Hi Steffen,<br><div class="gmail_quote"><br><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">first, thanks for your fast replies. What do you mean with "I have CCed the OME users list"?<br>
</blockquote><div><br>There is an OME mailing list for asking questions such as yours:<br>
<a href="http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users/" target="_blank">http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users/</a><br><br>Asking on the list is better for two reasons: 1) there are many developers on the list with various expertise, who can more effectively answer your questions; and 2) other users with the same question later can locate the answer in the archives instead of needing to ask again.<br>
<br>Looks like you are using the forums too, which is fine. But it is best to use either the mailing list, forums or both, rather than emailing developers directly.<br><br></div><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">
<div>
> Presumably, you do not actually want to mix and match two different OME<br>
> schema versions (or if so, why?), but rather want to use your own custom<br>
> schema along with OME.<br>
<br>
</div>Yes, of course I dont want to mix two schema versions. It was just an example.<br>
<br>
Do you have any xml file that is using structered annotations? Just to
have an example. As I understand it, it is just possible to add the
annotations at certain places within the document, as described at <a href="http://trac.openmicroscopy.org.uk/omero/wiki/StructuredAnnotations" target="_blank">http://trac.openmicroscopy.org.uk/omero/wiki/StructuredAnnotations</a>.</blockquote>
<div><br>Sorry, the StructuredAnnotations element is still fairly new, so I do not have any examples handy. Andrew might, but he is away until Monday.<br><br></div><blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">
So if we want to have an additional laser type, say DPSS, it is not
possible to add it with structered annotations. We would have to wait
until it is implemented in OME. Is that right or is there any
possibility?<br></blockquote><div><br>One thing you could do is set the Laser type to "Other," and create StructuredAnnotations that reference the Laser ID in question and indicate a string value of your choice. Ideally, though, you would request DPSS to be added to the schema proper, and it would be included in the next version.<br>
</div></div><br>-Curtis<br><br><div class="gmail_quote">On Wed, Dec 16, 2009 at 1:21 PM, Steffen Illig <span dir="ltr"><<a href="mailto:Steffen.Illig@gmx.net" target="_blank">Steffen.Illig@gmx.net</a>></span> wrote:<br>
<blockquote class="gmail_quote" style="border-left: 1px solid rgb(204, 204, 204); margin: 0pt 0pt 0pt 0.8ex; padding-left: 1ex;">Hey Curtis,<br>
<br>
first, thanks for your fast replies. What do you mean with "I have CCed the OME users list"?<br>
<div><br>
> Presumably, you do not actually want to mix and match two different OME<br>
> schema versions (or if so, why?), but rather want to use your own custom<br>
> schema along with OME.<br>
<br>
</div>Yes, of course I dont want to mix two schema versions. It was just an example.<br>
<br>
Do you have any xml file that is using structered annotations? Just to have an example. As I understand it, it is just possible to add the annotations at certain places within the document, as described at <a href="http://trac.openmicroscopy.org.uk/omero/wiki/StructuredAnnotations" target="_blank">http://trac.openmicroscopy.org.uk/omero/wiki/StructuredAnnotations</a>. So if we want to have an additional laser type, say DPSS, it is not possible to add it with structered annotations. We would have to wait until it is implemented in OME. Is that right or is there any possibility?<br>
