fix(permissions): added a common way to update private flag via repo model...

fix(permissions): added a common way to update private flag via repo model - this allows to have a one and only one way to control the flag with the business logic shared - added test for that - changed view to use this method instead of DB update and custom permissions flush - fixed a case when update of repo settings didn't flush permissions actually while it should when private flag changed

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Database Performance

For tuning PostgreSQL we recommend reading: http://www.revsys.com/writings/postgresql-performance.html

For tuning MySQL we recommend reading: http://www.tecmint.com/mysql-mariadb-performance-tuning-and-optimization/

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