Howdy,
I am getting the following error with tophat:
Error in tophat:
[2012-12-27 15:08:40] Beginning TopHat run (v2.0.5)
-----------------------------------------------
[2012-12-27 15:08:40] Checking for Bowtie
Traceback (most recent call last):
File "/usr/bin/tophat", line 4035, in <module>
sys.exit(main())
File "/usr/bin/tophat", line 3836, in main
check_bowtie(params)
File "/usr/bin/tophat", line 1473, in check_bowtie
bowtie_version = get_bowtie_version(params.bowtie2)
File "/usr/bin/tophat", line 1351, in get_bowtie_version
bowtie_version = [int(x) for x in ver_numbers[:3]] +
[int(ver_numbers[3][4:])]
IndexError: list index out of range
I tried Tophat and Tophat2 a couple times and always giving me the same
error. The reads I am trying to map are from small RNA sequencing project.
I am trying to map the unannotated reads back to the genome. I am not sure
what is causing this problem, any help will be appreciated.
Thank you.
Luciano