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Bowtie1 installation problem

Hey guys. I am trying to install bowtie1 on my mac but having some difficulties. I am using brew install bowtie it exited withe following error.

Error: No previously deleted formula found.
==> Searching for similarly named formulae...
....
This formula was found in a tap:
caskroom/cask/bowtie
To install it, run:
  brew install caskroom/cask/bowtie

I ran brew install caskroom/cask/bowtie. it said brew successfully installed bowtie. but when I do bowtie -h, it doesn't give help menu. I have also tried to follow some suggestions on downloading unzipping and directing the command to the folder to install. But wasn't successful. Does anyone know why and what I can do differently?

alignment mapping bowtie1 smallrnas
• 3,175 views • link
updated by cemdede • cemdede • written by jaqx008 jaqx008

I am not sure that is the correct bowtie program.

As an option you can get the pre-compiled binary for macOS here.

• 1 views • link
written by GenoMax GenoMax

Thank you Genomax. I downloaded it and noticed that I have to work in the bowtie directory for it to work... Thanks again

• 1 views • link
written by jaqx008 jaqx008

Not necessarily. All you have to do is to add the directory with the botwie executable to your $PATH like this:

export PATH=$PATH:/full_path_to_directory_with_bowtie_executable
• 1 views • link
written by GenoMax GenoMax

Oh. Yea I will do this next time, I took the long route already. Thanks again

• 1 views • link
written by jaqx008 jaqx008

1 answer

For those who installed the Brew, but could not install tophat. Try this one:

brew update

brew tap brewsci/bio

brew install bowtie

brew install tophat
• 1 views • link
written by cemdede • cemdede

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