[BioC] AnnBuilder questions...

[Seth Falcon]

Hi Jo,

"Dipl.-Ing. Johannes Rainer" <johannes.rainer at tugraz.at> writes:
> i wanted to build an annotation package for the Affymetrix rat2302
> chip. because i have problems to access ftp servers through the
> http_proxy i am behind (it works perfectly with http, but not through
> the ftp protocol) i downloaded the LocusLink and UniGene database
> files and created my UG and LL objects with the option
> "fromWeb=FALSE". i supposed that it would work, but i got an error
> "could not open connection to
> ftp://ftp.ncbi.nih.gov/repository/UniGene/Rn.info". i supposed the
> function would not try to establish connections to the internet when i
> submit the attribute fromWeb=FALSE and define a local url beginning
> with file:// . maybe this is a bug,

We will look into this.

> another question: locuslink has been substituted by the Gene
> database... are there plans that AnnBuilder will annotate using the
> new database?

Yes, we are actively working on this and expect to have something very
soon.

Best,

+ seth