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Please Show Me To Solve Import Problem Of Gitools

Hi,

I am using the Gitools for analysis sequences and I try to import data with Kegg but It has erro.

Description: Unable to connect to KEGG FTP: 450 /pub/kegg/genes/organisms/sce/: No such file or directory

trace: org.gitools.modules.importer.ModulesImporterException: Unable to connect to KEGG FTP: 450 /pub/kegg/genes/organisms/sce/: No such file or directory

Has anyone seen that erro? would you pleseas show me how to solve this problem? Thanks a lot.

kegg pathway pathway
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updated by Biostar Biostar • written by User 4391 • User 4391

3 answers

You might take a look here:

http://www.genome.jp/kegg/docs/plea.html

Just a guess, but it looks like Gitools might not have been updated to reflect the fact that KEGG has closed except to paid subscribers.

• 2 views • link
written by Sean Davis Sean Davis

The importer has been fixed and a new version of Gitools has been released today!

Check it the blog post we released earlier today here: http://bg.upf.edu/blog/2012/02/gitools-database-importer-updates-kegg-and-ensembl/

• 7 views • link
written by Michi Michi

sounds like is today is the original poster's lucky day

• 0 views • link
written by Istvan Albert Istvan Albert

finally s/he can get back to work ;-)

• 0 views • link
written by Michi Michi

As Sean Davis told, KEGG ftp is for paid subscribers now.

Gitools needs to access the KEGG ftp to retrieve mappings between Ensembl gene id and KEGG gene id's.

I apologise for the inconvenience, but as soon as I know how to retrieve this information from other public source I will fix it.

• 0 views • link
written by Christian Pérez-Llamas • Christian Pérez-Llamas

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