* Create a squash commit for code (#35547)

* [Code] Use system JDK if it is available (#31389)

* [Code] fix functional tests (#31555)

* fix(code/frontend): main page (#29811)

* [Code] fix find references style (#30911)

* [Code]: properly reconnect when langserver is down and clean up logs, fix #839, #891 (#30601)

* fix(code/frontend): wider clickable area for file and structure node (#31176)

* fix(code/frontend): fix project filter press enter location change (#29919)

* Code: move all non-error LSP logging to debug level

* [Code] Dark mode cleanup (#31208)

* fix(code/frontend): fix componentWillMount (#31772)

* [Code] Remove socket.io and use polling message to pull progresses (#31398)

* [Code] Remove socket.io and use polling message to pull progresses

* [Code] refactor the status polling logic

* [Code] fix a minor test issue

* [Code] correctly handle url when workspace is a symbol link. (#31782)

* fix(code/frontend): lose symbols (#31664)

* [Code] functional test for code intelligence (#31673)

* [Code] Add api test for multi code node setup (#31460)

* [Code] fix the bug the first type in querybar is alwasy discarded (#31884)

* [Code] disable cross repo jump functional test

* fix(code/frontend): replace deprecated react lifecycle methods (#31874)

* [Code] Add duration for queued tasks (#31885)

* [Code] fix editor lifecycle method (#31983)

* [Code] force delete repository (#31995)

* feature(code/frontend): implement new breadcrumb design (#31247)

* [Code] handle import error (#31875)

* fix(code/frontend): show import project error message

* [Code] increase the git clone/update throttle param to make ES data update less frequent (#31988)

* fix(code/frontend): side navigation bar width should be fixed (#31876)

* fix(code/frontend): should show import modal (#31987)

* [Code] update repo by set target ref directly (#32002)

* [Code] show nothing if setup status is not ready yet. (#31993)

* [Code] fix editor `goto line` (#32094)

* fix(code/frontend): match props missing (#32100)

* [Code] Improve repository progress polling when clone/index is interrupted by delete (#31989)

* [Code] fix tree flatten/expand/collapse problems (#32099)

* [Code] Fix check for JDK's version (#32104)

* fix(code/frontend): type errors (#32119)

* [Code] specify nodegit commit sha in package.json (#32170)

* [Code] fix setup page (#32179)

* [Code] fix type error in java launcher (#32270)

* [plugin installer] Keep external attributes of files during unarchiving (#32105)

* [plugin installer] Keep external attributes of files during unarchiving

* [plugin installer] add test for files' modes check

* [Code] Ignore certificate check for clone (#32271)

* [Code] fix tsc error

* [Code] fix yarn.lock

* Code: fix getClient is not a function error after merging (#32338)

* [Code] fix load file tree by refresh (#32280)

* [Code] Adjust `GoLauncher` to adapt to the running pattern of go server. (#32293)

This adjust will let the code plugin connect the go-langserver actively.
It should be noted that the `GoLauncher` is a semi-manufacture only
support the detach mode for now.

* [Code] Fix a line number bug for composite content calculation (#32376)

* [Code] function test for securities (#32278)

* [Code] hide import button if current user is not code_admin

* [Code] function test for securities

* [Code] apply the correct timestamp to admin page (#32379)

* [Code]: fix duplicate import agains kbn/test/types package, update typescript language server version (#32439)

* fix(code/frontend): highlight structure node (#32034)

* fix(code/frontend): special symbol container name (#32281)

* Monaco Editor Dark Mode (#32263)

* Initial go at light/dark mode compatability for the Monaco editor.

* Alphebetizing the imports.

* Using the color-convert package to convert rgb to hex values. Updating the monaco hover widget for dark mode.

* Changes to highlight and selection colors.

* Misspelled an EUI color variable name.

* Dark mode for the search results page.

* Prettifying code_result.tsx.

* Removing the monaco scroll decorator from the editor.

* Fixing some type errors for color-convert

* Markdown styling for dark mode.

* Changing the import location of 'chrome' in the monaco editor

* Adding a constant for the getTheme() method and adjusting blame view dark mode styles.

