Enforce repository size limit across all projects and groups, includes LFS objects in that limit.

Limit can be set globally, and overridden per group, and/or project.

Backend functionality is there and comprehensive tests are included, but there is still some frontend work to be done and documentation to be added. I'm submitting early for review as we are close to the release.

@DouweM @dbalexandre I'd appreciate it if you both could start with the review while I finish the documentation and the missing frontend parts.

/cc @JobV @regisF 

Fixes #559

Replaces gitlab-org/gitlab-ce!6020

## Screenshots (see gitlab-org/gitlab-ce!6020 for more)

![Screen_Shot_2016-09-18_at_9.55.38_PM](/uploads/66eeaced1f27c7e2115feaa4775a6e99/Screen_Shot_2016-09-18_at_9.55.38_PM.png)

![Screen_Shot_2016-09-18_at_9.57.12_PM](/uploads/d811d6c184044df527bd2f81cff651ce/Screen_Shot_2016-09-18_at_9.57.12_PM.png)

![Screen_Shot_2016-09-18_at_9.58.03_PM](/uploads/a2c5b2695454dda639537304a1bcd99b/Screen_Shot_2016-09-18_at_9.58.03_PM.png)

![Screen_Shot_2016-09-19_at_1.44.19_PM](/uploads/4cc6cca7536787bde49c0b086086cbcb/Screen_Shot_2016-09-19_at_1.44.19_PM.png)

See merge request !740

Merge branch 'repository-size-restrictions' of gitlab.com:gitlab-org/gitlab-ee into repository-size-restrictions

# Conflicts:
#   lib/gitlab/git_access.rb

8-12-stable-ee to EE



See merge request !747

Fixes protected branches not removing active item

/cc @alfredo1 @lbennett

See merge request !746

Disable default access level in protected branch spec

EE protected branches allow for multiple push and merge access levels per branch, whereas CE protected branches only allow one level per branch. The `ProtectedBranch` factory was by default adding Master access by default. This fix forces the spec to use one access level.


See merge request !745

It was accidentally intropduced when doing a cherry-pick of a merge
request commit.

Conflicts:
	VERSION
	doc/api/projects.md
	lib/api/groups.rb
	lib/api/projects.rb
	spec/lib/gitlab/backend/shell_spec.rb
	spec/models/repository_spec.rb

Add more usage data to EE ping

This MR loads the EE usage ping asynchronously on the admin application settings page and now includes the counts of the following items:

* Comments
* Groups
* Users
* Projects
* Issues
* Labels
* CI builds
* Snippets
* Milestones
* Todos
* Pushes
* Merge requests
* Environments
* Triggers
* Deploy keys
* Pages
* Project Services
* Issue Boards
* CI Runners
* Deployments
* Geo Nodes
* LDAP Groups
* LDAP Keys
* LDAP Users
* LFS objects
* Protected branches
* Releases
* Remote mirrors
* Web hooks

Closes #997

See merge request !735

Fix branch title trailing space on hover

## What does this MR do?
Removes the unnecessary encapsulation of the `<span>` inside of the `<a>` which was creating the trailing space on hover. 

## Are there points in the code the reviewer needs to double check?
Shouldn't be

## Why was this MR needed?
Makes the UI look more polished

## What are the relevant issue numbers?
Closes #20676 

## Screenshots (if relevant)
Before (When hovering on branch title):
![Screen_Shot_2016-08-05_at_2.54.43_PM](/uploads/1c90ae1ed69268a2fdcdafdede267028/Screen_Shot_2016-08-05_at_2.54.43_PM.png)

After (When hovering on branch title):
![Screen_Shot_2016-08-05_at_2.54.19_PM](/uploads/6eab261a343e7acb6223ed205443b644/Screen_Shot_2016-08-05_at_2.54.19_PM.png)

## Does this MR meet the acceptance criteria?

- [x] [CHANGELOG](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/CHANGELOG) entry added
- Tests
  - [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 !5688

Add delimiter to project stars and forks count

## What does this MR do?
Adds the `number_with_delimiter()`to the project stars and fork counts on the projects dashboard.

