Hello, I’m using eggNOG mapper and they say we should put the database in /dev/shm.
This folder exists and I have write access to it.
As I read online /dev/shm is nothing more than shared memory. Is there some advantage to put (temporarely) the database in /dev/shm rather than my scratch directory?
Do I have acces from different cluster nodes on to the same /dev/shm ?
So it’s ram memory mounted as disk.
I split my fasta in subsets. I would like to use 10 eggNOG jobs accessing the database (45G), so I would need to copy it 10 times to the /dev/shm and request enough memory?
in this case it’s probably better to let your database in the scratch space as this will use almost half the ram of each node you’ll be using. I just saw that you aren’t using the new scratch space. Please check here to enable it:
Please let us know if the performances are good enough in the scratch space for this software.