* [Code]: always downgrade language server logging level by one

* [Code]: upgrade ts langserver version, reduce the timeout for waiting langserver init

* [Code] replace _term aggregator order to _key (#32541)

* fix(code/frontend): reset breadcrumbs and fix code href (#32277)

* [Code] improve index progress calculation (#32537)

* [Code]: clean up the way we config LSP related configs (#32607)

* [Code] change nodegit to @elastic/nodegit (#32543)

* [Code] fix tree loading when jumping between different repos (#32650)

* [Code] Use data dir as config dir (#32609)

* [Code]: remove uneccessary color convert after upgrade to EUI 9

* [Code] fix a undefined path problem

* [Code] compute url for language server plugin (#32644)

* [Code] fix typo (#32751)

[Code] fixed some type errors
[Code] try change nodegit_info task to typescript to avoid ci problem

* [Code]: Update UI test snapshot

* [Code]: Disable project setting, branch selection and diff page (#32799)

* [Code] adjust search bar suggestions style (#32726)

* [Code] disable indent guides lines in editors (#32730)

* feature(code/frontend): show loading spinner when loading file/structure tree (#32775)

* fix(code/frontend): truncate blame date (#32764)

* [Code] Call default to lsp options (#32843)

* [Code] fix path handling in windows (#32882)

* feature(code/frontend): implement new 404 page (#32859)

* fix(code/frontend): truncate directory node and fix margin (#32858)

* [Code]: Upgrade ts langserver version

* [Code]: upgrade test snapshot

* [Build]: use the resolution in CreatePackageJsonTask task

* [Code]: correctly handle errors in JDK finding (#32824)

* [Code] Fix functional test (#32991)

* fix(code): clear import project input after submit (#32970)

* [Code] Show some content for file name matching (#32958)

* [Code] fix goto definition failed after user click `go back` (#32968)

* Forcing the filetree open on mobile devices. (#33056)

* [Code] remove requirement for SettingRepository button in tests (#33081)

* [Code]: clean up the code breadcrumb (#33069)

* [Code]: fix top bar button size, width and right margin (#33061)

* [Code]: link to the setup guide button should be the entire button (#33031)

* [Code] Remove the repository status in repo search result item (#32967)

* [Code] Add additional git url validation in clone worker (#33097)

* [Code] hide language server errors (#33082)

* [Code] fix tree expand problems (#32984)

* Fixes for dark mode (#33014)

* Fixing the keyboard shortcut modal appearance in dark mode.

* Fixing the language server icon colors in dark mode.

* Fixing the white background in markdown code blocks in dark mode (Code issue #942)

* Fixing the file tree background color (Code repo issue #986)

* Updating file_tree snapshots.

* Using variables in the shortcuts.scss file, moving the language icon selector to the path rather than the SVG itself.

* Fixing a type error for an unused import.

* [Code] make find references panel's file name clickable (#33083)

* [Code] update worker queue index name to exclude from code user/admin roles (#33223)

* fix(code): symbol tree style (#33224)

* [Code] Index job timeout should show repository index error (#33140)

* [Code] Index job timeout should show repository index error

* [Code] Add a new unit test for clone worker git url validation

* [Code] fix the test

* [Code] adjust repo search scope REST API params (#33219)

* [Code] scroll the selected file into view when navigate files (#33225)

* [Code] fix a minor bug for clone repo

* [Code] fix a tree expand/collapse problem (#33227)

* [Code] fixes for search page (#33281)

* [Code] fixes for search page

* [Code] fix functional test

* [Code] fix functioanl test

* [Code] Calculate the index job timeout based on the size of the repo (#33226)

* [Code]: add a test util file and move common class into it (#33283)

* fix(code/frontend): unset min-width of breadcrumb (#33298)

* fix(code): highlight only one symbol and unexpected tree loading (#33114)

* [Code] use callWithRequest instead of callWithInternalUser in cluster routes (#33098)

* [Code] Add options to disable maven/gradle importer and autobuild (#33240)

* [Code] Add options to disable maven/gradle importer and autobuild

* [Code] rename option to codeSecurity

* [Code] Add initial options to request expander

* [Code]: add option to disable node depdendency downloading (#33340)

* [Code]: change config code.codeSecurity to code.security

* [Code]: more clean up to the test option (#33355)

* [Code] Add git clone url host and protocol whitelist (#33371)

* [Code] align search page border and correct the rendering of empty search page (#33378)

* [Code] focus input when switch search scope with shortcuts (#33379)

* [Code] focus input when switch search scope with shortcuts

* [Code] prevent default action of the shortcut event

* fix(code): add project root link to kibana breadcrumb (#33297)

* Revert "fix(code): add project root link to kibana breadcrumb (#33297)"

This reverts commit e206b71.

