Question: findPeaks in homer
0
gravatar for mohamadrezakeshtkar
8 weeks ago by
mohamadrezakeshtkar0 wrote:

I'm a computer engineer and not very familiar with the Homer tool, I studied homer but I do not know what causes the low error?

findPeaks Sox2-ChIP-Seq  -style factor -o auto
error-->findPeaks: command not found
chip-seq findpeaks homer • 186 views
ADD COMMENTlink modified 8 weeks ago by _r_am32k • written 8 weeks ago by mohamadrezakeshtkar0

Please be more careful while creating posts - this is a Question type post and not a Tool type post. I've made the necessary change this time. Read: How to Use Biostars, Part II: Post types, Deleting, (Un)Subscribing, Linking and Bookmarking

ADD REPLYlink modified 8 weeks ago • written 8 weeks ago by _r_am32k

Yes you are right Do you have an idea to answer my question?

ADD REPLYlink written 8 weeks ago by mohamadrezakeshtkar0

You probably don't have the executable/binary in your PATH. What platform (OS) are you on?

ADD REPLYlink written 8 weeks ago by _r_am32k

ubuntu19

ADD REPLYlink written 8 weeks ago by mohamadrezakeshtkar0

And how did you install homer? Using apt-get/a similar package manager or from source?

ADD REPLYlink written 8 weeks ago by _r_am32k

apt-get

ADD REPLYlink written 8 weeks ago by mohamadrezakeshtkar0

That's odd - apt-get install should take care of PATH settings. Did the package install successfully? Can you give us the command you used? Maybe run it again and give us all the output (STDOUT & STDERR) you see.

ADD REPLYlink written 8 weeks ago by _r_am32k

Now I was able to solve the above problem with your guidance. I did not add the executable path correctly.

Thank you very much.

ADD REPLYlink modified 8 weeks ago • written 8 weeks ago by mohamadrezakeshtkar0
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