Hi,
I'm doing assembly of a metagenome of a non reference organism. Our dataset
is about 250G. I'm so glad to find the software Ray which can assemble in
parallel. The version which I used is Ray_1.7. I run it on a cluster with
18 nodes(216 cores in total) But when I execute the Ray program. I find
there is no output named contig.fasta when the job finished. The command is
:
mpirun -np 216 /parastor/users/shuws/software/ray_1.7/Ray -k 79 -p
/parastor/users/shuws/data/soil_metagenome/1107KHS-0021/Soil_DNA_1.fastq
/parastor/users/shuws/data/soil_metagenome/1107KHS-0021/Soil_DNA_2.fastq
-write-contig-paths -write-seeds -write-extensions -o Ray_assemble_v1_7_2
All files i get is listed below:
CoverageDistributionAnalysis.txt
CoverageDistribution.txt
MessagePassingInterf
MessagePassingInterface.txt
MessagePassingInterfP
NetworkTest.txt
NumberOfSequences.txt
RayCommand.txt
RayVersion.txt
SequencePartition.txt
I don't know why it has such problem. I saw the standard error file with
nothing in it. Also, standard output file have no useful information about
the job which I run. Without any error information, I don't know what to
do. So, can you help me about the question or give me some advice?
Thanks very much!
Hua
Zhengshuang
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