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We want to make the affiliation and country fields required at registration user.
Where do we have to change in source code?
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This isn't a database change. To make fields required on forms, you need to edit the corresponding form PHP class and add a validation check for the field you want to make required. You would also want to add the necessary bits to the Smarty template so your users get a visual clue that a form is required.
See e.g. the RegistrationForm.inc.php class in classes/user/form for instance. The constructor adds the necessary validation checks.
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