Question: Command Line Access to Galaxy Tools
2.1 years ago by
caluga61 • 0
caluga61 • 0 wrote:
I am new to Galaxy and NGS Data analysis in general. I was wondering if there is a way to to see the actual command line commands that Galaxy tools run on. For instance if I run Bowtie2 from the Galaxy interface is there a way to see how that particular job would look from the command line? Thanks for any input.
ADD COMMENT • link •modified 2.1 years ago by y.hoogstrate • 460 • written 2.1 years ago by caluga61 • 0
I came across this older post: https://biostar.usegalaxy.org/p/6493/#6522. Does anyone know how to purposely cause a tool to fail?
Providing incorrect inputs is a simple way. Assign the expected datatype/database then adjust the dataset content to be invalid.
Or for many tools, the command-line is now reported on the "i" info page for any dataset (successful or not). If that is available for target tools, it is a quick way to see the command-line structure.