We are currently using EMM-Console to push new enterprise applications (ipad .ipa) into different emm packages for the deployment on the end-users' ipads.
But this step is breaking the automation of the deployment process, as someone has to actively log-in into the emmconsole, then delete the old version of the application, then put the new one, etc..
Is there any way ( like webservices, maybe ? ) that can allow to script this deployment ?
There is no possible way for EMM to do that. The only way you can deploy/update apps is through the UI, no Scripting mechanism in place to automate the update process. You can always submit a PER (product enhancement request) for the feature you want to be considered for a future release: