treebase-devel

[Treebase-devel] rebuild production?

[William P. <wil...@ya...>]

Hi,

Youjun's latest commit is a valuable addition because it should (for now) solve the problem of "ghost data" and being unable to work with submissions after deleting one of the matrices.  Also, he has made improvements to our OAI-PMH service. 

Can we do a new build for this today? 

thanks,

BIll

Re: [Treebase-devel] rebuild production?

[Vladimir G. <vla...@du...>]

Did we have OAI-PMH in operation before?  If you are confident you do  
not want to see it on dev first, we'll redeploy to dev and prod at the  
same time.   Otherwise, send a stop-order.

In any case, please let me know if I need to be aware of anything  
regarding AOI-PMH in order to maintain the deployments here.   So far,  
I do not even have its source code configured in my Eclipse. (I just  
presume the Maven command 'mvn package -Dmaven.test.skip=true' does  
everything that's needed.)

--Vladimir

On Apr 8, 2010, at 4:02 PM, William Piel wrote:

> Hi,
>
> Youjun's latest commit is a valuable addition because it should (for  
> now) solve the problem of "ghost data" and being unable to work with  
> submissions after deleting one of the matrices.  Also, he has made  
> improvements to our OAI-PMH service.
>
> Can we do a new build for this today?
>
> thanks,
>
> BIll
>
>
>
> ------------------------------------------------------------------------------
> Download Intel® Parallel Studio Eval
> Try the new software tools for yourself. Speed compiling, find bugs
> proactively, and fine-tune applications for parallel performance.
> See why Intel Parallel Studio got high marks during beta.
> http://p.sf.net/sfu/intel-sw-dev
> _______________________________________________
> Treebase-devel mailing list
> Tre...@li...
> https://lists.sourceforge.net/lists/listinfo/treebase-devel

Re: [Treebase-devel] rebuild production?

[youjun g. <you...@ya...>]

Just take it as a group of new pages(xml) in treebase-web, no extra
mainlines need to be done.

Youjun

On Thu, Apr 8, 2010 at 5:00 PM, Vladimir Gapeyev
<vla...@du...>wrote:

> Did we have OAI-PMH in operation before?  If you are confident you do
> not want to see it on dev first, we'll redeploy to dev and prod at the
> same time.   Otherwise, send a stop-order.
>
> In any case, please let me know if I need to be aware of anything
> regarding AOI-PMH in order to maintain the deployments here.   So far,
> I do not even have its source code configured in my Eclipse. (I just
> presume the Maven command 'mvn package -Dmaven.test.skip=true' does
> everything that's needed.)
>
> --Vladimir
>
> On Apr 8, 2010, at 4:02 PM, William Piel wrote:
>
> > Hi,
> >
> > Youjun's latest commit is a valuable addition because it should (for
> > now) solve the problem of "ghost data" and being unable to work with
> > submissions after deleting one of the matrices.  Also, he has made
> > improvements to our OAI-PMH service.
> >
> > Can we do a new build for this today?
> >
> > thanks,
> >
> > BIll
> >
> >
> >
> >
> ------------------------------------------------------------------------------
> > Download Intel&#174; Parallel Studio Eval
> > Try the new software tools for yourself. Speed compiling, find bugs
> > proactively, and fine-tune applications for parallel performance.
> > See why Intel Parallel Studio got high marks during beta.
> > http://p.sf.net/sfu/intel-sw-dev
> > _______________________________________________
> > Treebase-devel mailing list
> > Tre...@li...
> > https://lists.sourceforge.net/lists/listinfo/treebase-devel
>
>
>
> ------------------------------------------------------------------------------
> Download Intel&#174; Parallel Studio Eval
> Try the new software tools for yourself. Speed compiling, find bugs
> proactively, and fine-tune applications for parallel performance.
> See why Intel Parallel Studio got high marks during beta.
> http://p.sf.net/sfu/intel-sw-dev
> _______________________________________________
> Treebase-devel mailing list
> Tre...@li...
> https://lists.sourceforge.net/lists/listinfo/treebase-devel
>

Re: [Treebase-devel] rebuild production?

