[mira_talk] Re: problem in denovo assembly fasta file
- From: Amit Bikram <amitbikram87@xxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Mon, 18 Nov 2013 19:33:30 +0530
I have 16gb RAM
it also shows that it could not find quality file does it need fasta and
quality file both
with regards
Amit
On Mon, Nov 18, 2013 at 5:09 PM, Bastien Chevreux <bach@xxxxxxxxxxxx> wrote:
> > On November 18, 2013 at 12:20 PM Peter Cock <p.j.a.cock@xxxxxxxxxxxxxx>
> wrote:
> > I'm sure Bastien will comment if there is anything suspicious on
> > the MIRA side, but it seems happy with your command line
> > options and had started loading your data.
>
> Nothing suspicious with the command line, except the forced use of
> sequences without qualities.
>
> Amit, see also
>
> http://mira-assembler.sourceforge.net/docs/DefinitiveGuideToMIRA.html#sect_ref_never_without_quality_values
>
> > [...]
> > The "KILLED" bit suggests the operating system killed the job -
> > most likely due to system limits like running out of RAM.
> > How much RAM does this machine have?
>
> Either not enough RAM on the machine or limited otherwise. See "man
> ulimit" for the 'otherwise'.
>
> B.
>
>
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