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Question: Local Galaxy BWA Error
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gravatar for miles.william.mee
3.8 years ago by
miles.william.mee • 10
Canada
miles.william.mee • 10 wrote:

I have a local instance of galaxy running. I'm trying to allign some paired end fastq files to a reference. I've installed bwa through the tool shed but when I try and run it, it returns an error saying

 

Tool execution generated the following error message:

Error indexing reference sequence. /bin/sh: 1: bwa: not found

 

The tool produced the following additional output:

Could not determine BWA version

 

Does anyone know what's going wrong here?

 

Thanks,

Miles
bwa local • 961 views
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written 3.8 years ago by miles.william.mee • 10
0
gravatar for Martin Čech
3.8 years ago by
Martin Čech ♦♦ 4.9k
United States
Martin Čech ♦♦ 4.9k wrote:

What Tool Shed repository did you install? Did you uncheck that Galaxy should handle the dependencies during the installation process?
ADD COMMENT • link written 3.8 years ago by Martin Čech ♦♦ 4.9k
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