Dear all,
I use tophat --bowtie-n 4 to set bowtie mismatch, however, I found the error,
[Tue Aug 23 17:09:09 2011] Beginning TopHat run (v1.3.1)
-----------------------------------------------
[Tue Aug 23 17:09:09 2011] Preparing output location /tophat
[Tue Aug 23 17:09:09 2011] Checking for Bowtie index files
Error: Could not find Bowtie index files 4.*
It seems tophat recognize the bowtie command as a index file, however, I have pointed the index file in the command line, anyone idea?
I use tophat --bowtie-n 4 to set bowtie mismatch, however, I found the error,
[Tue Aug 23 17:09:09 2011] Beginning TopHat run (v1.3.1)
-----------------------------------------------
[Tue Aug 23 17:09:09 2011] Preparing output location /tophat
[Tue Aug 23 17:09:09 2011] Checking for Bowtie index files
Error: Could not find Bowtie index files 4.*
It seems tophat recognize the bowtie command as a index file, however, I have pointed the index file in the command line, anyone idea?
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