Configuring attribute visibility

Hi Damian

I did exactly that but it appeared in martview. It's not the end of the world if 
that attribute is visible, but it represents an internal ID and makes no sense 
to anybody else but us so it really shouldn't be there.

What's the difference between 'hidden' and 'hideDisplay' and how can I get that 
attribute to not appear in martview?

Cheers,
Rc

 > Hi Richard,
 >
 > I am fairly certain if you use hideDisplay in MartEditor they should still be 
 > available for a martservice query and not appear in martview.
 >
 > Cheers
 > Damian
 >
 >
 > On Tue, Jul 20, 2010 at 8:34 AM, Richard Cote <rcote <at> xxxxxxxxx> wrote:
 >
 >     Hi all
 >
 >     I want to expose some attributes via the martservice only, not through 
the > martviewer. What are the marteditor configuration settings to achieve this
 > goal?
 >
 >     Cheers,

FW: [BiO Jobs] Opportunity: FlyBase InterMine/BioMart developer <at> Indiana University--Bloomington, IN (US)

Re: Configuring attribute visibility

In theory, hidden means that it won't appear in either martview or martservice. This is better than just
deleting it because if you delete it and later do an update in MartEditor, it'll come back again. 

hideDisplay means it won't show up in martview, but it'll still appear in martservice.

At least, in theory. MartEditor is a bit temperamental in actually exporting settings sometimes.
Hopefully the soon-to-be-announced 0.8 will be a big improvement on this.

cheers,
Richard

On 3 Sep 2010, at 14:11, Richard Cote wrote:

> Hi Damian
> 
> I did exactly that but it appeared in martview. It's not the end of the world if that attribute is visible,
but it represents an internal ID and makes no sense to anybody else but us so it really shouldn't be there.
> 
> What's the difference between 'hidden' and 'hideDisplay' and how can I get that attribute to not appear in martview?
> 
> Cheers,
> Rc
> 
> 
> > Hi Richard,
> >
> > I am fairly certain if you use hideDisplay in MartEditor they should still be > available for a
martservice query and not appear in martview.
> >
> > Cheers
> > Damian
> >
> >
> > On Tue, Jul 20, 2010 at 8:34 AM, Richard Cote <rcote <at> xxxxxxxxx> wrote:
> >
> >     Hi all
> >
> >     I want to expose some attributes via the martservice only, not through the > martviewer. What are the
marteditor configuration settings to achieve this
> > goal?
> >
> >     Cheers,
> >     Rc
> >     --
> >     Richard Cote
> >     Software Engineer - PRIDE Project Team (Sequence Database Group)
> >     European Bioinformatics Institute
> >     Wellcome Trust Genome Campus                 rcote <at> xxxxxxxxx
> >     Hinxton, Cambridge CB10 1SD                  Phone: (+44) 1223 492610
> >     United Kingdom                               Fax  : (+44) 1223 494468
> 
> -- 
> Richard Cote
> Software Engineer - PRIDE Project Team (Sequence Database Group)
> European Bioinformatics Institute
> Wellcome Trust Genome Campus                 rcote <at> ebi.ac.uk
> Hinxton, Cambridge CB10 1SD                  Phone: (+44) 1223 492610
> United Kingdom                               Fax  : (+44) 1223 494468
> 

--
Richard Holland, BSc MBCS
Operations and Delivery Director, Eagle Genomics Ltd
T: +44 (0)1223 654481 ext 3 | E: holland <at> eaglegenomics.com
http://www.eaglegenomics.com/

Re: Configuring attribute visibility

Re: Configuring attribute visibility

Richard Holland wrote:
> 
> hideDisplay means it won't show up in martview, but it'll still appear in martservice.
> 
> At least, in theory. MartEditor is a bit temperamental in actually exporting settings sometimes.
Hopefully the soon-to-be-announced 0.8 will be a big improvement on this.
> 

Riiiiiiiiight. So is there a way I can kick it in the pants and make it behave 
like it should?

Cheers,
Rc
--

-- 
Richard Cote
Software Engineer - PRIDE Project Team (Sequence Database Group)
European Bioinformatics Institute
Wellcome Trust Genome Campus                 rcote <at> ebi.ac.uk
Hinxton, Cambridge CB10 1SD                  Phone: (+44) 1223 492610
United Kingdom                               Fax  : (+44) 1223 494468

possible biomart bug

Fwd: possible biomart bug

Recent sequence problems - rectified

Command Based marteditor

Hi,

I am working at Medical Research Council, Harwell, UK. We provide the
biomart interface to Europhenome database. We are trying to automate the
process of re-building biomart with new data. At the moment we need to run
marteditor manually and update the dataset in previously created mart. Is
there a command based marteditor tool available that allows us to script
everything for updating mart with the new data?

Thanks.

Europhenome Team
MRC, Harwell

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Re: Command Based marteditor

Hi!

  You might be interested in MartScript,
http://github.com/joejimbo/MartScript, which can be used to
automatically create Ensembl (and related) marts.

  I do not know your database structure, but perhaps it would work for
you with some minor modifications as well. The major downside of using
MartScript right now is obvious: I have been too lazy to document it
properly yet. If you have a go at it, please let me know and perhaps
we can figure out to get it working together. Are you around at Genome
Informatics next week? We could have a chat about it too.

Best Wishes,
Joachim

--

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