## Are there points in the code the reviewer needs to double check?
Shouldn't be any 😃  

## Why was this MR needed?
Improve readability and adhere to the [UI guide](https://gitlab.com/help/development/ui_guide.md#counts)

## What are the relevant issue numbers?
Closes #20746 

## Screenshots (if relevant)
Before:
![Screen_Shot_2016-08-09_at_1.30.44_PM](/uploads/69592ce220d64774e265cfbcfcb6864a/Screen_Shot_2016-08-09_at_1.30.44_PM.png)

After:
![Screen_Shot_2016-08-09_at_1.30.58_PM](/uploads/1470179256614c2e47cc9d0e49aeaf09/Screen_Shot_2016-08-09_at_1.30.58_PM.png)

## Does this MR meet the acceptance criteria?

- [x] [CHANGELOG](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/CHANGELOG) entry added
- Tests
  - [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 !5741

Fix issues with wrong issues/merge request counts when filters are selected

Closes #15356 plus counter for issues and MR are now displayed for the these paths `https://gitlab.com/groups/group-name/issues`  `https://gitlab.com/groups/group-name/merge_requests`  `https://gitlab.com/dashboard/issues` and  `https://gitlab.com/dashboard/merge_requests`

See merge request !4960

Security and safety improvements for gitlab-workhorse integration

Companion to https://gitlab.com/gitlab-org/gitlab-workhorse/merge_requests/60

- Use a custom content type when sending data to gitlab-workhorse
- Verify (using JWT and a shared secret on disk) that internal API requests came from gitlab-workhorse

This will allow us to build features in gitlab-workhorse that require
more trust, and protect us against programming mistakes in the future.

This is designed so that no action is required for installations from
source. For omnibus-gitlab we need to add code that manages the shared
secret.

See merge request !5907
Conflicts:
	GITLAB_WORKHORSE_VERSION
	doc/install/installation.md
	doc/update/8.11-to-8.12.md
	lib/gitlab/workhorse.rb
	spec/lib/gitlab/workhorse_spec.rb
	spec/requests/ci/api/builds_spec.rb
	spec/requests/git_http_spec.rb

Add more usage data to EE ping

This MR loads the EE usage ping asynchronously on the admin application settings page and now includes the counts of the following items:

* Comments
* Groups
* Users
* Projects
* Issues
* Labels
* CI builds
* Snippets
* Milestones
* Todos
* Pushes
* Merge requests
* Environments
* Triggers
* Deploy keys
* Pages
* Project Services
* Issue Boards
* CI Runners
* Deployments
* Geo Nodes
* LDAP Groups
* LDAP Keys
* LDAP Users
* LFS objects
* Protected branches
* Releases
* Remote mirrors
* Web hooks

Closes #997

See merge request !735

Allow the Rails cookie to be used for API authentication

Makes the Rails cookie into a valid authentication token for the Grape
API, and uses it instead of token authentication in frontend code that
uses the API.

Rendering the private token into client-side javascript is a security
risk; it may be stolen through XSS or other attacks. In general,
re-using API code in the frontend is more desirable than implementing
endless actions that return JSON. 

Closes #18302

See merge request !1995

Limit can be set globally, and overridden per group, and/or project.

Allow to set request_access_enabled for groups and projects using API

Closes #20978

See merge request !6359

Only create a protected branch upon a push to a new branch if a rule for that branch doesn't exist

A customer ran into an issue where a Sidekiq task retried over and over, leading to duplicate master branches in their protected branch list.
    
Closes #22177

See merge request !6399

Fixes labels multi-encode and selecting labels with single quotes

## What does this MR do?

Replaced single quotes with escaped single quotes when setting item `.is-active` and when removing its field.

Adds a test to test selecting 2 different labels _(one with a single quote)_ with a full page load inbetween, it checks the labels are selected as well as shown as `.is-active` in the list.

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



## Why was this MR needed?

The javascript handles the url encoding when it is sent to the server so we shouldn't let the javascript begin processing an already encoded string but we needed to stop single quotes from breaking a jquery selector.

## Screenshots (if relevant)

https://youtu.be/-H0_L2hV9tM

## 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 [merge request performance guides](http://docs.gitlab.com/ce/development/merge_request_performance_guidelines.html)
- [ ] 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)

## What are the relevant issue numbers?

Closes #21961

Closes #21880

Closes #21248

Closes #20759

Closes #21935

See merge request !6313

Improve build trace scroll controls

## What does this MR do?

The trace step buttons now correctly scroll to the top or bottom of the build trace, rather than jumping inconsistently and never full reaching the top due to the fixed position of the header/navigation area.

