[mira_talk] Re: 0.5TB not enough space?
- From: Iddo Friedberg <idoerg@xxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Mon, 15 Aug 2011 13:36:32 -0400
Oops. I put up the wrong logfile. The run was definitely not on an NFS
system
Here is the new log file: http://db.tt/6VxJ8sW
Sorry,
Iddo
On Mon, Aug 15, 2011 at 1:29 PM, Robert Bruccoleri <
bruc@xxxxxxxxxxxxxxxxxxxxx> wrote:
> Dear Iddo,
> The run failed because the log files are being written to an NFS mounted
> filesystem. NFS filesystem do slow things down, so Bastien made Mira stop
> unless you specifically tell it to continue on NFS.
> Please add -MI:sonfs=no to the COMMON_SETTINGS section and try again.
>
> Regards,
> Bob
>
>
> Iddo Friedberg wrote:
>
>> Hi,
>>
>> I have 9582196 mate-paired Solexa seqeunces, 100bp long. The genome I am
>> assembling is somewhere between 700KB and 1.5MB (Mycoplasma).
>>
>> Anyhow, It seems like I rant out of my 500GB local space for the log
>> files. Is that reasonable? I can increase local scratch space, I just want
>> to make sure that I am not doing something wrong. Seems like quite a bit of
>> space to be used for such an assembly.
>>
>> Parameters I used:
>>
>> --project=CCGTCC COMMON_SETTINGS -DI:trt=/localscratch/friedbi/**mira_logs
>> --job=denovo,genome,accurate,**solexa SOLEXA_SETTINGS
>> -GE:tismin=150:tismax=350
>>
>> The entire logfile is available here, if someone is interested in more
>> information: http://db.tt/6VxJ8sW
>>
>> Thanks in advance for any help!
>>
>> Iddo
>>
>>
>> --
>> Iddo Friedberg
>> http://iddo-friedberg.net/**contact.html<http://iddo-friedberg.net/contact.html>
>>
>
>
--
Iddo Friedberg
http://iddo-friedberg.net/contact.html
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