Re: [Gusdev-gusdev] loadtaxon

[Deborah F. P. <pi...@pc...>]

You need to get the taxonomy files from NCBI which can be obtained from
their ftp site: ftp://ftp.ncbi.nih.gov/pub/taxonomy/

The file you need to load these tables (Taxon,TaxonName, and GeneticCode)
can be found there: taxdump.tar.gz

You will need to tar the file before running the plug-in and put the
options, --node, --name, --gencode, with the corresponding full path and
name of the corresponding files on the command line. The plugin should
fill all three tables.

                                                      Debbie


On Sat, 29 Mar 2003, Chetna Warade wrote:

> Hi,
>
> I am running following:
>
> [chetna@mango chetna]$ ga GUS::Common::Plugin::LoadTaxon
> --gencode=/home/gusdev/gus3.0-checkouts/ncbi-taxonomy/gc.prt --commit
> Reading properties from /home/gus_home/config/GUS-PluginMgr.prop
> Reading properties from /home/chetna/.gus.properties
> Provide the names of the names.dmp, nodes.dmp, and gencode.dmp files on
> the command line: !
> [chetna@mango chetna]$
>
> Now that I look into the table sres.geneticcode its empty. Same is the
> case with nodes.dmp and names.dmp
>
> Is there a sequence of actions to be done before running LoadTaxon?
>
> Thanks
> chetna
>
>
>
>
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