On Jan 25, 2012, at 5:28 AM, Praveen Baskaran wrote:

> i have installed local instance of galaxy and have a small problem with 
> samtools. when i try to convert sam file to bam, the result pane shows that 
> the job is running (for several hours). but when check the galaxy log file, 
> it shows that the job is finished normally. i can also find the result (bam) 
> file in galaxy/database/files/000/ folder. can anyone help to resolve this 
> issue.

Hi Praveen,

Please change the following in your universe_wsgi.ini:

set_metadata_externally = True

And let us know if this makes a difference.  Most likely, the tool output is 
very large and the Galaxy process is setting metadata on it.  With metadata set 
externally, you'll be able to see this step as a separate process.

--nate

> 
> Thanks
> Praveen
> 
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