Could not locate a Bowtie index corresponding to basename "genome" #57

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pandafish123 opened this Issue Jul 3, 2017 · 2 comments

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Hi
Recently, i was using bowtie 1.2.1.1 to map fastq files to mouse genome. The following are my command lines.
bowtie-build --threads 10 Mus_musculus.GRCm38.dna_rm.toplevel.fa genome
image

nohup bowtie genome /data/disk4/chip/SRR3051599.fastq -S nibpl.sam -p 20 -m 1 &

However, i got error message "Could not locate a Bowtie index corresponding to basename "genome"

I do not know how to solve this problem.

Appreciate for your help

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ch4rr0 commented Jul 3, 2017

Were the two command lines ran in sequence? Is it possible that you did a cd before running the second?

Thanks for your reply.
Yes ,they were ran in sequence. By the way, does this matters? Besides, i've tried put the fastq files under the index. It does't work either.

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