Run PICRUSt online in Galaxy

[Morgan Langille]

Just a quick announcement that you can now run PICRUSt online in Galaxy: http://huttenhower.sph.harvard.edu/galaxy/root?tool_id=PICRUSt_normalize

This saves you having to install and run PICRUSt on your own machine. 

Thanks,

Morgan Langille
http://morganlangille.com

[Dominick Lemas]

Greetings,

I am working through the PICRUSt tutorial on Galaxy and I am having
problems with the final step -"Categorize by Function". When I input
the previous file that was successfully output by the "Predict
Metagenome" program . . I get the following error:

0 bytes
An error occurred running this job: Traceback (most recent call last):
File "/home/usr/local/galaxy-dist/tools/picrust_galaxy/
categorize_by_function.py", line 74, in <module>
main()
File "/home/usr/local/galaxy-dist/tools/picrust_galaxy/
categorize_by_function.py", line 60, in main

Any thoughts or help would be greatly appreciated.

Cheers

Dominick


On Feb 22, 11:24 am, Morgan Langille <morgan.g.i.langi...@gmail.com>
wrote:

[Morgan Langille]

What level are you collapsing at? The default 3? Also, are you possibly selecting the tab-delimited output from predict metagenome step? This should be left unselected and the output should be in biom format. 

Thanks,

Morgan Langille
http://morganlangille.com

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[Ali Faruqi]

Hi,

I am facing a similar problem. I am collapsing it at the default 3 and letting the output in biom format. But the error remains. Any advices? Thanks a lot.

[nast...@oum.edu.my]

Hi,

I receiving errors during normalising the data.  My file is in .biom format. Any advices and suggestions is very much appreciated.

Nas

[Aqleem Abbas]

Dear Sir,

Thank you for sharing the online galaxy. One function I could not run using galaxy online. I donot know how much time it takes to complete. It gives error. IMetagenome Contributions by Gene Family on data 6 . 

Thanks

Aqleem Abbas

[Gavin Douglas]

Hi there,

You’ll need to click the little bug icon to see the error. What you’ve pasted in just the job name (if it’s in green that typically means that it finished correctly).

Best,

Gavin

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[Aqleem Abbas]

Ok Sir, Thanks