Fix faulty deployment refs

In the 8.13 RC cycle, so before the release, there was a time in which
references in git where stored by id instead of iid. This could be fixed
by time, if the iid catches up with the id, it overwrites it. But in the
mean time we have wrong refs in the folder.

This commit fixes that. For all projects we have deployments we'll find
the ones where the ref has a higher number than the iid is now and calls
`#create_ref` on the corresponding deployment.

Fixes gitlab-com/infrastructure#683

cc @ayufan 

One worry: I tested this locally, couldn't find a way to do automate this.

See merge request !7352

Fix wrong link URL

See merge request !7554

Grammar fix in environments.md: s/base/basis

See merge request !7552

Resolve "Margins look weird in Project page with pinned sidebar in project stats bar"

## What does this MR do?
Fixes the margins of the project buttons in small screens and when the sidebar is pinned.

Both top and left margin were not aligned with the rest of the page.

## Screenshots (if relevant)
![Screen_Shot_2016-11-18_at_16.39.01](/uploads/9213cbbfba5fd4a57716c09d1807d2ea/Screen_Shot_2016-11-18_at_16.39.01.png)
![margins](/uploads/86bfad4fb48e67224e8bc8f9b8e38520/margins.gif)

## Does this MR meet the acceptance criteria?

- [x] [Changelog entry](https://docs.gitlab.com/ce/development/changelog.html) 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 [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 it does - 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?
Closes #24070

See merge request !7580

Fix focus state in preview tab

## What does this MR do?
Fixes the focus border in the preview tab by modifying the `line-height`, keeping the same height 🤸 

## Screenshots (if relevant)
![Screen_Shot_2016-11-18_at_18.35.36](/uploads/3ef96699194704f030cc8d2b5132226c/Screen_Shot_2016-11-18_at_18.35.36.png)

## Does this MR meet the acceptance criteria?

- [ ] [Changelog entry](https://docs.gitlab.com/ce/development/changelog.html) 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 [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 it does - 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?
Closes #24641

See merge request !7581

Improved Ruby code in autocomplete user search

## What does this MR do?

Improves the Ruby code for finding users in the assignee dropdown based on the Ruby review.

See merge request !7576

Fix migration missing ignored transaction method

Adds missing `disable_ddl_transaction!` to migration

See merge request !7569

Remove race condition while deleting groups

## What does this MR do?

The intended flow during a group deletion is:

```
  Soft-delete group (sync) -> Delete group projects (async) -> Hard-delete group (async)
```

The soft-delete was run in a transaction, which was committed only after
the async job (for hard-deletion) was kicked off. There was a race
condition here - the soft-delete transaction could complete _after_ the
hard delete completed, leaving a soft-deleted record in the database.

This MR removes this race condition. There is no need to run the
soft-delete in a transaction. The soft-delete completes before the async
job is kicked off.

This MR also adds a migration to delete all existing (soft-deleted) groups left in an inconsistent state
due to this bug.

- Closes #23223 
- EE merge request: gitlab-org/gitlab-ee!886

See merge request !7528

Fix missing URL from environments docs

See merge request !7542

500 error on project show when user is not logged in and project is still empty

## What does this MR do?

Aims to fix the 500 error when the project is empty and the user is not logged in and tries to access project#show

## Screenshots (if relevant)
When the project is empty and the user is not logged in we default to the empty project partial instead of readme.

![Screen_Shot_2016-11-11_at_22.54.21](/uploads/3d87e65195376c85d3e515e6d5a9a850/Screen_Shot_2016-11-11_at_22.54.21.png)

## Does this MR meet the acceptance criteria?

- [x] [Changelog entry](https://docs.gitlab.com/ce/development/changelog.html) added
- [x] [Documentation created/updated](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/doc/development/doc_styleguide.md)
- [x] API support added
- Tests
  - [x] Added for this feature/bug
  - [x] 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 it does - 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?

Closes #23990

See merge request !7376

JiraService: simplify url generation

Fixes #24085

See merge request !7307

Mention Git strategy none

See merge request !7530

Allows configuration of idle_timeout for incoming email.

https://gitlab.com/gitlab-org/omnibus-gitlab/merge_requests/1087

See merge request !7423

Add documentation for Review Apps

## What does this MR do?

Add docs for review apps.

## What are the relevant issue numbers?

Closes https://gitlab.com/gitlab-org/gitlab-ce/issues/23484

See merge request !6982

Improvements to Redis HA docs

Following https://gitlab.com/gitlab-org/gitlab-ce/merge_requests/6471

See merge request !7502

Refactor environments documentation

## What does this MR do?

Refactor environments docs.

## What are the relevant issue numbers?

https://gitlab.com/gitlab-org/gitlab-ce/issues/23484

See merge request !7107

Revert "Merge branch '22680-unlabel-limit-autocomplete-to-selected-items' into 'master'"

There were some issues with the initial implementation: https://gitlab.com/gitlab-org/gitlab-ce/merge_requests/6796#note_18557076

This reverts https://gitlab.com/gitlab-org/gitlab-ce/merge_requests/6796

See merge request !7521

Stop environment when branch is deleted

## What does this MR do?

This MR adds a environment teardown service, that is called when user deletes a branch. This most often happens when merge requests is merged.

## Does this MR meet the acceptance criteria?

- [x] [Changelog entry](https://docs.gitlab.com/ce/development/changelog.html) added
- [x] [Documentation created/updated](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/doc/development/doc_styleguide.md)
- [x] API support added
- Tests
  - [x] Added for this feature/bug
  - [x] All builds are passing

## What are the relevant issue numbers?

Closes #23218

See merge request !7355

Remove ToC and fix headings in Markdown docs

See merge request !7523

Adds hash anchors to diff_files to make possible linking exact file in commit

Closes #24010

See merge request !7298

tests: Move rake assets:precompile and cloning gitlab-{shell,test} to the prepare stage

Related to #23034

See merge request !7512

Update the updated_at of a build while patching the trace

## What does this MR do?

Fixes build patching trace. It should update the `updated_at` field of a build to make sure it will not be removed by `stuck_ci_builds_worker`.

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

Construction of a test for the bug.

## Why was this MR needed?

Please read #22087 for a reference.

## Screenshots (if relevant)

## Does this MR meet the acceptance criteria?

- [x] [CHANGELOG](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/CHANGELOG.md) entry added
- [ ] [Documentation created/updated](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/doc/development/doc_styleguide.md)
- [ ] API support added
- Tests
  - [x] 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 it does - 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?

Fixes #22087

See merge request !7146

Added colored labels to related MR list.

## What does this MR do?
Added colored labels to related MR list.

## Are there points in the code the reviewer needs to double check?
Yes, I think haml can be better.

## Why was this MR needed?
There was an issue for this #21200 

## Screenshots (if relevant)
![Screen_Shot_2016-11-15_at_21.04.24](/uploads/b601f33f23cdc3318d01279e17deb096/Screen_Shot_2016-11-15_at_21.04.24.png)

## Does this MR meet the acceptance criteria?

- [x] [Changelog entry](https://docs.gitlab.com/ce/development/changelog.html) 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 [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 it does - 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 !21200

See merge request !7486

Check all namespaces on validation of new username.

Closes https://gitlab.com/gitlab-org/gitlab-ce/issues/24519 and https://gitlab.com/gitlab-org/gitlab-ce/issues/24580

See merge request !7537

Allow sorting groups in API

Relates to #20013.

See merge request !7529

Support subscribing to group labels

https://gitlab.com/gitlab-org/gitlab-ce/issues/23586

See merge request !7215

Highlight first user autocomplete option

See merge request !7520

Change the slack notification comment link.

## What does this MR do?

Changes the link in Slack notifications for comments.

## What are the relevant issue numbers?

Closes #24107

See merge request !7498

bump rouge to 2.0.7

## What does this MR do?
Upgrades Rouge to 2.0.7 for various bugfixes.

## Are there points in the code the reviewer needs to double check?
See the Rouge changelog here: https://github.com/jneen/rouge/blob/v2.0.7/CHANGELOG.md

See merge request !7549

Resolve "Create a tab shortcut to jump directly to content"

## What does this MR do?
Adds accessibility shortcut to page, i.e. if user hits `tab` key right after the page is loaded and user has not interacted to any part of the page, the shortcut appears at top left corner of the page. Then, pressing `enter` (`spacebar` support is WIP) scrolls page to focus on content.

## Are there points in the code the reviewer needs to double check?
See if `id` attribute added to `.content` element (present in [_page.html.haml](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/app/views/layouts/_page.html.haml)) needs to be reviewed if it is correct approach or we already have an ID that shortcut can refer to.

## Why was this MR needed?
This feature is particularly useful for screen readers where user doesn't have to go through entire nav to reach content of page.

