Hi Greg,<br><br>I have just tried out the last Galaxy sources and in particular the purging scripts. They work fine. W.r.t the decision you made, it is fine by us. Those scripts are quite well documented and they have very useful flags.<br>
<br>cheers,<br>Erick<br><br><div class="gmail_quote">2009/12/17 Greg Von Kuster <span dir="ltr">&lt;<a href="mailto:greg@bx.psu.edu">greg@bx.psu.edu</a>&gt;</span><br><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">
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Hello Erick,<div><br></div><div>We discussed this and decided that at the current time there is no significant gain from adding this additional item to the Admin menu.  The scripts have all been designed to execute via cron and can also easily be run from the command line.  We don&#39;t want to configure additional threads to handle this process via the web interface.  We hope this decision will not cause problems for your instance.</div>
<div><br></div><div>Greg Von Kuster</div><div><div><div></div><div class="h5"><br><div><div>On Dec 16, 2009, at 4:35 AM, Erick Antezana wrote:</div><br><blockquote type="cite"><div style="margin: 0px;">Hi Greg,</div><div style="margin: 0px; min-height: 14px;">
<br></div><div style="margin: 0px;"><span>  </span>are there still any plans to add a link to the clean_datasets.py</div><div style="margin: 0px;">script from the Admin view?</div><div style="margin: 0px; min-height: 14px;">
<br></div><div style="margin: 0px;">Erick</div><div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;">2009/7/17 Greg Von Kuster &lt;<a href="mailto:ghv2@psu.edu" target="_blank">ghv2@psu.edu</a>&gt;:</div>
 <blockquote type="cite"><div style="margin: 0px;">Hi Erick,</div><div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;">The process we&#39;ve been using on our Galaxy instances has been to set up cron</div>
<div style="margin: 0px;">to execute the shell scripts on a daily basis, something like this:</div><div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;"># clean up datasets</div><div style="margin: 0px;">
0 7 * * * cd /var/opt/home/g2test/server-home/test ; sh</div><div style="margin: 0px;">./scripts/cleanup_datasets/delete_userless_histories.sh ; sh</div><div style="margin: 0px;">./scripts/cleanup_datasets/purge_histories.sh ; sh</div>
<div style="margin: 0px;">./scripts/cleanup_datasets/purge_datasets.sh</div><div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;">This works quite well, and the logs files for each of these processes can be</div>
<div style="margin: 0px;">viewed to see what occurred.</div><div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;">We&#39;ll definitely consider adding a link to this script in the Admin view as</div>
<div style="margin: 0px;">well.</div><div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;">Greg Von Kuster</div><div style="margin: 0px;">Galaxy Development Team</div><div style="margin: 0px; min-height: 14px;">
<br></div><div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;">Erick Antezana wrote:</div> <blockquote type="cite"><div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;">
Hi Greg,</div><div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;">thanks for the heads-up.</div><div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;">the scripts work fine; however, it would be great to have such</div>
<div style="margin: 0px;">functionality from within the Admin interface (Data section?). Are there any</div><div style="margin: 0px;">plans to implement such request?</div><div style="margin: 0px; min-height: 14px;"><br></div>
<div style="margin: 0px;">cheers,</div><div style="margin: 0px;">Erick</div><div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;">2009/7/16 Greg Von Kuster &lt;<a href="mailto:ghv2@psu.edu" target="_blank">ghv2@psu.edu</a> &lt;<a href="mailto:ghv2@psu.edu" target="_blank">mailto:ghv2@psu.edu</a>&gt;&gt;</div>
<div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;">   Hi Erick,</div><div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;">   Never do this manually as it will result in problems in your</div>
<div style="margin: 0px;">   Galaxy instance.  Use the</div><div style="margin: 0px;">   ~/scripts/cleanup_datasets/cleanup_datasets.py script in the</div><div style="margin: 0px;">   Galaxy distribution.  Refer to the</div>
<div style="margin: 0px;">   <a href="http://g2.trac.bx.psu.edu/wiki/PurgeHistoriesAndDatasets" target="_blank">http://g2.trac.bx.psu.edu/wiki/PurgeHistoriesAndDatasets</a> wiki for</div><div style="margin: 0px;">   deatils about executing the script.</div>
<div style="margin: 0px;">   The wiki is a bit outdated - we have a bitbucket ticket open ( #</div><div style="margin: 0px;">   99 -</div><div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;"> <a href="http://bitbucket.org/galaxy/galaxy-central/issue/99/update-the-purgehistoriesanddatasets-wiki" target="_blank">http://bitbucket.org/galaxy/galaxy-central/issue/99/update-the-purgehistoriesanddatasets-wiki</a></div>
<div style="margin: 0px;">   ) to correct this.</div><div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;">   Greg Von Kuster</div><div style="margin: 0px;">   Galaxy Development Team</div><div style="margin: 0px; min-height: 14px;">
<br></div><div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;">   Erick Antezana wrote:</div><div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;">       Hi,</div><div style="margin: 0px; min-height: 14px;">
<br></div><div style="margin: 0px;">        how can I purge my deleted datasets that were imported so</div><div style="margin: 0px;">       that I could clean a bit my disk? I saw they are under</div><div style="margin: 0px;">
       database/files/000/*</div><div style="margin: 0px; min-height: 14px;"><br></div><div style="margin: 0px;">       thanks,</div><div style="margin: 0px;">       Erick</div><div style="margin: 0px; min-height: 14px;">
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<br></div><div style="margin: 0px; min-height: 14px;"><br></div> </blockquote><div style="margin: 0px; min-height: 14px;"><br></div> </blockquote></blockquote></div><br></div></div><div> <span style="border-collapse: separate; color: rgb(0, 0, 0); font-family: Helvetica; font-size: medium; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; text-indent: 0px; text-transform: none; white-space: normal; word-spacing: 0px;"><div>
<div></div><div class="h5"><div>Greg Von Kuster</div><div>Galaxy Development Team</div></div></div><div><a href="mailto:greg@bx.psu.edu" target="_blank">greg@bx.psu.edu</a></div><div><br></div></span><br> </div><br></div>
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