Hi All,
some more details to the segfault. The critical program is mris_fix_topology, which allocates around 3.7GB of memory and hogs the CPU for at least an hour, then while holding around 3.6GB goes into D state (as seen by top) and then after some time segfaults with the error code 4. Error code 4 most likely means (on Linux x86_64) user_mode page_not_found on read. If I can help debug this I would be happy to.
Ahoi Sebastian