While I agree that would work, the tool I’m working with generates tools for web operations in a generic fashion. That is, you provide it a WDSL and a list of operations you want from that WSDL, and then tool XML files are generated for each of those operations.
Sincerely, Michael E. Cotterell Ph.D. Student in Computer Science, University of Georgia Instructor of Record, Graduate RA & TA, University of Georgia Department Liaison, CS Graduate Student Association, University of Georgia mepcotter...@gmail.com (mailto:mepcotter...@gmail.com) mepc...@uga.edu (mailto:mepc...@uga.edu) m...@cs.uga.edu (mailto:m...@cs.uga.edu) http://michaelcotterell.com/ On Thursday, March 6, 2014 at 9:08 AM, Eric Rasche wrote: > -----BEGIN PGP SIGNED MESSAGE----- > Hash: SHA1 > > Hi Michael, > > I, too, would love to have conditionals and loops, however may want to > consider the following approach: > > Instead of splitting the web service submission, check for results, and > download of results into three steps, make it a single script. > > I believe this would solve your problem completely. It largely simplify > your use case, as a single script could > > - - submit and remember a job's ID > - - check periodically using that language's web bindings > - - collect the results when done > > This would mean it's a long-running task, which is perfectly suited to > use in galaxy. > > Cheers, > Eric > > On 03/06/2014 07:51 AM, John Chilton wrote: > > Hey Michael, > > > > I know there is a lot of interest in this, but these sorts of things > > are not possible with Galaxy workflows at this time. If you want the > > traceibility and UI for viewing results provided by Galaxy - you could > > consider driving tools externally via the API - at that point though > > the utility of running these jobs through Galaxy has dropped > > considerably. > > > > There is a Trello card I would encourage you to vote for - > > https://trello.com/c/rwSeAwos > > > > I have included a link to this e-mail as a reference for specific use > > cases to consider if or when this idea gets worked on. > > > > Sorry, > > -John > > > > > > On Wed, Mar 5, 2014 at 9:05 PM, Michael E. Cotterell > > <mepcotter...@gmail.com (mailto:mepcotter...@gmail.com)> wrote: > > > Is there a way to have conditionals and loops for the various steps in a > > > Galaxy workflow? > > > > > > For example, a conditional might be used to branch to various steps based > > > on the previous steps. Also, a step may need to be repeated until it > > > produces a particular output. > > > > > > Here is an actual use case: We are invoking a web service in one of our > > > workflows. The first step returns a unique identifier that you need to > > > use later in order to get the actual results (since the web service > > > operation is asynchronous). Later, using another operation, you can check > > > on the status of the job being performed. Sometimes, this operation/step > > > will inform us that the results are not ready. We would like to be able > > > to loop on that second operation/step until it says the job is done, and > > > then move on to a third operation/step to actually get the results. > > > > > > Any ideas? > > > > > > Sincerely, > > > Michael E. Cotterell > > > > > > Ph.D. Student in Computer Science, University of Georgia > > > Instructor of Record, Graduate RA & TA, University of Georgia > > > Department Liaison, CS Graduate Student Association, University of Georgia > > > mepcotter...@gmail.com (mailto:mepcotter...@gmail.com) > > > mepc...@uga.edu (mailto:mepc...@uga.edu) > > > m...@cs.uga.edu (mailto:m...@cs.uga.edu) > > > http://michaelcotterell.com/ > > > > > > > > > ___________________________________________________________ > > > 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: > > > http://lists.bx.psu.edu/ > > > > > > To search Galaxy mailing lists use the unified search at: > > > http://galaxyproject.org/search/mailinglists/ > > > > > > > > ___________________________________________________________ > > 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: > > http://lists.bx.psu.edu/ > > > > To search Galaxy mailing lists use the unified search at: > > http://galaxyproject.org/search/mailinglists/ > > > > - -- > Eric Rasche > Programmer II > Center for Phage Technology > Texas A&M University > College Station, TX 77843 > 404-692-2048 > e...@tamu.edu (mailto:e...@tamu.edu) > rasche.e...@yandex.ru (mailto:rasche.e...@yandex.ru) > -----BEGIN PGP SIGNATURE----- > Version: GnuPG v2.0.17 (GNU/Linux) > > iQIcBAEBAgAGBQJTGIFFAAoJEMqDXdrsMcpV6hsQAKGv/W0dtZXAiuf855D2PU8k > cbyMxliigbvlg0ieZNb0ZFAsx5LHRuek8sU0HMf0v14wxgs6vlwDtp143x5R0MIY > zjhNQkj+C9IXyq/qjrqT8IObbMUGgPFJD/hzrP9YCT7gUKE9Dy1fxN2aznUJgJJU > fmMD48E0/+7/y4dwdRaZ/LQv9jAKHKg1S6df6rYYWa1/hZtWrAGYrycygcrnt0aW > Ai0iE6IXDTbPYZSjNcWLMPJ7FPU/MGdIF1Lia1PB9GLAqwY5Iln6WJ6OUdahNQzw > Yx+0Te80r6wZVKHb5Bx8bszOEfPzxHcR0XABGn6r6zREoFD1kTQqugWyn0FL/v0C > zibHMbFje+LDgUU47QoyNRGXcM6RoiVJGo7KTcDbP5HEWqQ7ozmZSN2ECeX1s1gf > mzE9sJadLH3P8+vA6wO+xKtPpEzvC8VJHFROZNPJNVpVFAKU1RBRSo8qD1ZDZtTx > LnwXmx0lK0spaJXXGg8g8tO23ilwy0JXRqxt56oPp7MlUtDJ7eDyQtmdQlPlNY4v > +eqeJlGoRBlT3AS7CMfY4PWhrg3WZ0dLS+w/bG7Pg4uOj+iZ1qVEHDS4ugwqszNK > eksGuXb/Uc9GGwB1xUssF9XMwf6u/xK9OqCuW8rgzFhm85BhqEJFqiJO408Ibx/S > HPnswg0jhak5c8DKlajS > =TirM > -----END PGP SIGNATURE----- > ___________________________________________________________ > 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: > http://lists.bx.psu.edu/ > > To search Galaxy mailing lists use the unified search at: > http://galaxyproject.org/search/mailinglists/ ___________________________________________________________ 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: http://lists.bx.psu.edu/ To search Galaxy mailing lists use the unified search at: http://galaxyproject.org/search/mailinglists/
