Hi I am new user for TOPHAT. I am trying to align my RNASeq single end reads from illumina with human genome refernce GRCH37. My system specifications are 32 GB RAM and 1TB allotment to ubuntu in a total of 2 TB harddisk. But still I hget the following error. Please suggest me the solution.
[2014-01-18 13:30:47] Mapping left_kept_reads.m2g_um to genome genome with Bowtie2
[FAILED]
Error running bowtie:
Out of memory allocating the ebwt[] array for the Bowtie index. Please try
again on a computer with more memory.
Error: Encountered internal Bowtie 2 exception (#1)
Command: /usr/local/bin/bowtie2-align -k 1 -D 15 -R 2 -N 0 -L 20 -i S,1,1.25 --gbar 4 --mp 6,2 --np 1 --rdg 5,3 --rfg 5,3 --score-min C,-14,0 -p 4 --sam-no-hd -x /home/linux/Desktop/NGSsampledata/Homo_sapiens_Ensembl_GRCh37/Homo_sapiens/Ensembl/GRCh37/Sequence/Bowtie2Index/genome -
Thanks
[2014-01-18 13:30:47] Mapping left_kept_reads.m2g_um to genome genome with Bowtie2
[FAILED]
Error running bowtie:
Out of memory allocating the ebwt[] array for the Bowtie index. Please try
again on a computer with more memory.
Error: Encountered internal Bowtie 2 exception (#1)
Command: /usr/local/bin/bowtie2-align -k 1 -D 15 -R 2 -N 0 -L 20 -i S,1,1.25 --gbar 4 --mp 6,2 --np 1 --rdg 5,3 --rfg 5,3 --score-min C,-14,0 -p 4 --sam-no-hd -x /home/linux/Desktop/NGSsampledata/Homo_sapiens_Ensembl_GRCh37/Homo_sapiens/Ensembl/GRCh37/Sequence/Bowtie2Index/genome -
Thanks
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