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Old 08-08-2015, 05:16 AM   #1
cmccabe
Senior Member
 
Location: chicago

Join Date: Jul 2012
Posts: 353
Default bowtie2 2.6.0 command not found

I downloaded bowtie2-2.6.0 from github, extracted, and installed it. I added it to path using:

Code:
 echo "export PATH=\$PATH:export PATH=$PATH:"/media/C2F8EFBFF8EFAFB9/bowtie2-2.6.0"/" >> ~/.bashrc
and confirmed it using:

Code:
 cat ~/.bashrc
Code:
 /media/C2F8EFBFF8EFAFB9/picard-tools-1.135/:/media/C2F8EFBFF8EFAFB9/bowtie2-2.6.0/
it appears to be added but when I try to build and index using combined files from chromFA.tar.gz using:

Code:
 bowtie2-build hg19.fa hg19
No command 'bowtie2-build' found, did you mean:
 Command 'bowtie-build' from package 'bowtie' (universe)
bowtie2-build: command not found
What did I do wrong? Thank you .
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