We have large amounts of NFS mounted drive space (>70 TB) but local space tends to be limited. Last night I attempted a de novo assembly of a quarter million solexa 101 base read pairs (5765742 total reads). This is a bacterial genome. I directed the "log" files to the local scratch disk, but the 167GB of available drive space were not enough.
How much "log" space will I need? Should I ask for the development version of mira be installed?
The possibly relevant parameters (other than -DIR and --project=) are:--job=denovo,genome,accurate,solexa SOLEXA_SETTINGS -GE:tismin=200:tismax=700
This is MIRA V3.2.0 (production version). Compiled by: bach Sun Aug 8 18:43:42 CEST 2010On: Linux arcadia64 2.6.27-11-generic #1 SMP Wed Apr 1 20:53:41 UTC 2009 x86_64 GNU/Linux
Compiled in boundtracking mode.
Compiled in bugtracking mode.
Compilation settings (sorry, for debug):
Size of size_t : 8
Size of uint32 : 4
Size of uint32_t: 4
Size of uint64 : 8
Size of uint64_t: 8
Current system: Linux gln 2.6.32-5-amd64 #1 SMP Mon Mar 7 21:35:22 UTC
2011 x86_64 GNU/Linux
The system I am currently running on is a debian linux dual quad core AMD Opteron(tm) Processor 2380 system with 32 GB of physical RAM.
Regards, Phillip -- You have received this mail because you are subscribed to the mira_talk mailing list. For information on how to subscribe or unsubscribe, please visit http://www.chevreux.org/mira_mailinglists.html
