Hello Elihu,
The tool was just recently upgraded to include these files.
https://trello.com/c/FdUYdbIn
The update will be available in the Tool Shed then updated on the main
public server at (or possibly before) the next stable release.
Other pending updates to the tool suite include adding these additional
features.
https://trello.com/c/lIdpOZ88
https://trello.com/c/U7nceKdj
Good question! Sometimes the updates are because the tool itself
changed, sometimes they are simply updates to add in more features as
they are requested/needed. The Trello cards will usually note the
history and any comments.
Jen
Galaxy team
On 11/20/13 6:22 AM, Aranday Cortes, Elihu wrote:
Hi,
Cuffdiff in Galaxy produces "read_group_tracking" files. However, I
wonder if these files are enough when using 'replicates=T' in
cummeRbund or I also need "read_groups.info" and "run.info" files in
myDir.
I've tried 'replicates(cuff)' with the 'read_group_tracking' files in
my directory and I get back an empty set, means that cummerbund is not
using replicates (or I'm doing something wrong!). At this time I don't
see other option that run cuffdiff locally. At least you have any
suggestion or advice about how I can get 'info.files' from Galaxy.
Any particular reason why Cuffdiff output files in Galaxy are not ALL
the files described in the manual tool?
Thanks for you help.
Elihu
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___________________________________________________________
The Galaxy User list should be used for the discussion of
Galaxy analysis and other features on the public server
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using "reply all" in your mail client. For discussion of
local Galaxy instances and the Galaxy source code, please
use the Galaxy Development list:
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please use the interface at:
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