios, the only allowed login mechanism can be SAML, and if you unlink your account you will be locked out of the system (configuration dependent).

Fixes #18613

See merge request !4662

Cache todo counters (pending/done)

See merge request !4438

Fix a 'wrong number of arguments' error

## What does this MR do?

Fixes #18745.

## Are there points in the code the reviewer needs to double check?

No.

## Why was this MR needed?

To fix #18745.

## What are the relevant issue numbers?

Fixes #18745.

## Does this MR meet the acceptance criteria?

- [ ] Tests
  - [ ] All builds are passing
- [x] Conform by the [style guides](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/CONTRIBUTING.md#style-guides)
- [x] Branch has no merge conflicts with `master` (if you do - rebase it please)
- [x] [Squashed related commits together](https://git-scm.com/book/en/Git-Tools-Rewriting-History#Squashing-Commits)

See merge request !4757

Track method call times/counts as a single metric

This changes method call tracking so only a single metric is emitted regardless of the number of calls. This allows us to more accurately measure the total execution time of a method as well as the number of times a method is called. See 851e3ff7578973c2206628424eac3b951a3c656d for more details.

Method call tracking tracked calls individually meaning the end statistics may not always be accurate enough to get a good understanding of where time is spent.

See merge request !4754

Fix error when editing an issuable with a task list

Closes #18712

See merge request !4751