Forwarding to list for posterity:
-------- Original Message -------- Subject: Re: Post-ISMB ping: Jalview integration in Genomespace Date: Thu, 25 Jul 2013 09:43:01 -0400 From: Michael Reich <[email protected]><mailto:[email protected]> To: Dr JB Procter <[email protected]><mailto:[email protected]> CC: Ted Liefeld <[email protected]><mailto:[email protected]>, Jalview Development List <[email protected]><mailto:[email protected]>, Marco Ocana <[email protected]><mailto:[email protected]> Jim and all, Thanks so much for staying in touch - we're glad to help with this. I'm adding our software developer Marco Ocana to the thread. Looking forward to continuing the discussion, Best, Michael On Thu, Jul 25, 2013 at 9:39 AM, Dr JB Procter <[email protected]<mailto:[email protected]>> wrote: Hi Ted and Michael. A bit later than promised, but here's the ping re Jalview. After we talked, I sat down with Hervé Menager - who does mobyle.fr<http://mobyle.fr>, and did come to your tech track. He had already spun up a private genomespace account to try and hook in Mobyle, so we had a bit of a play. As far as I can see, there are some minor hurdles we need to deal with, but nothing insurmountable. It looks like step 1 - 'launch Jalview with some data from the genomespace web GUI' is nearly straightforward, but we will ideally need to hook up with the genomespace auth model. The problem is getting Jalview to do Single Sign On (SSO), to avoid repeated logins. http://www.genomespace.org/support/api/cdk Section 4.1 (the GSLogin Dialog) is the only section that mentions SSO, but from the documentation it looks like SSO happens only between applications using the CDK.. can it also be made to happen if the user launches a tool from the website (ie propagate session id/auth cookie from browser to JVM launced via jnlp) ? Regarding step 2.. 'login to access data from my genomespace account' - it looks like the CDK provides all the magic, and seems to already have been decorated with OSGI metadata. So, providing the best example is the cytoscape app, then I guess all we need to do is follow that pattern to create some jalview specific genomespace glue. If there's anything we should be looking at for future steps, do let us know. Otherwise, something will most likely happen in the next few months - particularly when we get some new folk on the project. It was good to meet you in Berlin ! Jim. The University of Dundee is a registered Scottish Charity, No: SC015096 -- __________________________________________________________ Michael Reich <[email protected]<mailto:[email protected]>> Director of Cancer Informatics Development Broad Institute of MIT and Harvard 7 Cambridge Center, Cambridge, MA 02142, USA (617) 714-7467 http://www.broadinstitute.org/cancer The University of Dundee is a registered Scottish Charity, No: SC015096
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