Question: Trying to run a Tophat on a local galaxy server but it gives me an empty bam file and following message: galaxy_27.sh: line 29: bowtie2-build: command not found
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gravatar for jaeil.han
2.8 years ago by
jaeil.han10
United States
jaeil.han10 wrote:

I am trying to run a Tophat on a local galaxy server but it shows a following message.

I guess I need Bowtie2 installed. I already installed bowtie but I cannot find bowtie2 in tool_shed

 

Log: tool progress Log: tool progress /Users/jaeilhan/Downloads/galaxy-dev/database/job_working_directory/000/27/galaxy_27.sh: line 29: bowtie2-build: command not found /Users/jaeilhan/Downloads/galaxy-dev/database/job_working_directory/000/27/galaxy_27.

galaxy • 753 views
ADD COMMENTlink modified 2.8 years ago • written 2.8 years ago by jaeil.han10
0
gravatar for jaeil.han
2.8 years ago by
jaeil.han10
United States
jaeil.han10 wrote:

I actually found the Bowtie2 but it says No Items when I tried to install.

ADD COMMENTlink written 2.8 years ago by jaeil.han10
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