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<p class="MsoNormal"><span lang="EN-GB" style="font-size:11.0pt">Hi.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="font-size:11.0pt"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="font-size:11.0pt">I have a requirement to change some aspects of the OMERO default datastore layout.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="font-size:11.0pt"><o:p> </o:p></span></p>
<p class="p1"><span class="s1">omero.data.dir=/omero.datastore</span><o:p></o:p></p>
<p class="MsoNormal"><span lang="EN-GB" style="font-size:11.0pt"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="font-size:11.0pt">Where that might be a set of blocks mounted into a local filesystem, an NFS mount or something like it.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="font-size:11.0pt"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="font-size:11.0pt">OMERO provides a single path in the config file to put data “into” and within that, or underneath it puts its own directory hierarchy. This consists of the usual stuff:<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB" style="font-size:11.0pt"><o:p> </o:p></span></p>
<p class="p1"><span class="s1">drwxr-xr-x </span><span class="apple-converted-space">
</span><span class="s1">2 omero omero</span><span class="apple-converted-space">
</span><span class="s1">6 Jul</span><span class="apple-converted-space"> </span>
<span class="s1">1</span><span class="apple-converted-space"> </span><span class="s1">2014
</span><span class="s2"><b>DropBox</b></span><o:p></o:p></p>
<p class="p1"><span class="s1">drwxrwxr-x </span><span class="apple-converted-space">
</span><span class="s1">3 omero omero </span><span class="apple-converted-space">
</span><span class="s1">31 Oct</span><span class="apple-converted-space"> </span>
<span class="s1">2</span><span class="apple-converted-space"> </span><span class="s1">2015
</span><span class="s2"><b>.omero</b></span><o:p></o:p></p>
<p class="p1"><span class="s1">drwxr-xr-x </span><span class="apple-converted-space">
</span><span class="s1">2 omero omero 4.0K Mar</span><span class="apple-converted-space">
</span><span class="s1">2</span><span class="apple-converted-space"> </span><span class="s1">2016
</span><span class="s2"><b>FullText</b></span><o:p></o:p></p>
<p class="p1"><span class="s1">drwxr-xr-x </span><span class="apple-converted-space">
</span><span class="s1">5 omero omero </span><span class="apple-converted-space">
</span><span class="s1">85 Jul 17</span><span class="apple-converted-space"> </span>
<span class="s1">2016 </span><span class="s2"><b>BioFormatsCache</b></span><o:p></o:p></p>
<p class="p1"><span class="s1">drwxr-xr-x</span><span class="apple-converted-space">
</span><span class="s1">10 omero omero 4.0K Aug</span><span class="apple-converted-space">
</span><span class="s1">6</span><span class="apple-converted-space"> </span><span class="s1">2016
</span><span class="s2"><b>.</b></span><o:p></o:p></p>
<p class="p1"><span class="s1">drwx------ 127 omero omero 8.0K May 24 10:07 </span>
<span class="s2"><b>Pixels</b></span><o:p></o:p></p>
<p class="p1"><span class="s1">drwx------ 174 omero omero</span><span class="apple-converted-space">
</span><span class="s1">20K May 29 11:40 </span><span class="s2"><b>Thumbnails</b></span><o:p></o:p></p>
<p class="p1"><span class="s1">drwxr-xr-x 210 omero omero 8.0K Jun 22 15:10 </span>
<span class="s2"><b>ManagedRepository</b></span><o:p></o:p></p>
<p class="p1"><span class="s1">drwxr-xr-x 279 omero omero 8.0K Jun 24 00:00 </span>
<span class="s2"><b>Files</b></span><o:p></o:p></p>
<p class="p1"><span class="s1">drwxr-xr-x</span><span class="apple-converted-space">
</span><span class="s1">25 root</span><span class="apple-converted-space"> </span>
<span class="s1">root</span><span class="apple-converted-space"> </span><span class="s1">4.0K Jul 10 17:51
</span><span class="s2"><b>..</b></span><o:p></o:p></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">The problem I face or want to “make better” is as follows.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">I’m at a point where I need to be able to completely segregate users into different NFS mounts.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">Picture a situation where each user has their own collection and their own NFS mount that belongs to them, for various data categorisation needs. This is part of a broader effort to make a data collection approach for
each person.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">Such that each user has their own backend store – i.e. when I login my OMERO backing store is some NFS store that is specific to me. So if I login, it might be /omero.datastore/Q0XYZ but my colleague might login and his
might be /omero.datastore/Q0ABC<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">There is a lot of good rationale behind this which I won’t go into in this email as it is a long discussion in itself in and around the way we are managing collections, allocations and data distribution in high performance
data fabrics at the many (many) petabyte-scale which we operate – but we absolutely need to change omero from living in its own little world and keeping its own hierarchy to making a more distributed approach to compartmentalise the data structures for individuals.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">I.e: As it stands.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">OMERO </span><span lang="EN-GB" style="font-family:Wingdings">à</span><span lang="EN-GB"> storage structure
</span><span lang="EN-GB" style="font-family:Wingdings">à</span><span lang="EN-GB"> All users in here.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">OMERO </span><span lang="EN-GB" style="font-family:Wingdings">à</span><span lang="EN-GB"> n * storage structures for n(users)<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">I appreciate that this might need some thought in order to make it possible. I even considered fiddling around with some symlinks in the default OMERO Datastore in order to do this – but then rationalised that there is
a complex chicken-and-egg game to be played. I.e – when a user logs in for the first time, it’ll create a skeleton for the user the “wrong” way, then I’d need a series of steps and scripts to change it, symlink it and somehow shift it into one of the NFS mounts
associated with that user.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">Some guidance and thoughts/help would be appreciated.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">Cheers.<o:p></o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB"><o:p> </o:p></span></p>
<p class="MsoNormal"><span lang="EN-GB">-jc <o:p></o:p></span></p>
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