5:47 a.m.
Nate,
The Galaxy's ability to pull files with user/password from FTP sites as a client is
great.
However, I need to pull data from an HTTP site at a sequencing center with user/password
(already tried to get them to set up an FTP server, no luck). Any way to do this?
If not, would it be easy to add?
Regards,
Curtis
Hi Nate,
>> We'd like to set up our local Galaxy to be able to import
data (fastq
>> sequences) from an ftp site (with a username/password) into
a user's
>> account. Does Galaxy support FTP or would we have to write a
wrapper
>> script to do it via HTTP and use the standard data connection
methods as
>> described in
http://bitbucket.org/galaxy/galaxy-central/wiki/DataSources?
>> Hi Steve,
>> You can actually put FTP URLs directly in the URL/paste box on
the
> upload form. With a username and password, the format would be:
>> ftp://user:pass@example.org/path/to/file.ext
>> I haven't tested that the user/pass bit works, but it should.
Yep. It works. Thanks for the tip!
8:42 a.m.
On Wed, Jun 22, 2011 at 6:47 AM, Robert Curtis Hendrickson
<curtish(a)uab.edu> wrote:
Nate,
The Galaxy’s ability to pull files with user/password from FTP sites as a
client is great.
However, I need to pull data from an HTTP site at a sequencing center with
user/password (already tried to get them to set up an FTP server, no luck).
Any way to do this?
Try asking the sequencing centre if the username and password can be
provided as part of the HTTP URL, then give that URL to Galaxy.
Peter
6:17 p.m.
Peter Cock wrote:
On Wed, Jun 22, 2011 at 6:47 AM, Robert Curtis Hendrickson
<curtish(a)uab.edu> wrote:
> Nate,
>
>
>
> The Galaxy’s ability to pull files with user/password from FTP sites as a
> client is great.
>
> However, I need to pull data from an HTTP site at a sequencing center with
> user/password (already tried to get them to set up an FTP server, no luck).
> Any way to do this?
>
Try asking the sequencing centre if the username and password can be
provided as part of the HTTP URL, then give that URL to Galaxy.
If it's using HTTP Authentication, the URL is the same as with ftp:
http://user:host@example.org/file.ext
Other authentication systems which use forms and cookies or similar
methods won't work.
--nate
Peter
___________________________________________________________
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
at usegalaxy.org. Please keep all replies on the list by
using "reply all" in your mail client. For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:
http://lists.bx.psu.edu/listinfo/galaxy-dev
To manage your subscriptions to this and other Galaxy lists,
please use the interface at:
http://lists.bx.psu.edu/
3861
days inactive
3867
days old
galaxy-user@lists.galaxyproject.org
2 comments
3 participants
participants (3)
-
Nate Coraor -
Peter Cock -
Robert Curtis Hendrickson