[youjun g. <you...@ya...>]

The source code of oai-pmh was seamlessly merged into treebase-web MVC. It
has become part of the treebase in sourceforge. Re-build the most uptodate
vreson of treebase as usual will do the job.

Youjun

On Thu, Apr 8, 2010 at 5:00 PM, Vladimir Gapeyev
<vla...@du...>wrote:

> Did we have OAI-PMH in operation before?  If you are confident you do
> not want to see it on dev first, we'll redeploy to dev and prod at the
> same time.   Otherwise, send a stop-order.
>
> In any case, please let me know if I need to be aware of anything
> regarding AOI-PMH in order to maintain the deployments here.   So far,
> I do not even have its source code configured in my Eclipse. (I just
> presume the Maven command 'mvn package -Dmaven.test.skip=true' does
> everything that's needed.)
>
> --Vladimir
>
> On Apr 8, 2010, at 4:02 PM, William Piel wrote:
>
> > Hi,
> >
> > Youjun's latest commit is a valuable addition because it should (for
> > now) solve the problem of "ghost data" and being unable to work with
> > submissions after deleting one of the matrices.  Also, he has made
> > improvements to our OAI-PMH service.
> >
> > Can we do a new build for this today?
> >
> > thanks,
> >
> > BIll
> >
> >
> >
> >
> ------------------------------------------------------------------------------
> > Download Intel&#174; Parallel Studio Eval
> > Try the new software tools for yourself. Speed compiling, find bugs
> > proactively, and fine-tune applications for parallel performance.
> > See why Intel Parallel Studio got high marks during beta.
> > http://p.sf.net/sfu/intel-sw-dev
> > _______________________________________________
> > Treebase-devel mailing list
> > Tre...@li...
> > https://lists.sourceforge.net/lists/listinfo/treebase-devel
>
>
>
> ------------------------------------------------------------------------------
> Download Intel&#174; Parallel Studio Eval
> Try the new software tools for yourself. Speed compiling, find bugs
> proactively, and fine-tune applications for parallel performance.
> See why Intel Parallel Studio got high marks during beta.
> http://p.sf.net/sfu/intel-sw-dev
> _______________________________________________
> Treebase-devel mailing list
> Tre...@li...
> https://lists.sourceforge.net/lists/listinfo/treebase-devel
>

Re: [Treebase-devel] rebuild production?

[William P. <wil...@ya...>]

On Apr 8, 2010, at 5:00 PM, Vladimir Gapeyev wrote:

> If you are confident you do  not want to see it on dev first, we'll redeploy to dev and prod at the  
> same time.   Otherwise, send a stop-order.

Has a rebuild happened yet? (sorry -- I'm not sure how to tell -- seeing as the revision number is not being updated)

It's important that rev 680 happen as soon as we can -- because with prior-to-680 versions, any use of delete matrix or delete tree causes a corruption in the whole submission. 

bp

Re: [Treebase-devel] rebuild production?

[Jon A. <jon...@du...>]

Yes, this morning. I think there is some move towards getting build dates to display on at least one of the jsp pages.
-Jon

On Apr 9, 2010, at 4:40 PM, William Piel wrote:

> 
> On Apr 8, 2010, at 5:00 PM, Vladimir Gapeyev wrote:
> 
>> If you are confident you do  not want to see it on dev first, we'll redeploy to dev and prod at the  
>> same time.   Otherwise, send a stop-order.
> 
> Has a rebuild happened yet? (sorry -- I'm not sure how to tell -- seeing as the revision number is not being updated)
> 
> It's important that rev 680 happen as soon as we can -- because with prior-to-680 versions, any use of delete matrix or delete tree causes a corruption in the whole submission. 
> 
> bp
> 
> 
> 
> ------------------------------------------------------------------------------
> Download Intel® Parallel Studio Eval
> Try the new software tools for yourself. Speed compiling, find bugs
> proactively, and fine-tune applications for parallel performance.
> See why Intel Parallel Studio got high marks during beta.
> http://p.sf.net/sfu/intel-sw-dev
> _______________________________________________
> Treebase-devel mailing list
> Tre...@li...
> https://lists.sourceforge.net/lists/listinfo/treebase-devel

-------------------------------------------------------
Jon Auman
Systems Administrator
National Evolutionary Synthesis Center
Duke University
http:www.nescent.org
jon...@ne...
------------------------------------------------------

Re: [Treebase-devel] rebuild production?

