Re: [galaxy-dev] Help with two questions about transfering data to galaxy local instance

2014-01-27 Thread John Chilton
I don't know of a way to accomplish what you are describing with the
tool framework - without prepopulating static files with all of the
data you will need - and even then I am not exactly sure what to do.
But it sounds like you would like to fetch this data from a database
or web service of some kind dynamically - so that doesn't sound like a
good path. More details however would help formulate a better
response.

My guess is a tool is not an ideal abstraction that you should be
using right here - you could write a local extension to Galaxy to do
this or you can write a data source and corresponding data source tool
(https://wiki.galaxyproject.org/Admin/Internals/Data%20Sources).
Though some people have done really creative things with the tool
framework so I could be totally wrong, hopefully if someone else has
an idea they will speak up.

If you want to write a local extension to Galaxy you can look at some
the controllers in lib/galaxy/webapps/galaxy/controllers/ and write
your own that would have actions for displaying a form to collect the
data and update the page with details, as well as one to perform the
import, and you will need to write mako templates to describe your
pages (in templates/webapps/galaxy). You could do the import using the
existing structures in Galaxy or target the API. Regardless this will
be a lot of work.

Another possibility is to drive this entire process from an external
webapp either existing (is something being used to manage this data
you targeting) or a new one in whatever web programming environment
you are most comfortable with.

In response to how to transfer files to your local Galaxy instance
faster - I would need to know where you are getting them from and what
method you are currently using to copy them.

I hope this helps.

-John

On Thu, Jan 23, 2014 at 8:35 PM, Huayan Gao huayan...@gmail.com wrote:
 Hi,

 I am doing a data transferring interface in galaxy. I want to accomplish two
 things. First, when user enters a number, the interface will show some
 related information or search results (eg, related files) by this unique
 number. Then user can select the files they wanted to put into galaxy
 history panel for further data analysis.

 So my question is, can add a button in xml interface or python code to show
 the search results? The second question is that the files could be big. How
 can I transfer the files faster to my local galaxy instance? The current
 copy is just too slow.

 Thanks!

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[galaxy-dev] Help with two questions about transfering data to galaxy local instance

2014-01-23 Thread Huayan Gao
Hi,

I am doing a data transferring interface in galaxy. I want to accomplish
two things. First, when user enters a number, the interface will show some
related information or search results (eg, related files) by this unique
number. Then user can select the files they wanted to put into galaxy
history panel for further data analysis.

So my question is, can add a button in xml interface or python code to show
the search results? The second question is that the files could be big. How
can I transfer the files faster to my local galaxy instance? The current
copy is just too slow.

Thanks!
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Please keep all replies on the list by using reply all
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