[mira_talk] Re: 0.5TB not enough space?
- From: Evan <evan@xxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Mon, 15 Aug 2011 10:06:49 -0700
You can use the program miramem to estimate the needed RAM requirements but
I'm not aware of a way to estimate the disk space needed for an assembly.
On Mon, Aug 15, 2011 at 9:57 AM, Iddo Friedberg <idoerg@xxxxxxxxx> wrote:
> OK. So any rule-of-thumb to calculate the necessary local log space?
>
>
> On Mon, Aug 15, 2011 at 12:46 PM, Evan <evan@xxxxxxxxxxx> wrote:
>
>> Yes that sounds about right..
>>
>>
>> On Mon, Aug 15, 2011 at 9:41 AM, Iddo Friedberg <idoerg@xxxxxxxxx> 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
>>>
>>
>>
>
>
> --
> Iddo Friedberg
> http://iddo-friedberg.net/contact.html
>
Other related posts:
