Simon,

In order for a dataset file to be removed from disk, no active library 
associations (LibraryDatasetDatasetAssociations) or history associations 
(HistoryDatasetAssociations) can be pointing to it.  When no active association 
objects are pointing to a dataset file, it will ultimate be removed from disk 
via option -3 (the purge_datasets option) in the cleanup_datasets.py script.  

However, another factor in removing the file from disk is that the configured 
number of days must have passed since everything pointing to the file was 
marked as deleted.  The default number of days in the script is 60.  To remove 
files from disk on the same day they were marked as deleted, override the 
default by setting the -d flag to 0.

Greg Von Kuster


On Apr 30, 2011, at 4:59 PM, Simon Lank wrote:

> Hi.
> 
> Our current galaxy database is ~ 600 gb, most of which are user deleted 
> datasets.
> 
> I followed the instructions here: 
> https://bitbucket.org/galaxy/galaxy-central/wiki/Config/PurgeHistoriesAndDatasets
> 
> and ran the shell scripts in recommended order. One of them in particular (I 
> think it was purge_histories.sh) took amost 24 hours to complete. However, it 
> doesn't appear any / most of the files were actually deleted, since we still 
> have ~ 600 gb of dataset files. Is there something obvious I can try to get 
> the files purged correctly? 
> 
> Thanks.
> 
> Simon
> 
> Simon Lank
> Research Specialist
> O'Connor Lab, WNPRC
> 555 Science Dr. Madison WI
> (608) 265-3389
> 
> ___________________________________________________________
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Greg Von Kuster
Galaxy Development Team
g...@bx.psu.edu



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