URIs as annotation values not showing up

[cmungall]

Example:
http://purl.obolibrary.org/obo/UBERON_0001882

The database_cross_references field shows all values of this property that are literals.

but not IRIs. Underlying OWL:

   <owl:Class rdf:about="http://purl.obolibrary.org/obo/UBERON_0001882">
...
        <rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">nucleus accumbens</rdfs:label>
         <oboInOwl:hasDbXref rdf:resource="http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=277"/>
        <oboInOwl:hasDbXref rdf:resource="http://en.wikipedia.org/wiki/Nucleus_accumbens"/>
        <oboInOwl:hasDbXref rdf:resource="http://ncicb.nci.nih.gov/xml/owl/EVS/Accumbens_Nucleus"/>
        <oboInOwl:hasDbXref rdf:resource="http://uri.neuinfo.org/nif/nifstd/birnlex_727"/>

[ontoden]

I see. We will try to fix this soon.

Interestingly, the page of the example also includes figure image reference:

<foaf:depicted_by rdf:resource="http://upload.wikimedia.org/wikipedia/commons/9/93/Circuit_du_syst%C3%A8me_de_recompense.jpg"/>

Probably we can try to use this example to show the image.

Thanks,

Oliver

---

From: Chris Mungall [notifications@github.com]
Sent: Thursday, May 15, 2014 9:19 PM
To: ontoden/ontobee
Subject: [ontobee] URIs as annotation values not showing up (#13)

Example:
http://purl.obolibrary.org/obo/UBERON_0001882

The database_cross_references field shows all values of this property that are literals.

but not IRIs. Underlying OWL:

<owl:Class rdf:about="http://purl.obolibrary.org/obo/UBERON_0001882">
...
<rdfs:label rdf:datatype="http://www.w3.org/2001/XMLSchema#string">nucleus accumbens/rdfs:label
<oboInOwl:hasDbXref rdf:resource="http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=277"/>
<oboInOwl:hasDbXref rdf:resource="http://en.wikipedia.org/wiki/Nucleus_accumbens"/>
<oboInOwl:hasDbXref rdf:resource="http://ncicb.nci.nih.gov/xml/owl/EVS/Accumbens_Nucleus"/>
<oboInOwl:hasDbXref rdf:resource="http://uri.neuinfo.org/nif/nifstd/birnlex_727"/>

—
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[cmungall]

Images would be great

There's something odd to do with the character escaping in this example

• try cerebellum for an image that works

On 15 May 2014, at 18:37, ontoden wrote:

I see. We will try to fix this soon.

Interestingly, the page of the example also includes figure image
reference:

<foaf:depicted_by
rdf:resource="http://upload.wikimedia.org/wikipedia/commons/9/93/Circuit_du_syst%C3%A8me_de_recompense.jpg"/>

Probably we can try to use this example to show the image.

Thanks,

Oliver

---

From: Chris Mungall [notifications@github.com]
Sent: Thursday, May 15, 2014 9:19 PM
To: ontoden/ontobee
Subject: [ontobee] URIs as annotation values not showing up (#13)

Example:
http://purl.obolibrary.org/obo/UBERON_0001882

The database_cross_references field shows all values of this property
that are literals.

but not IRIs. Underlying OWL:

<owl:Class rdf:about="http://purl.obolibrary.org/obo/UBERON_0001882">
...
<rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">nucleus
accumbens/rdfs:label
<oboInOwl:hasDbXref
rdf:resource="http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=277"/>
<oboInOwl:hasDbXref
rdf:resource="http://en.wikipedia.org/wiki/Nucleus_accumbens"/>
<oboInOwl:hasDbXref
rdf:resource="http://ncicb.nci.nih.gov/xml/owl/EVS/Accumbens_Nucleus"/>
<oboInOwl:hasDbXref
rdf:resource="http://uri.neuinfo.org/nif/nifstd/birnlex_727"/>

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#13 (comment)

[ontoden]

Hi Chris,

Bin in my lab has made it happen: now we can see the images in Ontobee:

http://www.ontobee.org/browser/rdf.php?o=UBERON&iri=http://purl.obolibrary.org/obo/UBERON_0001882
more examples:
http://purl.obolibrary.org/obo/UBERON_0001874
http://purl.obolibrary.org/obo/UBERON_0001875
http://purl.obolibrary.org/obo/UBERON_0002741

The other issue about the database_cross_references has also seen solved.

Please check out.

Best,

Oliver

From: Chris Mungall [mailto:notifications@github.com]
Sent: Friday, May 16, 2014 12:18 AM
To: ontoden/ontobee
Cc: ontoden
Subject: Re: [ontobee] URIs as annotation values not showing up (#13)

Images would be great

There's something odd to do with the character escaping in this example

• try cerebellum for an image that works

On 15 May 2014, at 18:37, ontoden wrote:

I see. We will try to fix this soon.

