Thomas D. Uram

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Thomas D. Uram Senior Software Developer turam at


  • Futures Laboratory
  • Mathematics and Computer Science Division
  • Argonne National Laboratory
  • 9700 S. Cass Avenue
  • Argonne, Illinois 60439 USA

CoSSci is Running Jan 22 2013

Click for the new CoSSci input screen for EFF1 at Calaxy / CoSSci The EAF1 tool now accepts input from the user for depvar, independent var in UNrestricted model, and independent var in restricted model. You can also create new variables by specifying the name and the expression: these must be names of the form sccsA$variablename . The attached screenshot should make this more clear.

CoSSci is Running Jan 1 2013

As you've found, the small icons in Galaxy are not exactly intuitive. If you hover your mouse over them, you'll get some helpful text.

- Click the eye icon to view the output of the job.  --- DW: RIGHT. and clicked the second time gives the output I was waiting for.
- Click the "i" information icon to view detail of the job
- Click the circle-arrow icon to rerun the job --- DW: RIGHT. and clicked the second time gives the output I was waiting for.

Display relaimpo data in browser

Community credential submitted


Hi Doug:

One thing that we need to get in place to proceed with gateway development is to have a community credential which is used by the gateway to interact with XSEDE resources. To get a community credential, you first have to register your gateway with XSEDE on this page:

Once accepted, you'll then be able to request a community account for your gateway on this page:

If you have any questions about this, let me know. We're doing this way in advance, but it will allow us to proceed the right way, using the community credential instead of using my credential and then changing over later.


Jan 11 2013:
  • 1, I think is done and hope the name is now CoSSci or some variant of that, like Complex Social Science Gateway - how do we check?
  • 2, I dont remember getting a community account, can you check? If we want a name how about "_____" lower case?


Since joining Argonne in 2002, I have worked primarily on the Access Grid project, eventually taking over the lead of the project in 2005. The Access Grid is software for internet collaboration: combining audio and video with instant messaging and with data- and application-sharing to create a comfortable environment for remote researchers to work together. In addition, the software is free and open-source, so it can be customized to the needs of individual communities. It is in use for videoconferencing, of course, but also for providing remote access to accelerator experiments, for fusion research, for remote medicine, for collaborative visualization. The openness of the Access Grid allows it to be applied to a wide range of applications.

Notes on meeting of Nov 5, 2012


NSF Inspire

Some relevant articles of Uram et al.

J Meng, VA Morozov, K Kumaran, V Vishwanath, TD Uram High Performance Computing, Networking, Storage and Analysis (SC), 2011

  • 2010 Accelerating science gateway development with Web 2.0 and Swift

W Wu, T Uram, M Wilde, M Hereld, ME Papka Proceedings of the 2010 TeraGrid Conference, 23

  • 2007 Social Informatics Data Grid

B Bertenthal, R Grossman, D Hanley, M Hereld, S Kenny, G Levow, ME Papka, S ... submitted to the E-Social Science 2007 Conference

  • 2009 Web 2.0-based social informatics data grid

W Wu, T Uram, ME Papka Proceedings of the 5th Grid Computing Environments Workshop, 6


  • 2008 Streaming visualization for collaborative environments

M Hereld, E Olson, ME Papka, TD Uram Journal of Physics: Conference Series 125, 012097


  • 2004 Capability Matching of Data Streams with Network Services

Han Gao, Ivan R. Judson, Thomas Uram, Terry L. Disz, Michael E. Papka, Rick L. Stevens

capability matching
  • and very last: 2005 An Infrastructure of Network Services for Seamless Integration in Advanced Collaborative Computing Environments

H Gao, IR Judson, T Uram, S Lefvert, TL Disz, ME Papka, RL Stevens Cluster Computing, 2005. IEEE International, 1-10


He also sent:

  • PROPHECY: GPU performance projection from CPU code skeletons

J Meng, VA Morozov, K Kumaran, V Vishwanath, TD Uram High Performance Computing, Networking, Storage and Analysis (SC), 2011


Nov 21 2012

Hi Doug, Anthon:

I planned to try to run Anthon's code before contacting him, so I didn't contact him immediately. I was able to install the needed R libraries and execute the code in the first example, on trestles. I didn't have time to go much beyond that, and in any case need to add gateway-specific text to the work plan. If I don't get to that over the break, it'll be the first thing I do next week. I'm always responsive via email if there's discussion to be had over the break.


Dec 19 2012

3:12 PM Hi John ( Saska )

Thanks for all your help, and quick responsiveness. I really appreciate it.

Would it be possible to install sshfs so I can mount a portion of the cluster file system on this machine? I may be able to work around this, but it would certainly be convenient if I could.

Thanks, Tom

3:49 Thomas,

sshfs installed

/usr/bin/sshfs John