<br>
-Steffen<br>
<br>
<br>
-------- Original-Nachricht --------<br>
> Datum: Tue, 15 Dec 2009 14:49:47 -0600<br>
<div>> Von: Curtis Rueden <<a href="mailto:ctrueden@wisc.edu" target="_blank">ctrueden@wisc.edu</a>><br>
</div>> An: Steffen Illig <<a href="mailto:Steffen.Illig@gmx.net" target="_blank">Steffen.Illig@gmx.net</a>><br>
> CC: OME-users mailing list <<a href="mailto:ome-users@lists.openmicroscopy.org.uk" target="_blank">ome-users@lists.openmicroscopy.org.uk</a>><br>
<div><div></div><div>> Betreff: Re: [General Contact] Possible to have own schema besides ome one?<br>
<br>
> Hi Steffen,<br>
><br>
> I have CCed the OME users list, since your question is relevant to others.<br>
><br>
> what I described in my post (below) is not working. Let me give you an<br>
> > example, probably you will find my mistake.<br>
> ><br>
> > In the ome schema of 2009 (see<br>
> > <a href="http://www.openmicroscopy.org/Schemas/OME/2009-09" target="_blank">http://www.openmicroscopy.org/Schemas/OME/2009-09</a>) you will find a tag<br>
> > called "MiddleName" in "Experimenter", which is not there in the schema<br>
> of<br>
> > 2008.<br>
> ><br>
> > If you say<br>
> ><br>
> > <OME xmlns="<a href="http://www.openmicroscopy.org/Schemas/OME/2008-09" target="_blank">http://www.openmicroscopy.org/Schemas/OME/2008-09</a>"<br>
> > xmlns:ome2009="<a href="http://www.openmicroscopy.org/Schemas/OME/2009-09" target="_blank">http://www.openmicroscopy.org/Schemas/OME/2009-09</a>" ....><br>
> > ...<br>
> > <Experimenter ID="Experimenter:sillig"><br>
> > <FirstName>Stefan</FirstName><br>
> > <ome2009:MiddleName>Bernhard</ome2009:MiddleName><br>
> > <LastName>Schnell</LastName><br>
> > <Email><a href="mailto:xyz@mpimf.de" target="_blank">xyz@mpimf.de</a></Email><br>
> > <Institution>MaxPlanckInstituteMF</Institution><br>
> > <GroupRef ID="Group:Lightmicroscopy1"/><br>
> > </Experimenter><br>
> > ...<br>
> > it will not be validated.<br>
> ><br>
><br>
> In this case, I believe the problem is that the ome2009:MiddleName element<br>
> needs to appear beneath an ome2009:Experimenter element (not an<br>
> Experimenter<br>
> from the 2008-09 schema).<br>
><br>
> Presumably, you do not actually want to mix and match two different OME<br>
> schema versions (or if so, why?), but rather want to use your own custom<br>
> schema along with OME. Take a look at how we mix and match between<br>
> ome.xsd,<br>
> SA.xsd and others—e.g.:<br>
> <a href="http://www.openmicroscopy.org/Schemas/SA/2009-09/SA.xsd" target="_blank">http://www.openmicroscopy.org/Schemas/SA/2009-09/SA.xsd</a><br>
><br>
> Specifically, we import the base ome.xsd schema first:<br>
> <xsd:import namespace="<a href="http://www.openmicroscopy.org/Schemas/OME/2009-09" target="_blank">http://www.openmicroscopy.org/Schemas/OME/2009-09</a>"<br>
> schemaLocation="<a href="http://www.openmicroscopy.org/Schemas/OME/2009-09/ome.xsd" target="_blank">http://www.openmicroscopy.org/Schemas/OME/2009-09/ome.xsd</a>"/><br>
><br>
> If you use a similar procedure in your custom schema, you can create<br>
> elements that can legally appear beneath an <OME>, <Image> or other<br>
> element<br>
> from the ome.xsd schema.<br>
><br>
> HTH,<br>
> Curtis<br>
><br>
> On Tue, Dec 15, 2009 at 12:49 PM, Steffen Illig<br>
> <<a href="mailto:Steffen.Illig@gmx.net" target="_blank">Steffen.Illig@gmx.net</a>>wrote:<br>
><br>
> > Hi Curtis,<br>
> ><br>
> > what I described in my post (below) is not working. Let me give you an<br>
> > example, probably you will find my mistake.<br>
> ><br>
> > In the ome schema of 2009 (see<br>
> > <a href="http://www.openmicroscopy.org/Schemas/OME/2009-09" target="_blank">http://www.openmicroscopy.org/Schemas/OME/2009-09</a>) you will find a tag<br>