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

## Why was this MR needed?

Build trace UX

## Screenshots (if relevant)

![2016-09-09_20.04.32](/uploads/efee5145fb505f8c9ae2a4cf24d842d3/2016-09-09_20.04.32.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 [merge request performance guides](http://docs.gitlab.com/ce/development/merge_request_performance_guidelines.html)
- [ ] 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)

## What are the relevant issue numbers?

Contributes to #21832.

See merge request !6288

Prevent secrets being pushed into repository

implements  #385  

Scan file names on each commit to prevent secrets being pushed into repository  

https://gitlab.com/gitlab-org/gitlab-ee/uploads/455b598caf475d6c261f271205fe2150/Screen_Shot_2016-09-08_at_20.10.02.png

See merge request !731

Fixed large comments messing with diff table widths

## What does this MR do?

Fixes the width of the diff table so that the content inside it can't increase or decrease the width of the table cells.

## Screenshots (if relevant)

![Screen_Shot_2016-09-12_at_14.44.44](/uploads/2ca483399d867153e6ae608360ffea5f/Screen_Shot_2016-09-12_at_14.44.44.png)

## What are the relevant issue numbers?

Closes #20694

See merge request !6309

Ensure invitees are not returned in Members API

## What are the relevant issue numbers?

Closes #22065

See merge request !6370

Use gitlab-workhorse 0.8.2

Fixes rejected API git archive extensions; improves Sentry errors.

https://gitlab.com/gitlab-org/gitlab-workhorse/blob/master/CHANGELOG

See merge request !6388

Fix broken spec due to last_activity_at updates being throttled

In https://gitlab.com/gitlab-org/gitlab-ce/builds/4218398, the build failed because the last_activity_at column was only being updated once per hour. We
can fix this spec by stubbing out the throttling and adjusting the spec to test the right event timestamp.

See merge request !6424

Strip comments before sending keys to gitlab-shell

## Why was this MR needed?

https://gitlab.com/gitlab-org/gitlab-ce/issues/22167 encoding issues in comment text.

## What are the relevant issue numbers?

https://gitlab.com/gitlab-org/gitlab-ce/issues/22167

See merge request !6381

Hide jump to next discussion button on commit notes

## What are the relevant issue numbers?

Closes #22354

See merge request !6428

Fix "Unsubscribe" link in notification emails that is triggered by anti-virus

## What does this MR do?

* The unsubscribe link in an email body only unsubscribes automatically when logged in, otherwise the user is asked for a confirmation.
* The unsubscribe link in an email header unsubscribes automatically whether logged in or not.

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

This addresses all the comments from https://gitlab.com/gitlab-org/gitlab-ce/merge_requests/5241, I think!

## Why was this MR needed?

People were getting unsubscribed automatically by AV software.

## Screenshot

![Screen_Shot_2016-09-20_at_09.51.30](/uploads/083ee2865f1ad6c08e2ed97f1c4e7d0d/Screen_Shot_2016-09-20_at_09.51.30.png)

## Does this MR meet the acceptance criteria?

- [x] [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 [merge request performance guides](http://docs.gitlab.com/ce/development/merge_request_performance_guidelines.html)
- [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)

## What are the relevant issue numbers?

Fixes #17198.

See merge request !6223

Lets the user choose a namespace and name on Github imports

Fixes https://gitlab.com/gitlab-org/gitlab-ce/issues/14971

See merge request !5728

Use a ConnectionPool for Rails.cache on Sidekiq servers

See merge request !6429

Restrict last_activity_at updates to one per hour

This MR reduces the number of updates to `projects.last_activity_at` to once per hour.

Closes https://gitlab.com/gitlab-org/gitlab-ce/issues/22213

See merge request !6391

LFS support for ssh enabled

## What does this MR do?
This is follow-up after https://gitlab.com/gitlab-org/gitlab-ce/merge_requests/6043 which is falsely shown as merged due to: https://gitlab.com/gitlab-org/gitlab-ce/issues/22334

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

## Why was this MR needed?

## Screenshots (if relevant)

## 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 [merge request performance guides](http://docs.gitlab.com/ce/development/merge_request_performance_guidelines.html)
- [ ] 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)

## What are the relevant issue numbers?

See merge request !6413