PIM-3360 : remove deprecated base repository

Drop the deprecated Base Entity Repository Pim/Bundle/CatalogBundle/Doctrine/EntityRepository and use the standard doctrine repository for ORM repos

| Q                    | A
| -------------------- | ---
| Bug fix?             | N
| New feature?         | N
| BC breaks?           | Y
| CI currently passes? |  Y
| Tests pass?          | Y
| Scenarios pass?      | Y
| Checkstyle issues?*  | N
| PMD issues?**        | N
| Changelog updated?   | N
| Fixed tickets        | PIM-3360
| Doc PR               |