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I typically structure my applications something like the following.  I lump general functionality into a given component.  For instance, I might have com_users component which deals with user administration, and implements the ability to view a list of users, view a given user, delete a user, edit a user, etc.  This structure was borrowed long ago from my learning PHP Joomla days which I no longer use.  index.php figures out which component is being accessed, evokes the controller which gets data from the model and sends the data to the view.  The view defined in each component only deals with the central content, and mainTemplate.php deals with the peripheral.

First question.  Is there anything inherently wrong with this approach?

Second question.  I am looking to start using Twig.  Would this same structure work?  I would replace /var/www/html/lib/templates/mainTemplate.php with a Twig file, and replace var/www/components/component1/views/view-1-1.php, etc with Twig files which extends the main Twig template.
 

/var/www/components/component1/controllers/controller-1-1.php
/var/www/components/component1/controllers/controller-1-2.php
/var/www/components/component1/models/model-1-1.php
/var/www/components/component1/views/view-1-1.php
/var/www/components/component2/etc/etc
/var/www/html/lib/templates/mainTemplate.php
/var/www/html/lib/templates/mainCSS.css
/var/www/html/lib/js/someJSforAllComponents.js
/var/www/html/lib/components/component1/js/someJSForComponent1.js
/var/www/html/index.php
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