Interestingly, the page of the example also includes figure image
reference:

<foaf:depicted_by
rdf:resource="http://upload.wikimedia.org/wikipedia/commons/9/93/Circuit_du_syst%C3%A8me_de_recompense.jpg"/>

Probably we can try to use this example to show the image.

Thanks,

Oliver

---

From: Chris Mungall [notifications@github.com]
Sent: Thursday, May 15, 2014 9:19 PM
To: ontoden/ontobee
Subject: [ontobee] URIs as annotation values not showing up (#13)

Example:
http://purl.obolibrary.org/obo/UBERON_0001882

The database_cross_references field shows all values of this property
that are literals.

but not IRIs. Underlying OWL:

<owl:Class rdf:about="http://purl.obolibrary.org/obo/UBERON_0001882">
...
<rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">nucleus
accumbens/rdfs:label
<oboInOwl:hasDbXref
rdf:resource="http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=277"/>
<oboInOwl:hasDbXref
rdf:resource="http://en.wikipedia.org/wiki/Nucleus_accumbens"/>
<oboInOwl:hasDbXref
rdf:resource="http://ncicb.nci.nih.gov/xml/owl/EVS/Accumbens_Nucleus"/>
<oboInOwl:hasDbXref
rdf:resource="http://uri.neuinfo.org/nif/nifstd/birnlex_727"/>

—
Reply to this email directly or view it on
GitHubhttps://github.com//issues/13.

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Reply to this email directly or view it on GitHub:
#13 (comment)

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Reply to this email directly or view it on GitHubhttps://github.com//issues/13#issuecomment-43295305.

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[ontoden]

Great work Bin! Very nice!

I see there are duplicates but this is a problem on my end, will fix.

On 19 May 2014, at 12:28, He, Yongqun wrote:

Hi Chris,

Bin in my lab has made it happen: now we can see the images in
Ontobee:

http://www.ontobee.org/browser/rdf.php?o=UBERON&iri=http://purl.obolibrary.org/obo/UBERON_0001882
more examples:
http://purl.obolibrary.org/obo/UBERON_0001874
http://purl.obolibrary.org/obo/UBERON_0001875
http://purl.obolibrary.org/obo/UBERON_0002741

The other issue about the database_cross_references has also seen
solved.

Please check out.

Best,

Oliver

From: Chris Mungall [mailto:notifications@github.com]
Sent: Friday, May 16, 2014 12:18 AM
To: ontoden/ontobee
Cc: ontoden
Subject: Re: [ontobee] URIs as annotation values not showing up (#13)

Images would be great

There's something odd to do with the character escaping in this
example

• try cerebellum for an image that works

On 15 May 2014, at 18:37, ontoden wrote:

I see. We will try to fix this soon.

Interestingly, the page of the example also includes figure image
reference:

<foaf:depicted_by
rdf:resource="http://upload.wikimedia.org/wikipedia/commons/9/93/Circuit_du_syst%C3%A8me_de_recompense.jpg"/>

Probably we can try to use this example to show the image.

Thanks,

Oliver

---

From: Chris Mungall [notifications@github.com]
Sent: Thursday, May 15, 2014 9:19 PM
To: ontoden/ontobee
Subject: [ontobee] URIs as annotation values not showing up (#13)

Example:
http://purl.obolibrary.org/obo/UBERON_0001882

The database_cross_references field shows all values of this property
that are literals.

but not IRIs. Underlying OWL:

<owl:Class rdf:about="http://purl.obolibrary.org/obo/UBERON_0001882">
...
<rdfs:label
rdf:datatype="http://www.w3.org/2001/XMLSchema#string">nucleus
accumbens/rdfs:label
<oboInOwl:hasDbXref
rdf:resource="http://braininfo.rprc.washington.edu/centraldirectory.aspx?ID=277"/>
<oboInOwl:hasDbXref
rdf:resource="http://en.wikipedia.org/wiki/Nucleus_accumbens"/>
<oboInOwl:hasDbXref
rdf:resource="http://ncicb.nci.nih.gov/xml/owl/EVS/Accumbens_Nucleus"/>
<oboInOwl:hasDbXref
rdf:resource="http://uri.neuinfo.org/nif/nifstd/birnlex_727"/>

—
Reply to this email directly or view it on
GitHubhttps://github.com//issues/13.

---

Electronic Mail is not secure, may not be read every day, and should
not be used for urgent or sensitive issues

---

Reply to this email directly or view it on GitHub:
#13 (comment)

—
Reply to this email directly or view it on
GitHubhttps://github.com//issues/13#issuecomment-43295305.

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