Re: [Cg-pipeline-users] Dear professor

[Lee K. <ls...@gm...>]

Hi Yucai,
Annotation_uniprot.db3 and annotation_uniprot_evidence.db3 are custom
databases in Berkeley database format.  They are created when running
run_annotation_parse_uniprot_xml.pl on the two XML files from Uniprot.
 These XML files are downloaded during the CG-Pipeline installation.  The
db3 files store information about Uniprot matches that you will have after
running run_annotation (and its sub module).

For vfdb_blast_db and other parameters, please set them in
cg_pipeline/conf/cgpipelinerc

Please see cg_pipeline/doc/INSTALL for more help, or please write back to
this mailing list again if it does not address what you are looking for.

Good luck!

--Lee





On Wed, Dec 19, 2012 at 10:13 PM, 230119304 <230...@se...> wrote:

> **
> Dear professor:
>
> When i was used the cg_pipeline, i have some problems.
> i don't understand these files:
> annotation_uniprot_db3 and annotation_uniprot_evidence_db3
> where and how can i get the files ?
> And how to set  parameters  about vfdb_blast_db?
>
>
>  I am looking forward to your reply.
>  sincerely yours,
> fanYucai
>  ------------------------------
>  230119304
>
>
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-- 
Lee Katz, Ph.D.