Thanks for the Arek, makes perfect sense and works a treat. And thanks
for the pointer to a different part of the docs.
Onwards and upwards :-)
Ellen.
On 14/12/11 17:27, Arek Kasprzyk wrote:
Dear Ellen,
The 0.8 REST api is not yet ready to be officially released. I have
reviewed it recently and it requires a little bit of cleaning because
the current implementation is not very intuitive. Basically, when you
ask for a mart you actually supply its configuration as a parameter.
It is our intenation that in the near future it will be changed such
that you will be able to supply mart and it will use its default
configuration while other configurations will become an optional
parameter.
If you simply want to play with it, please supply config name as a
mart argument.
e.g in the call:
http://central.biomart.org/martservice/marts
you willl get:
mart mart="gene_ensembl" config="gene_ensembl_config_3"
please use:
http://central.biomart.org/martservice/datasets?mart=gene_ensembl_config_3
instead of:
http://central.biomart.org/martservice/datasets?mart=gene_ensembl
I know this is unituitive and therefore i am reluctant to release it
until we clean it up but if you want to play with it you are more than
welcome
please look at the example on page 75 (11.3.5). this should make it
more clear
a
On Wed, Dec 14, 2011 at 12:01 PM, Ellen Schofield
<[email protected]
<mailto:[email protected]>> wrote:
Hi All,
I am investigating using BioMart for our website and am trying to
understand BioMart 0.8. To do so, I am using the martservice REST
api to interrogate the central biomart service and look at how
things that work are set up.
According to the docs (page 69, section 11.3.3.3), the following
should return me a list of datasets for a given mart name:-
http://central.biomart.org/martservice/datasets?mart=gene_ensembl
But all I am seeing is a page not found error. Have I
mis-understood something or is something going wrong? The same
error (for a different mart, of course) can be reproduced on the
cancer portal and my own test portal. The martserive works for
the portal & marts methods for me.
I look forward to hearing from somebody.
Yours,
Ellen.
--
[email protected] <mailto:[email protected]>
JDRF/WT Diabetes and Inflammation Laboratory (DIL)
Cambridge Institute for Medical Research (CIMR)
Wellcome Trust/MRC Building
Addenbrooke's Hospital Hills Road Cambridge CB2 0XY
Tel: 01223 763215
_______________________________________________
Users mailing list
[email protected] <mailto:[email protected]>
https://lists.biomart.org/mailman/listinfo/users
--
[email protected]
JDRF/WT Diabetes and Inflammation Laboratory (DIL)
Cambridge Institute for Medical Research (CIMR)
Wellcome Trust/MRC Building
Addenbrooke's Hospital Hills Road Cambridge CB2 0XY
Tel: 01223 763215
_______________________________________________
Users mailing list
[email protected]
https://lists.biomart.org/mailman/listinfo/users
