Upgraded APIs: Flink (0.8) and HBase (0.98.x) + profiles

I had to create an hadoop.core.version variable to manage the fact that cloudera has different versions for hadoop-core and hadoop-common..
The problem is that in my TableInputFormat I have to read parameters like TableInputFormat.INPUT_TABLE and the only  way I found to pass them to it is to pass the to the constructor (i.e. new MyTableInputFormat(conf)).
Indeed, those coming from configure do not contains those parameters..how can I put TableInputFormat.INPUT_TABLE parameter in those arriving to the TM through the configure method?