Sure, automated data import and workflow execution is certainly possible. In addition to the documentation there are several example scripts in the /scripts/api directory of your galaxy install. In particular, for your use case, you may want to have a look at example_watch_folder.py. This script watches a specified folder for any new files, uploads them to a galaxy data library, and then triggers the execution of a predefined workflow on the data. I wouldn't implement your pipeline exactly like in that script, but it's designed to illustrate a few specific examples without being overly complicated.
-Dannon
On Feb 3, 2013, at 10:22 AM, mark.rose@syngenta.com wrote:
Hey Dannon
Thanks, the web page I was finding earlier was mostly just an outline. This is much better. At this point I'm just interested in learning what general capabilities the API can provide. I'm sure after I read this and think more about it I'll have questions. One thing I am thinking about is what role the API might play in automatically analyzing data coming off an Illumina MiSeq. This would seem to be attractive in that it might proceed in a timely way, offer the possibility of a greater variety of analyses than come onboard the MiSeq, and place the results in a history that might readily be shared with multiple users. Does this seem possible? Do you know of anyone doing this now?
Thanks again for your help
Mark
-----Original Message----- From: Dannon Baker [mailto:dannonbaker@me.com] Sent: Saturday, February 02, 2013 10:57 PM To: Rose Mark USRE Cc: galaxy-dev@lists.bx.psu.edu Subject: Re: [galaxy-dev] galaxy api documentation
Mark,
There's documentation currently available here: https://galaxy-dist.readthedocs.org/en/latest/lib/galaxy.webapps.galaxy.api....
Is there anything else in particular you're looking for?
-Dannon
On Feb 2, 2013, at 9:15 PM, mark.rose@syngenta.com wrote:
Hi All
When is it anticipated that the documentation for the API will be available?
Thanks
Mark
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