Question: Galaxy custom tool doesn't exit from "waiting to run" condition
0
gravatar for Grishin
2.7 years ago by
Grishin10
Russian Federation
Grishin10 wrote:

I have some trouble with custom tool on my local Galaxy. I have a script that exactly works. It has very simple syntax:

tool.sh <path/to/input> <path/to/output>

​I have such tool definition file:

<tool id="tool" name="tool"
      force_history_refresh="True">
  <command><path/to/tool.sh> $input $output</command>
  <inputs>
    <param name="name" type="data" format="fastq"/>
  </inputs> 
  <outputs>
    <data name="output" format="vcf"/>
  </outputs>
</tool>

When i try to run this tool on some test file, i have only the grey window with the "This job is waiting to run" text and nothing more.

Thanks for your help!

tool galaxy local • 713 views
ADD COMMENTlink modified 2.7 years ago • written 2.7 years ago by Grishin10
0
gravatar for Grishin
2.7 years ago by
Grishin10
Russian Federation
Grishin10 wrote:

I'm sorry, this is just a regular misprint. The strings:

 <inputs>
    <param name="name" type="data" format="fastq"/>
 </inputs> 

should be:

<inputs>
    <param name="input" type="data" format="fastq"/>
</inputs> 
ADD COMMENTlink written 2.7 years ago by Grishin10
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 90 users visited in the last hour