TokuMx though has benefits, we are running into issues. Recently we migrated to this engine and in process our clean up scripts are useless. We have transient data that we used clean every night and then reclaim disk via db.repairDatabase . However that command is not supported by TokuMX and as a result we are not able to reclaim the disk.
Is there an alternate way ?
It sounds like partitioned collections are the right abstraction for your application. Normal collections will suffer from the accumulation of MVCC garbage if you have a pattern of deleting large swaths of old data. With partitioned collections, you can drop a partition and reclaim all the space instantaneously.