* [Code]: upgrade to typescript server 0.1.19

* [Code] Fix randomized port in Java launcher (#33495)

* [Code] fix popover style changes when click on buttons (#33472)

* [Code] fix setup guide style (#33474)

* [Code] fix a problem we start more than one lang-server for the same repo. (#33382)

* fix(code): use monospace font for commit hash (#33307)

* [Code] fix reference panel layout problems (#33546)

* [Code] fix lang-sever initializing popover (#33482)

* fix(code/frontend): truncate commit message (#33548)

* fix(code/frontend): use eui toast for import message (#33487)

* fix(code/frontend): check file path before reveal position (#33555)

* fix(code/frontend): should have no container (#33492)

* [Code] change lsp http error codes (#33633)

* fix(code/frontend): combobox in search setting flyout should be stretched to fit the width (#33553)

* [Code]  Enabgle `go` language of the monaco editor. (#33476)

This change will make the code plugin have the ability in the
development mode to highlight the go source code and send
the go-to definition request to the lang server.

* fix(code/frontend): error message for empty project url (#33549)

* [Code] connect the modify search settings button with the search scope settings (#33691)

* [Code] connect the modify search settings button with the search scope setting

* [Code] a minor fix

* [Code] minor style improvement

* [Code]: fix integration test using new API (#33730)

* [Code] fix a tree expanding problem (#33766)

* Fixing the directory node focus state. (#33821)

* [Code] fix a reference panel height problem (#33767)

* [Code] upgrade nodegit, set max returned commits results (#33913)

* [Code]: Upgrade dependencies

* [Code]: Syntax clean after bable-ts-transform upgrade

* [Code] don't patch native modules when build oss package (#33915)

* [Code] improve repository index naming (#33911)

* Revert "Fixing the directory node focus state. (#33821)"

This reverts commit 866db39.

* [Code] Remove regex git url validation and add more unit tests for repository utils (#33919)

* [Code] more unit tests

* [Code] fix ci breaks

* [Code] handle nodegit deprecation warnings (#33932)

* Reducing top and bottom padding of the directory and file nodes in the directory view. (#34007)

* Styling the File Tree Scrollbar (#33988)

* Styling the scrollbar.

* Removing the duplicated mixin code.

* [Code] check file path in lsp requests (#33916)

* [Code] Implement the index checkpointing (#32682)

* [Code] Persist index checkpoint into index progress in ES

* [Code] apply checkpoint to lsp indexer

* [Code] Add unit tests for index checkpointing

* [Code] move checkpoint from text to object

* [Code]: raise default security level (#33956)

* fix(code/frontend): should not show import error at the first time (#33921)

* [Code]: add missing dependencies that are not in x-pack

* [Code]: fix test snapshot and eui usages

* chore(code/frontend): move props files to __fixtures__ folder (#34031)

* [Code] fix a tree collapse problem (#34030)

* [Code] fix a tree collapse problem
added functional tests for file tree

* Fix type errors and snapshot

* [Code]: simplify the path computation of ts server

* [Code]: clean uneccessary ts-ignores (#34203)

* [Code] apply repo search scope right away in search page (#34029)

* [Code] upgrade git-url-parse version and enable ssh git clone protocol (#34336)

* [Code] upgrade git-url-parse version and enable ssh git clone protocol

* [Code] fix unit test

* [Code]: minor clean up of tslint usage, up ts server version

* fix(code/frontend): use different actions to handle repo scope search and repo search (#34043)

* [Code] fix the crash when we refresh the blame view (#34335)

* [Code] enable ssh protocol, only read ssh key pairs from data folder. (#34412)

* [Code] reset processing jobs when system is initializing (#34408)

* [Code] functional test for git:// url (#34512)

* [Code] fix search query bar item selection issue (#34514)

* [Code]: use absolute path for api path (#34582)

* [Code]: use absolute path for api path

* [Code]: always use url.format to construct url with queries that have variables

* [Code]: prefix lsp api with code

* [Code]: Add chrome.addBasePath call for raw fetch argument

* [Code]: minor UI adjustment (#34659)

* [Code]: fix new eslint errors (#34671)

* [Code] save code_node_info in an index (#34244)

* [Code] fix line height changed after find reference is open (#34682)

* [Code] add description for file and repo typeahead items (#34681)

* [Code] encode/decode branchs and tags (#34683)

* [Code] Incremental Indexing (#33485)

* [Code] Add a git api to get diff from arbitrary 2 revisions

* [Code] Apply incremental index triggering

* [Code] implement the actual incremental indexing

* [Code] apply checkpoint validation for both lsp and lsp incremental indexer

* [Code] add unit tests

* [Code] only disable index scheduler but leave update scheduler on

* [Code]: disable more eslint error due to nodegit

* [Code]: add a go language icon

* [Code]: fix test snapshot after upgrade eui

* fix(code/frontend): make blame view scrollable (#34519)

