[mira_talk] Re: MIRA run failing due to megahubs
- From: Jose Huguet Tapia <jch63@xxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Wed, 25 Jun 2014 12:42:38 -0400
Hello Victoria,
I believe that you could set the megahubs limit to a 1.
add
-SK:mmhr=1 (for 1 % megahub accepted)
Which version are you using? I work with V 4.0. and I found that the
megahub limit is set up to 90. I do not if this right. Maybe Bastien could
have a suggestion. My case seems to be more dramatical!. I have more than
90
Thanks
On Wed, Jun 25, 2014 at 11:36 AM, Offord, Victoria <vofford@xxxxxxxxx>
wrote:
> Hi,
>
>
>
> My MIRA run on a parasite transcriptome keeps ending with:
>
>
>
> You have 0.1052271917% of your reads as megahubs.
>
> You have set a maximum allowed ratio of: 0.0000000000
>
>
>
> Ending the assembly because the maximum ratio has been reached/surpassed.
>
> Failure, wrapped MIRA process aborted.
>
>
>
> Does anyone have any advice on how I can avoid this? I have copied in the
> manifest below.
>
>
>
> Thank you in advance,
>
>
>
> Victoria
>
>
>
> project = MergedAssembly
>
> job = est,denovo,accurate
>
> parameters = -DI:trtmira.4574 -NW:cmrnl=no -NW:ctp=no -HS:mnr=yes:nrr=15
> 454_SETTINGS -AL:egp=no
>
>
>
> readgroup = illumina
>
> data = L008_R1_001.fastq L008_R2_001.fastq
>
> technology = solexa
>
> segment_placement = ---> <---
>
>
>
> readgroup = 454_schicht
>
> data = schicht.fastq
>
> technology = 454
>
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