Fix project member access levels

Migrate invalid project members (owner -> master)

Closes https://gitlab.com/gitlab-org/gitlab-ce/issues/18616

See merge request !6957
Signed-off-by: Rémy Coutable <remy@rymai.me>

Create protected branches bundle

Backport changes from https://gitlab.com/gitlab-org/gitlab-ee/merge_requests/645

See merge request !6909

Merge branch '22457-reset-filters-button-should-be-invisible-when-no-filters-are-active' into 'master'

`Reset filters` link should only be visible when filters are active

## Why was this MR needed?

`Reset filters` link is always visible.

Closes #22457

See merge request !6497

Fixes error 500 on Runners page (`ActionView::Template::Error (Missing partial kaminari/_paginator`)

Originally reported downstream: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=819903

See merge request !5701

[Doc] Fix `ref` parameter name for `commits/statuses`

The attribute to filter by branch or tag needs to be named `ref`, not `ref_name`. And indeed the attribute in the JSON response is `ref` (and not `ref_name`).

Tested on Gitlab CE 8.9.

See merge request !4876

Check that user has access to a given namespace to prevent leaking namespace names.

See merge request !2009

Restrict ProjectCacheWorker jobs to one per 15 min

## What does this MR do?

This restricts performing ProjectCacheWorker jobs to once every 15 minutes per project. The goal of this is to reduce disk load in the event of a lot of pushes happening in a short period of time. 

The impact is that cached data (e.g. commit count) may be updated less frequently. Furthermore it could mean that separate push payloads won't lead to e.g. READMEs being updated. Most of the cached data isn't updated very frequently, so this trade off should be worth it considering the alternative is a burning storage layer. 

In the future we'll have to flush caches in a smarter way. For example, refreshing the README cache could probably be done separately from the other caches with its own lease and such. See https://gitlab.com/gitlab-org/gitlab-ce/issues/23550 for more information.

See merge request !7017

Make label API spec independent of order

See merge request !7013

Resolve "Breaking a parameter table in Projects API doc"

## What does this MR do?

- A broken markdown in `Search for projects by name` is fixed.
    - cf. !6681
- Pagination is removed from `Search for projects by name` like other docs as it is shown in [/api/README.html](https://docs.gitlab.com/ce/api/README.html)

## Moving docs to a new location?

No.

## What are the relevant issue numbers?

Closes #23555

See merge request !7007

Remove show_menu_above attribute from issuable dropdowns.

Removes `show_menu_above` attribute form issueable dropdowns so they will drop down.

Fixes #23425 and #23317

See merge request !7001

Bump `omniauth-saml` to 1.7.0

Bump `omniauth-saml` to 1.7.0 to include security fixes and metadata support for IdP auto-configuration.

cc @dblessing @dewetblomerus

See merge request !6997

Fix a 500 error viewing an MR with a deleted source project

## What does this MR do?

Allows merged MRs to be shown without any 500 errors if the source project is removed

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

https://gitlab.com/gitlab-org/gitlab-ce/commit/31c37c6c38258684fc92e0d91119c33872e39034 fixed this for closed MRs only. I had trouble understanding the introduced helper and logic, so reverted it and keyed everything on the existence of the source project or branch directly.

commits.json returns a 500 error for a closed or merged MR; the approach taken in the above MR was to hide the commits... tab, so I've run with that.

For merged MRs, the commits (but not the pipeline data) are in the target project, so we *could* do better, but it's a fairly nasty intervention to make it happen.

## Why was this MR needed?

Viewing merged MRs should work even if the fork they came from has been deleted or unlinked.

## Screenshots (if relevant)

![Screen_Shot_2016-10-19_at_17.56.37](/uploads/1aeadd5147b9a4ad29b946b1c7ea52cb/Screen_Shot_2016-10-19_at_17.56.37.png)

## Does this MR meet the acceptance criteria?

- [x] [CHANGELOG](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/CHANGELOG.md) entry 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
  - [ ] 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 #23341

See merge request !6991

Update duration at the end of pipeline

## What does this MR do?
Moves duration calculation to be done only once at the end of pipeline processing.
Currently this is done every one build.

## Why was this MR needed?
This is the simplest thing that we can do before properly implementing duration calculation: https://gitlab.com/gitlab-org/gitlab-ce/issues/23523#note_17145614

This is ~Performance improvement that significantly affects: http://performance.gitlab.net/dashboard/db/sidekiq-workers?var-worker=PipelineUpdateWorker%23perform&var-database=Production&from=now-1h&to=now

See merge request !6987

Keep around commits only on pipeline create

## What does this MR do?
Since the pipeline SHA doesn't change, we don't need to update keep arounds every save.

## Why was this MR needed?
This is minimal change to fix this: https://gitlab.com/gitlab-org/gitlab-ce/issues/23503

See merge request !6986

Revert issuable title reordering

Reverts !6503, and uses `to_reference` rather than `iid` for `Issues#show` and `Issues#edit` titles.

See merge request !6983

Fix name of feature that restricts access to builds traces

## What does this MR do?

This MR fixes the name of the feature that makes it possible to restrict build traces. This does not disable access to pipelines. Pipelines are still available so we should tie the name with builds, instead of using work "pipeline" there.

See merge request !6980

Improve error logging of MergeService

Relates to #23505

See merge request !6975

Fix 'No label' and 'Any label' filters

## What does this MR do?

Returns the `title`as the `id` for `No label`.

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

## Why was this MR needed?

Label filters not working as expected

## Screenshots (if relevant)

![2016-10-19_04.58.08](/uploads/3b079bf28299c1155e0243171ac008f6/2016-10-19_04.58.08.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 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 #23375

See merge request !6974

Fix pipeline alignment

Before:   
<img src="/uploads/8169695c5e594ee3f42a73cc1a91fd1a/Screen_Shot_2016-10-18_at_6.58.49_PM.png" width="400px">

After:   
<img src="/uploads/d608380057ef66223925db3524f691fb/Screen_Shot_2016-10-18_at_7.04.15_PM.png" width="400px">

See merge request !6971

Fix missing semicolon to make scss-lint happy

Builds were failing: https://gitlab.com/gitlab-org/gitlab-ce/builds/5256491

See merge request !6969

Fix broken award emoji for comments

Closes #23506

See merge request !6967

Add missing Vue dependency

Cycle Analytics is broken because vueJS is not included.

This feature will be improved on its second iteration, and also tests will be aded so this won't happen again.

See merge request !6965

Set webkit-overflow-scrolling to auto for children of body.

## What does this MR do?

Fixes weird tooltip layering behavior in iOS Safari. See screenshots and/or the original issue: https://gitlab.com/gitlab-org/gitlab-ce/issues/22816

## Why was this MR needed?

Tooltips were cutoff in Safari.

## Screenshots (if relevant)

Before: 
![Screen_Shot_2016-10-18_at_7.13.11_PM](/uploads/5558d60b7369a9355f18d34dcc2c179e/Screen_Shot_2016-10-18_at_7.13.11_PM.png)


After:
![Screen_Shot_2016-10-18_at_7.13.40_PM](/uploads/ae07002f2f396f135b3078538d5c4ad6/Screen_Shot_2016-10-18_at_7.13.40_PM.png)

Also, as part of this fix, I removed applications of `-webkit-overflow-scrolling: auto` in two other places where they're no longer needed. One was the file-holder. I made sure I could reproduce the behavior this was intended to fix, and then made sure this MR still fixed it. 

Here's the errant behavior: 

![2016-10-18_19.00.22](/uploads/0bd3ee3bab44769dfce80c7edaac3248/2016-10-18_19.00.22.gif)

Here's what it looks like with this MR:

![2016-10-18_19.00.49](/uploads/e405ded5acdbbbe5e577222c11198691/2016-10-18_19.00.49.gif)

## Does this MR meet the acceptance criteria?

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

See merge request !6962

Backport git access spec changes from EE

https://gitlab.com/gitlab-org/gitlab-ee/merge_requests/645#note_16391185

See merge request !6961

Fixed height of issue board blank state

## What does this MR do?

The height of the issue board blank state was causing some weird scrolling issues. This MR changes the height of the blank state.

See merge request !6960

Wait for ajax for every merge request spinach test

## What does this MR do?

* removes duplicate `WaitForAjax` module
* ensure we run `wait_for_ajax`after each MR spinach tests

## Why was this MR needed?

Because when visit MR page we do ajax call to check CI status. When testing this page with spinach and JS driver we got random failing tests. It happens because of race condition db cleaner drop data before ajax call finished. So we make sure that every MR spinach scenario with js driver waits for ajax before running next scenario

## What are the relevant issue numbers?

Fixes https://gitlab.com/gitlab-org/gitlab-ce/issues/23461

See merge request !6959

fix: commit messages being double-escaped in activities tab

See merge request !6937

Stop event_commit_title from escaping its output

Fixes a double-escape issue (actually triple-escape!) viewing the activity feed

Closes #23311 

Related to #23258 !6832

See merge request !6930

Change input order on Sign In form for better tabbing.

