This is *exactly* what I did. The instructions are very clear, no problem!
The problem is the mimetype of the XML file. I cannot use 'Save Page As...'
because the mimetype is not application/xml.
It is not OK to copy-paste because on some platforms we get carriage
returns inserted in bad places (eg within tags or attributes) which break
the XML... believe me, with students you'll get anything ;-)
I.
Arek Kasprzyk wrote:
hmm ... i meant try to follow the instructions on
http://www.biomart.org/martservice.html ei
compile your query using MView, click 'XML' button, save this to a file
(eg. myquery.xml) and then
run the following script
http://cvs.sanger.ac.uk/cgi-bin/viewcvs.cgi/*checkout*/biomart-perl/scripts/webExample.pl?content-type=text%2Fplain&rev=1.3&root=BioMart
(you can save it as myscript.pl)
on the commandline with myquery.xml as an argument.
ei
perl myscript.pl myquery.xml
this is supposed to give you tab delimited data exactly as in in the
output of MView result pannel
(you can of course optionally set it to html or fasta as an output format)
or did i misunderstand the problem?
--
Isabelle Phan, D.Phil.
Swiss Institute of Bioinformatics Tel: (+41 22) 379 51 89
CMU - 1, rue Michel Servet Fax: (+41 22) 379 58 58
CH - 1211 Geneva 4 Switzerland email: [EMAIL PROTECTED]