[youjun g. <you...@ya...>]

> Has a rebuild happened yet? (sorry -- I'm not sure how to tell -- seeing as
> the revision number is not being updated)
>

Bill,

It was done. Try these oai-pmh links by replace
"http://130.132.27.212:8080<http://130.132.27.212:8080/treebase-web/top/oai?verb=Identify>"
with "treebase.org".

Youun


http://130.132.27.212:8080/treebase-web/top/oai?verb=Identify
http://130.132.27.212:8080/<http://130.132.27.212:8080/data_provider_web/top/oai?verb=ListSets>
treebase- <http://130.132.27.212:8080/treebase-web/top/oai?verb=Identify>
web/top/oai?verb=ListSets<http://130.132.27.212:8080/treebase-web/top/oai?verb=ListSets>
http://130.132.27.212:8080/<http://130.132.27.212:8080/data_provider_web/top/oai?verb=ListMetadataFormats>
treebase-<http://130.132.27.212:8080/data_provider_web/top/oai?verb=Identify>
web/top/oai?verb=ListMetadataFormats<http://130.132.27.212:8080/treebase-web/top/oai?verb=ListMetadataFormats>
http://130.132.27.212:8080/<http://130.132.27.212:8080/data_provider_web/top/oai?verb=ListRecords&metadataPrefix=oai_dc&until=1996-11-04T00:00:00Z>
treebase-<http://130.132.27.212:8080/data_provider_web/top/oai?verb=Identify>
web/top/oai?verb=ListRecords&metadataPrefix=oai_dc&until=1996-11-04T00:00:00Z<http://130.132.27.212:8080/treebase-web/top/oai?verb=ListRecords&metadataPrefix=oai_dc&until=1996-11-04T00:00:00Z>
http://130.132.27.212:8080/<http://130.132.27.212:8080/data_provider_web/top/oai?verb=GetRecord&metadataPrefix=oai_dc&identifier=TB:s1234>
treebase-<http://130.132.27.212:8080/data_provider_web/top/oai?verb=Identify>
web/top/oai?verb=GetRecord&metadataPrefix=oai_dc&identifier=TB:s1234<http://130.132.27.212:8080/treebase-web/top/oai?verb=GetRecord&metadataPrefix=oai_dc&identifier=TB:s1234>
http://130.132.27.212:8080/<http://130.132.27.212:8080/data_provider_web/top/oai?verb=ListIdentifiers&metadataPrefix=oai_dc&until=1996-11-04T00:00:00Z>
treebase-<http://130.132.27.212:8080/data_provider_web/top/oai?verb=Identify>
web/top/oai?verb=ListIdentifiers&metadataPrefix=oai_dc&until=1996-11-04T00:00:00Z<http://130.132.27.212:8080/treebase-web/top/oai?verb=ListIdentifiers&metadataPrefix=oai_dc&until=1996-11-04T00:00:00Z>

[Treebase-devel] rebuild dev?

[William P. <wil...@ya...>]

Dear Jon and Vladimir,

Turns out that the record deletion build did not fix the problem -- evidently two different methods for establishing the mapping between study and taxonlabels have been used, and the result is a conflict that's difficult to fix. At any rate, Youjun thinks he has it licked now, but we cannot test it at the Peabody because our development build is on Windows, and we lack Mesquite for uploading data files. 

Don't know if either of you happen to be in today, but it would be great if we could have a build on dev so that I can test this new fix. If this new fix works, then we can build on production. 

thanks,

Bill