Question: Local Galaxy BWA Error
gravatar for miles.william.mee
3.8 years ago by
miles.william.mee10 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?




bwa local • 961 views
ADD COMMENTlink written 3.8 years ago by miles.william.mee10
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 COMMENTlink written 3.8 years ago by Martin Čech ♦♦ 4.9k
Please log in to add an answer.


Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 174 users visited in the last hour