Hi Prem, We are experiencing some delays with the update of BioMart services:
https://lists.biomart.org/pipermail/users/2012-March/002515.html On Tue, Mar 13, 2012 at 7:37 AM, Premanand Achuthan < [email protected]> wrote: > Hi > > I am trying to download the Reactome pathway dataset, using the following > query, but get error > > <!DOCTYPE Query><Query client="true" processor="TSV" limit="-1" > header="1"><Dataset name="pathway" config="pathway_config"><Attribute > name="species__displayname"/><Attribute > name="stableidentifier_identifier"/><Attribute > name="pathway_db_id"/><Attribute name="_displayname"/><Attribute > name="referencedatabase_uniprot"/></Dataset></Query> > > Tried from both central biomart : > http://central.biomart.org/martwizard/#!/Interaction_and_pathways?mart=Reactome+(OICR%2C+Canada%3B+EBI%2C+UK%3B+NYU+Medical+Center%2C+USA)&datasets=pathway<http://central.biomart.org/martwizard/#%21/Interaction_and_pathways?mart=Reactome+%28OICR%2C+Canada%3B+EBI%2C+UK%3B+NYU+Medical+Center%2C+USA%29&datasets=pathway> > > and > > http://banon.cshl.edu:5555/biomart/martservice?query=%3C?xml%20version=%221.0%22%20encoding=%22UTF-8%22?%3E%20%3C!DOCTYPE%20Query%3E%20%3CQuery%20virtualSchemaName%20=%20%22default%22%20formatter%20=%20%22TSV%22%20header%20=%20%220%22%2 > 0uniqueRo > ws%20=%20%221%22%20count%20=%20%22%22%20datasetConfigVersion%20=%20%220.6%22%20%3E%20%3CDataset%20name%20=%20%22pathway%22%20interface%20=%20%22default%22%20%3E%20%3CAttribute%20name%20=%20%22species__displayname%22%20/%3E%20%3CAttribute%20name%20=%20%22stableidentifier_identifier%22%20/%3E%20%3CAttribute%20name%20=%20%22pathway_db_id%22%20/%3E%20%3CAttribute%20name%20=%20%22_displayname%22%20/%3E%20%3CAttribute%20name%20=%20%22referencedatabase_uniprot%22%20/%3E%20%3C/Dataset%3E%20%3C/Query%3E<http://banon.cshl.edu:5555/biomart/martservice?query=%3C?xml%20version=%221.0%22%20encoding=%22UTF-8%22?%3E%20%3C%21DOCTYPE%20Query%3E%20%3CQuery%20virtualSchemaName%20=%20%22default%22%20formatter%20=%20%22TSV%22%20header%20=%20%220%22%20uniqueRows%20=%20%221%22%20count%20=%20%22%22%20datasetConfigVersion%20=%20%220.6%22%20%3E%20%3CDataset%20name%20=%20%22pathway%22%20interface%20=%20%22default%22%20%3E%20%3CAttribute%20name%20=%20%22species__displayname%22%20/%3E%20%3CAttribute%20name%20=%20%22stableidentifier_identifier%22%20/%3E%20%3CAttribute%20name%20=%20%22pathway_db_id%22%20/%3E%20%3CAttribute%20name%20=%20%22_displayname%22%20/%3E%20%3CAttribute%20name%20=%20%22referencedatabase_uniprot%22%20/%3E%20%3C/Dataset%3E%20%3C/Query%3E> > > I get the following error > > 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 > > Any pointers please. > > Thanks > Prem > > > > > _______________________________________________ > Users mailing list > [email protected] > https://lists.biomart.org/mailman/listinfo/users > > -- Arek Kasprzyk, MD, MSc, PhD BioMart Project Lead
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