Re: [galaxy-bugs] How to make a data library in a local galaxy instance?

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Re: [galaxy-bugs] How to make a data library in a local galaxy instance?

Greg Von Kuster
Hello Terry,

On Jun 14, 2010, at 8:42 AM, Terrence Barrette wrote:

Thanks Greg,
Had trouble getting this page from the wiki.  The search function is focused on bitbucket repositories.  How would I find this page in the wiki, to cut down on later questions?  Is there a search for the galaxy-central wiki that I am missing?

For now, it's best to watch our new features section links on our wiki home page - the section includes a site map link.

New features!

  • Read the details of newly introduced features.
  • Check out our preliminary site map

 
Looking at this page does it explain where the data going?  I need the data to live on my repository shares.  How do I direct galaxy to put them there?  Better yet how do I direct galaxy to see them there because if possible, I don't want 2 copies of my data library for the sequence data, its over 1 TB.  What happens if I paste a bunch of local file URLs in the URL text box?

By default, Galaxy stores all data files in the location specified in the universe_wsgi.ini file in this [relative] setting:

# Where dataset files are saved
file_path = database/files

Have you read our wiki discussing the various options for uploading files to a data library?  You'll probably want to use the "Upload files from filesystem paths" option and check the "Copy data into Galaxy?" box so the files stay where they are.


 
Is there a line by line breakdown of the universe_wsgi.ini file, or section by section?

Many more comments will soon be added to the config file to better communicate the uses for each setting.  This is on our "short list", so should be available within a couple of weeks.

 
Some background context...
I am creating a galaxy instance for the entire lab.  I would like to use the initial 8 core server as a starting point.  I would like to use our NAS for the data libraries and multiple GB result storage (like mapping results as a secondary lib) and also the local array for most results, but I can direct attach 7+ TB if that is more logical and faster.  I would like to direct analysis to dedicated analysis machines for the more intense work like mapping, etc.
 
Thanks,
Terry
 
 
 
 


>>> Greg Von Kuster <[hidden email]> 6/11/2010 1:10 PM >>>
Terrence, see our wiki at



On Jun 11, 2010, at 12:27 PM, Terrence Barrette wrote:

Hi,
What is the process to make a local data library on my local galaxy server?
Thanks
Terry
 
 
 
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Greg Von Kuster
Galaxy Development Team



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<Terrence Barrette2.vcf>

Greg Von Kuster
Galaxy Development Team




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