Hi Nate,

Thanks for the response. I have been testing out our installation to see what 
happens when the datasets get cleaned-out of the storage location. One thing I 
noticed is that the dataset disappears from the user's history. He is no longer 
able to view or use the dataset. That would circumvent any error that you 
mentioned, since the user can't find the dataset in the first place.

This would be fine for us, since we don't intend for the datasets to be kept 
indefinitely. That would lead to space issues.

However, the dataset is still referred to in the database in all relevant 
tables. Is there an existing script or tool in the installation that clears the 
database tables of such rows? If so, it would help keep the users' histories in 
sync with the database.

-----------------------------------------------
Ravi Sanka
ICS - Bioinformatics Engineer
J. Craig Venter Institute
301-795-7743
-----------------------------------------------

-----Original Message-----
From: Nate Coraor [mailto:n...@bx.psu.edu] 
Sent: Wednesday, August 17, 2011 12:52 PM
To: Sanka, Ravi
Cc: galaxy-dev@lists.bx.psu.edu; Zhang, Haiyan; Singh, Indresh
Subject: Re: [galaxy-dev] Galaxy: self-cleaning on file_path

Sanka, Ravi wrote:
> Hello,
> 
> We have recently put a local installation of Galaxy on our network and 
> connected it to a MYSQL database. In order to have more space available for 
> uploaded and created files, we also changed the values of file_path  and 
> new_file_path in the config file. The file_path field was changed to a 
> larger, communal location. The new_file_path was changed to a directory 
> called "tmp" in that same communal location.
> 
> This location, however, undergoes self-cleaning; deleting any files that 
> reach 7 days old (and any directories that have no files less than 7 days 
> old). This would include any datasets uploaded or created by Galaxy.
> 
> Can the Galaxy framework and schema handle this occurrence? Or will it cause 
> errors to occur?

Hi Ravi,

Galaxy won't know that the file has been removed until it tries to access it, 
and when that happens, it will fail whatever operation you are trying to 
perform (view, download, use the dataset as a tool input).

--nate

> 
> -----------------------------------------------
> Ravi Sanka
> ICS - Bioinformatics Engineer
> J. Craig Venter Institute
> 301-795-7743
> -----------------------------------------------
> 

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