> > called "MiddleName" in "Experimenter", which is not there in the schema<br>
> of<br>
> > 2008.<br>
> ><br>
> > If you say<br>
> ><br>
> > <OME xmlns="<a href="http://www.openmicroscopy.org/Schemas/OME/2008-09" target="_blank">http://www.openmicroscopy.org/Schemas/OME/2008-09</a>"<br>
> > xmlns:ome2009="<a href="http://www.openmicroscopy.org/Schemas/OME/2009-09" target="_blank">http://www.openmicroscopy.org/Schemas/OME/2009-09</a>" ....><br>
> > ...<br>
> > <Experimenter ID="Experimenter:sillig"><br>
> > <FirstName>Stefan</FirstName><br>
> > <ome2009:MiddleName>Bernhard</ome2009:MiddleName><br>
> > <LastName>Schnell</LastName><br>
> > <Email><a href="mailto:xyz@mpimf.de" target="_blank">xyz@mpimf.de</a></Email><br>
> > <Institution>MaxPlanckInstituteMF</Institution><br>
> > <GroupRef ID="Group:Lightmicroscopy1"/><br>
> > </Experimenter><br>
> > ...<br>
> > it will not be validated.<br>
> ><br>
> > Regards Steffen<br>
> ><br>
> ><br>
> > -------- Original-Nachricht --------<br>
> > > Datum: Mon, 14 Dec 2009 01:22:53 -0600<br>
> > > Von: Curtis Rueden <<a href="mailto:ctrueden@wisc.edu" target="_blank">ctrueden@wisc.edu</a>><br>
> > > An: <a href="mailto:steffen.illig@gmx.net" target="_blank">steffen.illig@gmx.net</a><br>
> > > CC: Kevin Eliceiri <<a href="mailto:eliceiri@wisc.edu" target="_blank">eliceiri@wisc.edu</a>>, Andrew Patterson <<br>
> > <a href="mailto:ajpatterson@lifesci.dundee.ac.uk" target="_blank">ajpatterson@lifesci.dundee.ac.uk</a>><br>
> > > Betreff: Re: [General Contact] Possible to have own schema besides ome<br>
> > one?<br>
> ><br>
> > > Hi Steffan,<br>
> > ><br>
> > > just a short question: Is it possible to embed another schema next to<br>
> the<br>
> > > > ome.xsd one to refer our needs?<br>
> > > > e.g: <OME xmlns="<a href="http://www.openmicroscopy.org/Schemas/OME/2008-09" target="_blank">http://www.openmicroscopy.org/Schemas/OME/2008-09</a>"<br>
> > > > xmlns:OUR_LAB="<a href="http://xyz" target="_blank">http://xyz</a>" ...><br>
> > > > How do I do this?<br>
> > > ><br>
> > ><br>
> > > Absolutely, you have the right idea. If you have created your own<br>
> schema,<br>
> > > and are hosting it on your web server, you can indeed reference it in<br>
> > that<br>
> > > fashion. Then you just use the "OUR_LAB" namespace with elements from<br>
> > your<br>
> > > schema.<br>
> > ><br>
> > > Of course, anything in your XML blocks not from the OME schema will<br>
> > likely<br>
> > > be ignored by Bio-Formats and other OME-compatible software.<br>
> > ><br>
> > > Let us know on the OME users mailing list (<br>
> > > <a href="http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users/" target="_blank">http://lists.openmicroscopy.org.uk/mailman/listinfo/ome-users/</a>) if you<br>
> > > have<br>
> > > any problems with it.<br>
> > ><br>
> > > -Curtis<br>
> > ><br>
> > > On Mon, Dec 07, 2009 at 6:36 PM, <<a href="mailto:steffen.illig@gmx.net" target="_blank">steffen.illig@gmx.net</a>> wrote:<br>
> > > ><br>
> > > > Hi,<br>
> > > > just a short question: Is it possible to embed another schema next<br>
> to<br>
> > > the<br>
> > > > ome.xsd one to refer our needs?<br>
> > > > e.g: <OME xmlns="<a href="http://www.openmicroscopy.org/Schemas/OME/2008-09" target="_blank">http://www.openmicroscopy.org/Schemas/OME/2008-09</a>"<br>
> > > > xmlns:OUR_LAB="<a href="http://xyz" target="_blank">http://xyz</a>" ...><br>
> > > > How do I do this?<br>
> > > > Regards, Steffen<br>
> > > ><br>
> ><br>
> > --<br>
> > GRATIS für alle GMX-Mitglieder: Die maxdome Movie-FLAT!<br>
> > Jetzt freischalten unter <a href="http://portal.gmx.net/de/go/maxdome01" target="_blank">http://portal.gmx.net/de/go/maxdome01</a><br>
> ><br>
<br>
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