On Friday, November 1, 2013, Peter Cock wrote:
> On Tue, Oct 22, 2013 at 2:49 PM, Greg Von Kuster
> >
> wrote:
> > Hi Peter,
> >
> > Here is a new Trello card to track the progress for fixing and
> stabilizing the tool shed install and test framework. This card will
> evolve over the next few da
Hi Ira,
> Hi Bjoern,
>
> I've just done some more testing of my tool with a fresh install and a fresh
> checkout of galaxy. After install of this tool
>
> http://testtoolshed.g2.bx.psu.edu/view/iracooke/package_protk_1_2_5
>
> I have an env.sh that looks like
>
> GEM_PATH=/home/vagrant/tool
John, thanks for following up. I myself abashedly sent out a followup mail
which maybe didn't get to this list (from the other
galaxy-u...@lists.bx.pu.edu list). Yes indeed, I'd closed my one-liner
options tag. Problem fixed now.
Regards,
Damion
From
Is there a way to interact with the published workflows section of Galaxy
using only the API? Only workflows that I imported or constructed myself
show up using the get_workflows from bioblend.
Thanks!
___
Please keep all replies on the list
On Thu, Oct 31, 2013 at 7:41 AM, Bjoern Gruening
wrote:
> Hi,
>
>> > Hi John & Greg,
>> >
>> > yes I can confirm that. Thanks for reproducing.
>> >
>> > Btw. should I set up one test repository for every feature (lets say for
>> > ruby and R) that will stay like it is and function as test environm
Hey Damion,
Because this wasn't explicitly shown in your example e-mail, can you
verify for me that you are putting the filter elements inside of the
options element and not inside of the param element?
-John
On Wed, Oct 30, 2013 at 10:50 PM, Jennifer Jackson wrote:
> Moving this over to gala
Hey Eric,
Thanks for thinking through some of those details. I don't know if
this is an extension of that or an alternative to that - but the
Galaxy tool shed has some support for workflows and stored these in a
VCS repository (mercurial). Augmenting that to support a sort of
one-click (or coupl
On Tue, Oct 22, 2013 at 2:49 PM, Greg Von Kuster wrote:
> Hi Peter,
>
> Here is a new Trello card to track the progress for fixing and stabilizing
> the tool shed install and test framework. This card will evolve over the
> next few days as items are completed and new issues are uncovered that
Hi David
Using "Data Libraries", as suggested by Martin is definitely the way to
go. Especially if you want to use the files with different tools.
However, if you have a predefined set of tools, you might wanna consider
adding an extra tools which reads and process the files, eg: you have
y