Hi Bert,
Things look fine when I access the mart directly from the Reactome web
site, but you are right, it isn't working properly when you access it
from the ENSEMBL web site. Odd! Perhaps somebody on the Mart users
list knows what's going on?
Cheers,
David.
The Reactome BVioMart instance that is accessed through Ensembl (so
from http://www.ensembl.org/biomart/martview/) still gives an error
message when one wants to export results:
Pathway stable ID Pathway DB_ID
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Cheers,
Bert
On Mon, Dec 5, 2011 at 10:31 AM, David Croft<[email protected]> wrote:
Hi Bert,
The Reactome BioMart that can be accessed from the Ensembl site gives
the error mentioned below. The BioMart that can be accessed from the
Reactome site itself seems to work fine. Do these two BioMarts run
from different databases? If so, who is responsible for the first one?
As Robin said, we have been having hardware problems recently, sorry for the
inconvenience! Could you check the Reactome BioMart server again? It
should now be working normally, though perhaps a little slowly.
Cheers,
David.
---------- Forwarded message ----------
From: alejandro fernandez via RT<[email protected]>
Date: Fri, Dec 2, 2011 at 2:49 PM
Subject: [Ensembl #243847] Error DataMart Reactome Pathway -
www.ensembl.org
To:
Fri Dec 02 14:49:13 2011: Request 243847 was acted upon.
Transaction: Ticket created by [email protected]
Queue: ensembl-helpdesk
Subject: Error DataMart Reactome Pathway - www.ensembl.org
Owner: Nobody
Requestors: [email protected]
Status: new
Ticket<URL: https://rt.sanger.ac.uk/Ticket/Display.html?id=243847>
Support question from www.ensembl.org
Date: 2011-12-02 14:49:12
Name: Alejandro Fernandez
Referer: http://www.ensembl.org
Last Search: -none-
User agent: Mozilla/5.0 (X11; Linux x86_64) AppleWebKit/535.1
(KHTML, like Gecko) Ubuntu/11.10 Chromium/14.0.835.202
Chrome/14.0.835.202 Safari/535.1
Comments:
When I try to download the Reactome pathway I get the following error:
sv____html;HTML,txt;TXT,tsv;TSV,xls;XLS____tsv____html;HTML,txt;TXT,tsv;TSV,xls;XLS____
Pathway stable ID Pathway DB_ID
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Query ERROR: caught BioMart::Exception::Database: Error during query
execution: Table './test_reactome_mart/pathway__pathway__main' was
created with a different version of MySQL and cannot be read
Query ERROR: caug
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