I have some trouble with the application RNA denovo from the latest build (3.8). Both on linux computer (latest linux mint) and calculation cluster (cant tell about the system architecture sorry). For a small RNA 14 base pairs and a loop, the memory usage of the RNA denovo application constently increase. By this I meanthat each structure use sligtly more memory than the preceding one. If the first one start at let's say 350 mb, by the n°10 I get arround 1GB, and it goes on until the process crash after a bad_alloc error when system run out of memory, my linux system has 16 GB of memory (or after the server kill the process because it try to use more memory than allocated tested with 1 2 and 4 GB).
That really look like a memory leak, the problem seems more bad with no secondary structure defined (sometimes go to 2 GB at the third structure), if it can help you to find the problem.
A very simple workaround (and that really confort me in the fact it is indeed a memory leak problem) is to use bash to kill the process every 2 structure ands start again, it just generate thousands of silent file, but it work fine, allways maintain the memory under 700 Gb for small sequences at least.
Just thought you may want to know about this (and in case you have a cleaner workaround than mine !)