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Old 09-15-2017, 10:47 AM   #1
Vahidjj2005
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Location: Iran

Join Date: Jun 2017
Posts: 1
Default Question: (ERR): bowtie2-align exited with value 1

Hi I have a problem when run tophat. I have recieved this massage:
Error running bowtie:
Warning: output file '-' was specified without -s. This will not work in future Bowtie 2 versions. Please us -s instead.
Warning: could not open read file "/1AM21/tophat1/tmp/index" for reading; skipping...
Error: no input read files were valid.
(ERR): bowtie2-align exited with value 1
Please help me!!!

Also, the attached link is the picture of my commend!
https://ibb.co/msadyk
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