Dear,
A few months ago we proposed a wrapper generator, we are now at a point where
we can present our idea as a working prototype.
The wrapper generator is not specific for Galaxy, in principle any target can
be used, but since Galaxy is our most prominent use case at the moment, we
already
Hi Jeroen,
The idea of having a tool to automatically generate Galaxy wrappers is
attractive, and in some cases, possible. For example, I know that the
tools in QIIME (http://qiime.sourceforge.net/) use some sort of argument
declaration and a Python module to read it and deal with the
Dear Florent,
On Sun, May 15, 2011 at 09:15:25PM +1000, Florent Angly wrote:
Hi Jeroen,
The idea of having a tool to automatically generate Galaxy wrappers
is attractive, and in some cases, possible. For example, I know that
the tools in QIIME (http://qiime.sourceforge.net/) use some sort
Dear,
I need to add a number of tools to my local Galaxy installation, but the size
of the wrappers I've seen keep me from writing one.
Are there wrapper generators to make this task easier? If not, I might want to
make one. A possible implementation I'm considering is to first make a (WSDL)
Hi Jeroen,
You can use web services thanks to the work from Sumedha Ganjoo et al. from the
University of Georgia. You can find that on the community site:
Tools Shed - Data Source - Suite of Web service addition tools.
Hi Pieter,
Thanks for the reply, but from the looks of it, this is a way to incorporate
webservice clients into galaxy. What I want is slightly different.
I'm talking about adding a normal command line tool (an aligner for example)
but I'm not willing to write a wrapper each time (the wrapper
On Fri, May 13, 2011 at 2:12 PM, J. F. J. Laros j.f.j.la...@lumc.nl wrote:
Hi Pieter,
Thanks for the reply, but from the looks of it, this is a way to incorporate
webservice clients into galaxy. What I want is slightly different.
I'm talking about adding a normal command line tool (an
An alternative might be to have something like GenePattern has. It's not as
seamless for the person who wants the wrapper as what's been suggested here,
but it's easier than creating a lengthy XML file.
GenePattern has an HTML Form interface for entering all the components of
your tool,
Dear Dave,
This indeed sounds like an interesting alternative. I'll look into it.
With kind regards,
Jeroen.
On Fri, May 13, 2011 at 01:48:12PM +, Dave Walton wrote:
An alternative might be to have something like GenePattern has. It's not as
seamless for the person who wants the wrapper
