[mira_talk] Re: big file in the log diretory
- From: Stephanie Pearl <pearlsa110@xxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Tue, 22 Mar 2011 06:32:21 -0400
Hello,
I have a similar question about reducing the amount of output in the log
file. I'm trying to run an est hybrid denovo assembly on multiple strains --
2 strains contain 454 reads (~500,000 and ~300,000) and 1 strain contains
Sanger reads (~40,000). Is it okay to delete files from the log file while
the program is still running? My program has been running for close to a
week now and is taking up a lot of shared space, so I was wondering if you
had any tips for speeding along the process and reducing the amount of file
space that the log file is occupying.
Thanks!
Stephanie
On Mon, Mar 21, 2011 at 2:55 PM, Bastien Chevreux <bach@xxxxxxxxxxxx> wrote:
> On Monday 21 March 2011 13:12:12 Kishi wrote:
>
> > I'm using mira3 for assembly with Solexa data....
>
> > I have over 35 million Illumina reads, 100 bp, and in the log directory
>
> > mira3 generates a very large file.... (~ 3 tera HD)
>
> You did not specify which version of MIRA and which command you used. I'm
> guessing here: 3.2.1 and a denovo job?
>
> This would be outside the recommended specification for MIRA 3.2.1, see
>
>
> http://mira-assembler.sourceforge.net/docs/DefinitiveGuideToMIRA.html#sect_for_which_data_sets_to_use_mira_and_for_which_not
>
> > How do I avoid this?
>
> Have a look at the latest development release (3.2.1.9) on SourceForge ...
> that one will bring a first relief. The next development version (due
> sometime in the next week) will improve disk utilisation even further.
>
> B.
>
>
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