Re: broken links and other publication logistics for the KB and SenseLab documents

On Sat, Mar 8, 2008 at 3:45 PM, Eric Prud'hommeaux <eric@w3.org> wrote:

> Alan, I believe you are the interface for these unregistered PURLS.
>  http://purl.org/commons/hcls/goa
>  http://purl.org/science/protein/subjects/
>  http://purl.org/science/record/homologene/cluster_r54_99949


Actually I was the one who set up all the purls. I will take care of these
soon, probably within a week.

>
> The third one requires a rewrite rule and I haven't gotten my purl
> account (ericP)approved so I can't fiddle with the interfaces.


It's under the science commons (/science/) purl domain that you don't
administer, so an account isn't sufficient. I have access so I can set these
up as well.

(Lack of resolution doesn't make a URI meaningless; it just makes finding
its meaning more difficult.)

>
> (If we tried to use SC's existing purl page, we resolve
> <cluster_r54_99949> against
> <
> http://sw.neurocommons.org/cgi-bin/about-303?ref=/science/protein/bysequence/
> >,
> giving us <http://sw.neurocommons.org/cgi-bin/r54_99949>
>
> http://hcls1.csail.mit.edu:8890/map/ is now broken. Is there an update
> for this linke? or should we remove reference:
> [[
> <p>Below are a few visual interfaces that make it possible to browse the
> results of a search on the knowledgebase:</p>
> <ul>
>  <li><a href="http://hcls1.csail.mit.edu:8890/map/#Kcnip3@2850,Kcnd1@2800">Prototype
> of a Google-Maps interface</a> to the Allen Brain Atlas.</li>
>  ...
> ]]


As we discussed last December the hcls1 and hcls2 hostnames are now the
responsibility of W3C. Please set them up however you like.

http://svn.neurocommons.org/svn/ gives a 500 error. Is that script broken?

That URL should be http://svn.neurocommons.org/svn/trunk/, as the root of
the repository is protected.

 Scott, did you mean to include snapshots of all the RDF and OWL data
> in the publication? I saw lots of broken relative links from Appendix
> A RDF Sources.
>  bams-from-swanson-98-4-23-07.owl
>  senselab.tgz
>  mesh07-eswc06.rdfs
>  medline/medline-mesh.tgz
>  homologene.tgz
>  goa-in-owl.tgz
>  mesh-qualified-headings.ttl.gz
>  sciencecommons.owl
>  neurocommons-text-mining.tgz
>  aba-2007-08-07.tgz
>  mesh-skos.tgz
>  gene-pubmed.ttl.tgz
>  galen.tgz
>  obo-in-owl.tgz
>  obo-all.tgz
>  addgene.ttl
>  medline/medline-titles.tgz
>  gene-owl.tgz
>
Science Commons is having server hardware trouble. Our provision of these
files (http://sw.neurocommons.org/2007/kb-sources/) should be repaired
within a week.
Note that out of respect to NLM's wishes the medline files will continue to
be protected. Anything you say about them is likely to be unrepeatable.

- Show quoted text -
>
> I found the first one at
>  http://hissa.nist.gov/jb/biordf-demo/bams-from-swanson-98-4-23-07.owl
> but decided that you might have plans for the bulk of these.
>
> Note to self:
> http://www.ebi.ac.uk/ego/DisplayGoTerm is broken right now. I'm hoping
> that's transient, and will resolve itself by Monday.
>
> All:
> Sorry about the publication delays. I think we can publish on Monday if
> all
> of these get resolved. Here are the SOTDs I have queued:
>
> KB
> [[
> This is a First Public Working Draft of the Semantic Web in Health
> Care and Life Sciences Interest Group (HCLS), part of the W3C Semantic
> Web Activity. This document documents the construction and use of the
> HCLS Knowledgebase used in the WWW2007 Banff HCLS Demo. It describes
> the process for creating a bilogical database on the Semantic Web.
>
> Please send all comments on either of these documents to
> public-semweb-lifesci@w3.org, a mailing list with a public archive,
> though the IG does not promise explicit responses to each
> comment. Publication of this document as an Interest Group Note is
> planned for early April 2008; timely comments are appreciated. Areas
> marked with "@@" are known to be incomplete, however, any suggestions
> in these areas are still appreciated.
> ]]
>
> SenseLab
> [[
> This is a First Public Working Draft of the Semantic Web in Health
> Care and Life Sciences Interest Group (HCLS), part of the W3C Semantic
> Web Activity. This document serves as a companion to the HCLSIG
> Knowldege Base and describes the process for integrating new data into
> an existing bilogical fdatabase.
>
> Please send all comments on either of these documents to
> public-semweb-lifesci@w3.org, a mailing list with a public archive,
> though the IG does not promise explicit responses to each
> comment. Publication of this document as an Interest Group Note is
> planned for early April 2008; timely comments are appreciated.
> ]]
>
> If anyone would like to invite particular feedback on parts of these
> documents, I should put that in the SOTD.
> --
> -eric
>
> office: +1.617.258.5741 32-G528, MIT, Cambridge, MA 02144 USA
> mobile: +1.617.599.3509
>
> (eric@w3.org)
> Feel free to forward this message to any list for any purpose other than
> email address distribution.
>
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Jonathan