## Screenshots (if relevant)
![Screenshot_from_2016-11-17_17-59-22](/uploads/0eb0149f46bd35e9ce629e7a6533be53/Screenshot_from_2016-11-17_17-59-22.png)

## Does this MR meet the acceptance criteria?

- [ ] [Changelog entry](https://docs.gitlab.com/ce/development/changelog.html) 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 it does - 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 #24057

See merge request !7533

Add placeholder in the color input inside the create new label popup

## What does this MR do?
Adds the missing placeholder  *"Assign custom color #FF0000"*  in the label creation popup ( example text for custom hex color).

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

## Why was this MR needed?
When creating a new label, the example text for custom hex color is missing

## Screenshots (if relevant)
Before
![before](/uploads/a3157414d59cea609118a7d711f9b9ee/before.png)

After
![Selection_051](/uploads/ca3e2089b40069e4cb6b7aa295b28cfc/Selection_051.png)

## Does this MR meet the acceptance criteria?

- [X] [Changelog entry](https://docs.gitlab.com/ce/development/changelog.html) 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)
- [X] Branch has no merge conflicts with `master` (if it does - 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?
#24512 

See merge request !7492

Update "Supported web browsers" text

## What does this MR do?

Updates the `Supported web browsers` text in the installation docs.

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

## Why was this MR needed?

Slack discussion

## Screenshots (if relevant)

## Does this MR meet the acceptance criteria?

- [ ] [Changelog entry](https://docs.gitlab.com/ce/development/changelog.html) 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 it does - 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 !7341

Improve importing of github pull requests

Closes #24072

See merge request !7241

Fix line numbers not matching up with code in Firefox.

Firefox has had broken line number alignment for a while now, if this is a bug with Firefox they don't seem to want to fix it since its been there from 46 through 49. This fixes it.

Before:

![Screen_Shot_2016-09-22_at_3.08.44_PM](/uploads/8bb65f40e44f738c0c375b0c8ef7dea6/Screen_Shot_2016-09-22_at_3.08.44_PM.png)

After:

![Screen_Shot_2016-09-22_at_3.09.10_PM](/uploads/9e537be56886569d8a82390f2b97c42b/Screen_Shot_2016-09-22_at_3.09.10_PM.png)

Fixes #20202.

Safari/Chrome work the same as before, Snippets seems to work fine still as well.

Page tested: http://localhost:3000/gitlab-org/gitlab-ce/blob/master/app/models/project.rb

cc: @annabeldunstone

See merge request !6485

Fixing the issue of visiting a project fork url giving 500 error when not signed…

Closes https://gitlab.com/gitlab-org/gitlab-ce/issues/24302

See merge request !7392

Allows to authorize chat user against GitLab.

This is needed for: https://gitlab.com/gitlab-org/gitlab-ce/merge_requests/7438

See merge request !7450

Remove unused CI gems

See merge request !7522

Allow registering users where the username contains dots (.)

## What does this MR do?

- Allow registering users whose usernames contains dots `.`
- This can currently be done by registering with a username containing no dots, and then editing the username to have dots in the user's profile settings.

## Does this MR meet the acceptance criteria?

-  [#24276/!7500] Unable to register names with dot
    - [x]  Implementation
    - [x]  Tests
        - [x]  Added
        - [x]  [Passing](https://gitlab.com/gitlab-org/gitlab-ce/merge_requests/7500/builds)
    - [x]  Meta
        - [x]  CHANGELOG entry created
        - [x]  Documentation created/updated
        - [x]  API support added
        - [x]  Branch has no merge conflicts with `master`
        - [x]  Squashed related commits together
    - [x]  Review
        - [x]  Endboss
            - [x]  Use `Gitlab::Regex::NAMESPACE_REGEX_STR` instead of a hardcoded pattern
            - [x]  Define `NAMESPACE_REGEX_STR` in terms of `NAMESPACE_REGEX_STR_JS`
    - [ ]  Wait for merge


## What are the relevant issue numbers?

- Closes #24276

See merge request !7500

Include author in assignee dropdown search

## What does this MR do?

Previously when you searched for the author in the assignee dropdown (if they aren't in the project) it did not actually include the author. This changes that so that when you search for the author it will correctly include the user.

## Screenshots (if relevant)

![Screen_Shot_2016-11-17_at_11.14.53](/uploads/5a13475d8ded459fd3b1ba6570897665/Screen_Shot_2016-11-17_at_11.14.53.png)

## What are the relevant issue numbers?

Closes #22905

See merge request !7526

Add changelog entry for 7251

See merge request !7543