[mira_talk] Illumina mapping - boost::thread_resource_error
- From: vladimir mashanov <mashanovvlad@xxxxxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Fri, 20 May 2011 16:57:56 -0400
Dear Bastien,
I am trying to map 4,5 million illumina reads onto 126215 reads
derived from a de novo 454 assembly. I am consistently getting
boost::thread_resource_error.
Most illumina reads are 61 bases long (adapter clipping, quality
trimming and duplicate removal were performed by external tools). It
is probably not a memory problem. miramem estimates the memory needs
at about 10 Gb, and I am running the job on a node with 60 Gb RAM.
Here is my script to call MIRA:
--project=first_Norm1_vs_combined454 --job=mapping,est,accurate,solexa
-SB:lb=yes:sbuip=1:bft=fasta COMMON_SETTINGS -GE:not=1 -SK:mchr=40
96 SOLEXA_SETTINGS -CO:msr=yes
Could you please tell what is wrong?
Thank you,
Vladimir
--
Vladimir Mashanov, PhD
Universidad de Puerto Rico
Faculdad de Ciencias Naturales
Departamento de Biologia
JGD Building, #220
PO Box 70377, UPR Station
Rio Piedras, PR 00936-8377
email: mashanovvlad@xxxxxxxxxxxxxx;
vladimir.mashanov@xxxxxxxxx
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