## What does this MR do?

This unreverts 8751491b, which was mistakenly reverted in !6328. It also changes the implementation of the original commit to work with the new login styling and markup.

cc: @ClemMakesApps

## Screenshots (if relevant)

(Disregard the grey borders on invalid inputs -- for some reason, Gifox isn't picking up some colors for me 🤷 )

![2016-10-17_11.32.05](/uploads/f395b2d77fb47cac3f9d4fa1bc3d7d71/2016-10-17_11.32.05.gif)

## Does this MR meet the acceptance criteria?

- [x] [Documentation created/updated](https://gitlab.com/gitlab-org/gitlab-ce/blob/master/doc/development/doc_styleguide.md)
- Tests
  - [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?
https://gitlab.com/gitlab-org/gitlab-ce/merge_requests/6867

See merge request !6928

Create project feature when project is created

closes #22944

See merge request !6908

Smaller min-width for MR pipeline table

## What does this MR do?
Nests class under `.tab-pane` to make sure buttons don't get cut off

## Screenshots (if relevant)
![Screen_Shot_2016-10-14_at_11.00.02_AM](/uploads/6e19e0375721f2cb58223c2e7ed89308/Screen_Shot_2016-10-14_at_11.00.02_AM.png)

## What are the relevant issue numbers?
Closes #23346

See merge request !6893

API: Fix Sytem hooks delete behavior

## What does this MR do?

This corrects the delete API for system hooks. Returning 200 is not the right way indicating a hooks is not found.

## What are the relevant issue numbers?

Discussed in https://gitlab.com/gitlab-org/gitlab-ce/merge_requests/6861/diffs#609af00c90e3d5241064d1404e3e018a3235634a_64_62

See merge request !6883

Add Nofollow for uppercased external url protocols

Closes #22782

See merge request !6820

Triggered pipelines

#### What does this MR do?
Separates trigger into its own column

#### Screenshots (if relevant)
![Screen_Shot_2016-10-07_at_4.21.54_PM](/uploads/092e8205d329b66b34045fe17c5e6e4f/Screen_Shot_2016-10-07_at_4.21.54_PM.png)
![Screen_Shot_2016-10-17_at_9.13.10_AM](/uploads/7df90e0e2a07a9f282df3605787d3cc2/Screen_Shot_2016-10-17_at_9.13.10_AM.png)
![Screen_Shot_2016-10-17_at_9.15.07_AM](/uploads/b7dc0307c8549e72c3f812c3cd91833a/Screen_Shot_2016-10-17_at_9.15.07_AM.png)

#### What are the relevant issue numbers?
Closes #19991

See merge request !6753

Prevent wrong markdown on issue ids when project has Jira service activated

fixes gitlab-org/gitlab-ee#828

See merge request !6728

Delete dynamic environments

- Adds "close environment" action to a merge request
- Adds tabs to environments list
- Adds close button to each environment row in environments list
- Replaces Destroy button with Close button inside an environment
- Adds close button to builds list inside an environment

In order to enable stopping environments a valid `.gitlab-ci.yml` syntax has to be used:

```
review:
  environment:
    name: review/$app
    on_stop: stop_review

stop_review:
  script: echo Delete My App
  when: manual
  environment:
    name: review/$app
    action: stop
```

This MR requires that `stop_review` has to have: `when`, `environment:name` and `environment:action` defined.
The next MR after this one will verify that and enforce that these settings are configured.

It will also implicitly configure these settings, making it possible to define it like this:

```
review:
  environment:
    name: review/$app
    on_stop: stop_review

stop_review:
  script: echo Delete My App
```

Closes #22191

See merge request !6669
Signed-off-by: Rémy Coutable <remy@rymai.me>

Add group level labels.

* `LabelsFinder`
* `Gitlab::Gfm::ReferenceRewriter`
* `Banzai::Filter::LabelReferenceFilter`

We'll be adding more feature that allow you to do cross-project management of issues.

loses #19997

See merge request !6425
Signed-off-by: Rémy Coutable <remy@rymai.me>

Add tooltip with jobs full name to pipelines graph

## What does this MR do?

This MR adds a tooltip to build items in the pipelines graph as some build names are truncated.

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

## Why was this MR needed?

Some job names that are truncated need to be fully identified to avoid confusion.

## Screenshots (if relevant)

[Latest screenies here!](https://gitlab.com/gitlab-org/gitlab-ce/merge_requests/6403#note_16968703).

## 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 #22089

See merge request !6403

Changed build header username area to use the full name with the username as the tooltip

## What does this MR do?

Changes build header username to use the full name with the username as the tooltip.

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

## Why was this MR needed?

UI consistency

## Screenshots (if relevant)

![2016-09-08_19.24.22](/uploads/958422819ae3057f1499b2686d83e326/2016-09-08_19.24.22.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 !6272