On Thu, Sep 15, 2011 at 10:32 AM, Timothy Wu <2hug...@gmail.com> wrote:
> On Thu, Sep 15, 2011 at 4:58 PM, Peter Cock <p.j.a.c...@googlemail.com>
> wrote:
>> Perhaps I have misunderstood you, but I'd just use the provided
>> "Upload Data" tool, and paste in the FTP URL for the file, e.g.
> I wasn't aware that the Upload data tool could take a FTP URL, so thanks for
> letting me know.
> Unfortunately that doesn't take a wild card.
> I need to have the path specification like this
> "ftp://ftp.ncbi.nih.gov/genbank/gbest*.seq.gz"; at the minimum.
> Actually my tool is more versatile (though I don't need it for this
> particular application).
> I could specify
> ftp://ftp.ncbi.nih.gov/genomes/*/*/NC_*.fna
> and grab all the fasta files for all chromosome of all species under the
> genomes directory. I thought it would be a nice tool to have in my galaxy
> arsenal.
> Timothy

That volume of data shouldn't really be uploaded into individual
Galaxy user's histories (not unless you have a Galaxy setup
with an unusually high disk quota per user - lucky you).

This seems ideal for the Galaxy data library functionality, where
the Galaxy admin loads the big data sets and makes them
available to all the Galaxy users (or a subset using access
controls). For the user's history the files are just linked to - so
there is only one copy on disk.

However, we'd also like easy access to (some of) the files on
ftp://ftp.ncbi.nih.gov/genomes/ so a new "NCBI Genomes
FTP-site Data Source Tool" as part of Galaxy would be nice
(like the existing UCSC data source etc).

Please keep all replies on the list by using "reply all"
in your mail client.  To manage your subscriptions to this
and other Galaxy lists, please use the interface at:


Reply via email to