API for job and workflow input metadata
Hi, I am working on writing some code that would allow for remotely executing jobs and workflows in Galaxy. Looking through the docs and examples that I have encountered, we are able to run specific tools if we know what are the inputs needed. Does the API (plain REST, bioblend, blend4j) allow for discovering what are the inputs needed to execute a specific tool? I'd be interested in things like argument name, type, label, description. And in the case where the input parameter is restricted to a number of options (e.g., pulldown selections), can I obtain those that would be available from the web pages? File types? etc. Big plus if we can find out similar information on the available output result. Thanks Marco
Hi Marco, You're looking for the tool build and show routes. Galaxy API: http://galaxy.readthedocs.org/en/master/api_doc.html#galaxy.webapps.galaxy.a... http://galaxy.readthedocs.org/en/master/api_doc.html#galaxy.webapps.galaxy.a... BioBlend: http://bioblend.readthedocs.org/en/latest/api_docs/galaxy/all.html#bioblend.... Cheers, Eric 2015-08-20 10:24 GMT-05:00 Marco Ocana <mocana@broadinstitute.org>:
Hi,
I am working on writing some code that would allow for remotely executing jobs and workflows in Galaxy. Looking through the docs and examples that I have encountered, we are able to run specific tools if we know what are the inputs needed. Does the API (plain REST, bioblend, blend4j) allow for discovering what are the inputs needed to execute a specific tool? I'd be interested in things like argument name, type, label, description. And in the case where the input parameter is restricted to a number of options (e.g., pulldown selections), can I obtain those that would be available from the web pages? File types? etc.
Big plus if we can find out similar information on the available output result.
Thanks
Marco
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
-- Eric Rasche Programmer II Center for Phage Technology Rm 312A, BioBio Texas A&M University College Station, TX 77843 404-692-2048 esr@tamu.edu
Hi Eric, Thanks for the pointers. The info returned by these calls appear to cover my needs. Thanks again. Marco On Fri, Aug 21, 2015 at 1:59 PM, Eric Rasche <esr@tamu.edu> wrote:
Hi Marco,
You're looking for the tool build and show routes.
Galaxy API:
http://galaxy.readthedocs.org/en/master/api_doc.html#galaxy.webapps.galaxy.a...
http://galaxy.readthedocs.org/en/master/api_doc.html#galaxy.webapps.galaxy.a...
BioBlend:
http://bioblend.readthedocs.org/en/latest/api_docs/galaxy/all.html#bioblend....
Cheers, Eric
2015-08-20 10:24 GMT-05:00 Marco Ocana <mocana@broadinstitute.org>:
Hi,
I am working on writing some code that would allow for remotely executing jobs and workflows in Galaxy. Looking through the docs and examples that I have encountered, we are able to run specific tools if we know what are the inputs needed. Does the API (plain REST, bioblend, blend4j) allow for discovering what are the inputs needed to execute a specific tool? I'd be interested in things like argument name, type, label, description. And in the case where the input parameter is restricted to a number of options (e.g., pulldown selections), can I obtain those that would be available from the web pages? File types? etc.
Big plus if we can find out similar information on the available output result.
Thanks
Marco
___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: https://lists.galaxyproject.org/
To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
-- Eric Rasche Programmer II
Center for Phage Technology Rm 312A, BioBio Texas A&M University College Station, TX 77843 404-692-2048 esr@tamu.edu
participants (2)
-
Eric Rasche
-
Marco Ocana