Integrity check failed after upgrade

Please help us by providing the following info. Before posting please also check the pinned "Known issues" threads and make sure that you're running the latest available version for your oC release:

Steps to reproduce
1. log into the web interface

Expected behaviour
no error message

Actual behaviour
error message with integrity check

Server configuration
Operating system: synology
Web server: Apache 2.2
PHP version: 5.6.28
ownCloud version (see ownCloud admin page):9.1.4
Updated from an older ownCloud or fresh install:
Special configuration (external storage, external authentication, reverse proxy, server-side-encryption):

ownCloud log (data/owncloud.log)

Please paste possible errors in the following code block, see for more info

Integrity status for oC9+

Login as admin user into your ownCloud and access
paste the results here.
Technical information
The following list covers which files have failed the integrity check. Please read
the previous linked documentation to learn more about the errors and how to fix
- core
		- 3rdparty/.gitignore
		- 3rdparty/bantu/ini-get-wrapper/.gitignore
		- 3rdparty/doctrine/cache/.gitignore
		- 3rdparty/doctrine/collections/.gitignore
		- 3rdparty/doctrine/common/.gitignore
		- 3rdparty/doctrine/common/.gitmodules
		- 3rdparty/doctrine/inflector/.gitignore
		- 3rdparty/icewind/streams/.gitignore
		- 3rdparty/lukasreschke/id3parser/.gitignore
		- 3rdparty/pear/archive_tar/.gitignore
		- 3rdparty/pear/console_getopt/.gitignore
		- 3rdparty/pear/pear-core-minimal/.gitignore
		- 3rdparty/pear/pear_exception/.gitignore
		- 3rdparty/rackspace/php-opencloud/.gitignore
		- 3rdparty/react/promise/.gitignore
		- 3rdparty/sabre/dav/.gitignore
		- 3rdparty/sabre/event/.gitignore
		- 3rdparty/sabre/http/.gitignore
		- 3rdparty/sabre/uri/.gitignore
		- 3rdparty/sabre/vobject/.gitignore
		- 3rdparty/sabre/xml/.gitignore
		- core/doc/admin/configuration_database/db_conversion.html
		- core/doc/admin/configuration_database/index.html
		- core/doc/admin/configuration_database/linux_database_configuration.html
		- core/doc/admin/configuration_files/big_file_upload_configuration.html
		- core/doc/admin/configuration_files/collaborative_documents_configuration.html
		- core/doc/admin/configuration_files/default_files_configuration.html
		- core/doc/admin/configuration_files/encryption_configuration.html
		- core/doc/admin/configuration_files/external_storage/amazons3.html
		- core/doc/admin/configuration_files/external_storage/auth_mechanisms.html
		- core/doc/admin/configuration_files/external_storage/dropbox.html
etc..... almost all files !

This has been reported to the developers in [1]. Just follow the thread there for additional info.