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FelixKrueger / Bismark

A tool to map bisulfite converted sequence reads and determine cytosine methylation states
http://felixkrueger.github.io/Bismark/
GNU General Public License v3.0
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Installation issue #146

Closed ClaireXinSun closed 6 years ago

ClaireXinSun commented 6 years ago

Hi,

I am new in bisulfite sequencing analysis and is learning Bismark.But I got a problem in installing the software.

I have Bowtie2 and samtools in my path, but after I un-tar the package by "tar xzf Bismark_v0.19.0" and "cd Bismark_v0.19.0", I can not install it by "make" or "sudo make". it said "No targets specified and no makefile found. Stop."

I also tried to just execute bismark (thought it is running on top of bowtie), it also failed. Do you have any idea about this? Sorry about the stupid question. Thanks for any help.

Cheers Claire

FelixKrueger commented 6 years ago

Hi Claire,

After un-taring Bismark you don't need to install it or run a make command, it should just work. If you run:

cd Bismark_v0.19.0
./bismark --help

It should just work. If not, please can you show what is happening?

ClaireXinSun commented 6 years ago

Hi Felix,

Thank you a lot for helping me out. It works now.

Cheers Claire