[mira_talk] Mira-2.9.46
- From: Laurent MANCHON <lmanchon@xxxxxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Mon, 29 Jun 2009 10:29:24 +0200
I have tested Mira-2.9.46 on this machine:
- Dell PowerEdge 2600
- CPU: 2x Intel Xeon @ 3200Mhz
- Memory: 4GB RAM
- OS: Linux Debian / Debian release 4.1.2-25
- Kernel: 2.6.26-2-686
- gcc version 4.1.3
test use a set of data(435000 454-Titanium reads)
the command use is:
mira -project=test -job=denovo,est,normal,454 -SK:mnr=yes -SK:nrr=4
-GE:not=2 -CO:asir=yes -CO:mr 454_SETTINGS
-AL:mrs=80:egp=yes:egpl=reject_codongaps:megpp=100 -LR:mxti=no
-CO:rodirs=10 -AL:mo=60 -CL:cpat=yes
i have a core dumped:
--------------------------------------------------------------------------------
Information on current assembly object:
AS_readpool: 434802 reads.
AS_contigs: 0 contigs.
AS_bbcontigs: 0 contigs.
Mem used for reads: 1644694204 (1.5 GiB)
Memory used in assembly structures:
Eff. Size Free cap. LostByAlign
AS_writtenskimhitsperid: 434802 2 MiB 0 B 0 B
AS_skim_edges: 0 12 B 0 B 0 B
AS_adsfacts: 0 49 MiB 49 MiB 0 B
AS_confirmed_edges: 0 98 MiB 98 MiB 0 B
AS_permanent_overlap_bans: 434802 10 MiB 0 B 0 B
AS_readhitmiss: 0 12 B 0 B 0 B
AS_readhmcovered: 0 12 B 0 B 0 B
AS_count_rhm: 0 12 B 0 B 0 B
AS_weakestOvercallDelVote: 0 12 B 0 B 0 B
AS_weakestOvercallCoverage: 0 12 B 0 B 0 B
AS_clipleft: 434802 2 MiB 0 B 0 B
AS_clipright: 434802 2 MiB 0 B 0 B
AS_used_ids: 0 425 KiB 425 KiB 2 B
AS_multicopies: 434802 425 KiB 0 B 2 B
AS_hasmcoverlaps: 434802 425 KiB 0 B 2 B
AS_maxcoveragereached: 434802 2 MiB 0 B 0 B
AS_coverageperseqtype: 0 12 B 0 B 0 B
AS_istroublemaker: 434802 425 KiB 0 B 2 B
AS_isdebris: 434802 425 KiB 0 B 2 B
AS_needalloverlaps: 434802 425 KiB 14 B 0 B
AS_readsforrepeatresolve: 0 20 B 0 B 0 B
AS_allrmbsok: 0 12 B 0 B 0 B
AS_probablermbsnotok: 0 12 B 0 B 0 B
AS_weakrmbsnotok: 0 12 B 0 B 0 B
AS_readmaytakeskim: 0 20 B 0 B 0 B
AS_numskimoverlaps: 0 12 B 0 B 0 B
AS_numleftextendskims: 0 12 B 0 B 0 B
AS_rightextendskims: 0 12 B 0 B 0 B
AS_skimleftextendratio: 0 12 B 0 B 0 B
AS_skimrightextendratio: 0 12 B 0 B 0 B
Total: 1818950584 (1.7 GiB)
================================================================================
Out of memory detected, exception message is: std::bad_alloc
If you have questions on why this happened, please send the last 1000
lines of the output log to the author (together with a short summary of your
assembly project.
Abort (core dumped)
Laurent --
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