* [Code]: add beta indicator (#34899)

* [Code]: add a toast for permission change in setup page (#34901)

* [Code] support '/' in getCommit (#34774)

* [Code]: show error message when importing repo at import repo page, fix type error (#34898)

* [Code]: add setup guide link in help menu and pre-define document links (#34902)

* [Code] hide index button when repo is in indexing (#34904)

* [Code]: clean uneccessary code, lint error

* [Code] apply encode to revision in url (#34906)

* [Code] disable blame button when select a non-text file (#34775)

* [Code] disable blame button when select a non-text file

* [Code] Change button label based on file type

* [Code] Provide more reasons for git url validation (#34914)

* fix(code/frontend): should disable structure tab if no structure or load failed (#34908)

* [Code] don't allow access secured routes before x-pack info is available (#34994)

* fix(code/frontend): remove line decorations if no line number specified (#35047)

* Reset initialized when proxy re-connects (#34970)

* [Code] setup multi-code mode by config (#34988)

* [Code] Persist clone error messages (#34977)

* test(code/frontend): history functional test (#34921)

* Implement Code feature control (#35115)

* update security api tests

* rough POC to migrate Code to use Feature Controls

* fix tests

* [Code]: Integrate with Feature control

* Rename callWithRequest to callCluster

* feature(code/frontend): search filter default repo options (#35202)

* [Code] minor fix of proejct status update (#35207)

* feature(code/frontend): search in project page set current repo as default scope (#35062)

* fix(code/frontend): structure tab highlight, align and collapse (#35221)

* [Code] add api integration tests for feature control (#35146)

* [Code] Ignore certificateCheck in update as well (#35273)

* [Code]: fix test snapshot

* [Code] Removing styled components & SCSS cleanup (#35107)

* Removing the sidebar class from the project container and replacing styled component eui buttons with a className.

* Renaming scss includes.

* Moving admin.scss content into _buttons.scss.

* Refactor project_item removing styled components

* Refactor admin.tsx to remove styled components

* Refactor import_project.tsx to remove styled components

* Refactor lang server tab to remove styled components

* Refactor project settings modal removing styled components

* Refactoring setup_guide to remove styled components

* Cleanup sidebar.scss: follow convention for classes

* Refactor codeblock css naming conventions

* Resolving an issue with the monaco scss file name

* Editor file cleanup. Renaming css classes

* Cleaning up the file_tree component.

* Hover widget cleanup.

* Blame cleanup.

* Breadcrumb cleanup.

* Cleaning up clone status — removing ProgressContainer export. Didn't seem to be used anywhere. You can use the codeContainer__progress class to apply those styles now.

* Cleaning up commit history styles

* Putting the indentation back in the file tree.

* Refactoring the main content window.

* Cleaning up the directory component.

* Reducing spacing between directory and file lists.

* Removing styled components from the error panel.

* Reducing the font size of buttons in the source view button groups.

* Removing styled components from main.tsx

* CSS naming & removing styled components from not_found.tsx

* CSS naming & removing styled components from not_found.tsx

* Removing styled components from search_bar and top_bar.

* Removing styled components from query_bar components.

* Removing styled components from search_page components.

* removing styled components from code_symbol_tree

* Fixing a few css issues.

* Updating test snapshots.

* Removing a stray '>' symbol from the search tabs.

* Condensing the spacing of the EUI facets on the search page.

* class name of the flyout container.

* Revert "class name of the flyout container."

This reverts commit 35e9d5c16fd20db5ef15a686eda79bb0fd3f40a6.

* class name tweaks.

* Fixing type errors.

* Putting back an accidental deletion in file_tree.tsx.

* Updating file_tree snapshot.

* Implementing changes from 604e4d1 to address failing tests.

* Adding in additional classes deleted during merge

* Updating test snapshots.

* Removing the focusring from the items in the file_tree. (#35364)

* [Code] pagination for history (#35329)

* Updating the markdown rendering to use EUI styles. (#35439)

* [Code]: fix icon for module and namespace (#35428)

* [Code] apply git clone/update cert check for production env (#35399)

* fix(code/frontend): source view page, click line number should stay in the same side tab (#35396)

* [Code] Add a security flag for git certificate check (#35445)

* fix(code/frontend): fix blank left to blame (#35449)

* [Code]: Improve code setup guide text

* [Code]: fix the capabilities type (#35499)

* [Code]: fix the capabilities type

* [Code] disable the functional test

* [core/ftr] disable tests by commenting out test file

* Updating the font sizes on the directory view. (#35507)

* Updating the font sizes on the directory view.

* Adding less left margin to the recent commits heading.