User: Glatard

Name: Glatard

Joined: Tuesday 04 March 2008 @ 14:08:05 (GMT)

Last seen: Monday 18 April 2011 @ 18:08:16 (GMT)

Email (public): glatard [at] creatis.insa-lyon.fr

Website: http://www.creatis.insa-lyon.fr/~glatard

Location: Lyon, France

11 Friends

0 Groups (admin)

2 Groups (member)

10 Workflows

2 Files

0 Favourites

Glatard has been credited 14 times

Glatard has an average rating of:

4.0 / 5

(2 ratings in total)

for their items

I am using Taverna to design workflows running on the EGEE grid. EGEE jobs are wrapped into Web-Services and can then be embedded in a Taverna workflow. During my PhD, I studied workflows for medical image analysis applications and we really enjoyed Scufl's iteration strategies that allow to define complex data patterns with simple operators. Because of performance limitations of Taverna (in particular concerning pipelining among the services), we developped MOTEUR, a Scufl enactor dedicated to the execution of Taverna workflows on EGEE. We also faced some limitations of the semantics of the 'dot product' and we extended it.

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Occupation/Role(s): researcher

Organisation(s):

CREATIS-LRMN

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Gwendia Original Uploader Glatard	Magnetic Resonance Image simulation with SIMRI (v1) Created: 18/04/11 @ 18:27:50 \| Last updated: 18/04/11 @ 18:27:51 Credits: Glatard License: Creative Commons Attribution-Share Alike 3.0 Unported License This workflow implements MRI simulation with SIMRI (http://simri.eu). It is developped by the Virtual Imaging Platform (http://www.creatis.insa-lyon.fr/vip). Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 9 times \| Downloaded: 7 times Tags (2): medical imaging \| simulation	View Download (v1)
Gwendia Original Uploader Glatard	Positron Emission Tomography simulation with Sorteo (v1) Created: 18/04/11 @ 18:25:34 \| Last updated: 18/04/11 @ 18:25:35 Credits: Glatard License: Creative Commons Attribution-Share Alike 3.0 Unported License This workflow implements Positron Emission Tomography simulation with PET-Sorteo http://sorteo.cermep.fr/. It is developped by the Virtual Imaging Platform (http://www.creatis.insa-lyon.fr/vip). Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 4 times \| Downloaded: 7 times Tags (2): medical imaging \| simulation	View Download (v1)
Gwendia Original Uploader Glatard	Computed Tomography with Sindbad (v1) Created: 18/04/11 @ 18:19:37 \| Last updated: 18/04/11 @ 18:19:55 Credits: Glatard License: Creative Commons Attribution-Share Alike 3.0 Unported License This workflow implements computed tomography (CT) simulation with the Sindbad software. It is developped by the Virtual Imaging Platform (http://www.creatis.insa-lyon.fr/vip). Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 6 times \| Downloaded: 4 times Tags (1): simulation	View Download (v1)
Gwendia Original Uploader Glatard	FIELD-II ultrasound simulation (v1) Created: 18/04/11 @ 18:15:48 Credits: Glatard License: Creative Commons Attribution-Share Alike 3.0 Unported License Workflow implementing ultrasound simulation using FIELD-II http://server.electro.dtu.dk/personal/jaj/field/. Developped by the Virtual Imaging Platform (http://www.creatis.insa-lyon.fr/vip). Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 6 times \| Downloaded: 34 times Tags (1): simulation	View Download (v1)
Chemistry Plan Original Uploader Glatard	GATE Monte-Carlo simulations (v3) Created: 23/05/09 @ 18:05:22 \| Last updated: 13/08/09 @ 17:14:25 Credits: Glatard License: Creative Commons Attribution-Share Alike 3.0 Unported License Application description is found in the following papers: Jan S et al, GATE: a simulation toolkit for PET and SPECT. Phys. Med. Biol. 49 (2004) 4543-4561 Sarrut D. and Guigues L. Region-oriented CT image representation for reducing computing time of Monte Carlo simulations. Med Phys. 35(4):1452-1463. 2008 Two components (fgate and merge, merge being disabled in experiments conducted for the heteropar and JGC papers) are run on the EGEE grid. A quite elaborated workflow is ma... Rating: 0.0 / 5 (0 ratings) \| Versions: 3 \| Reviews: 0 \| Comments: 1 \| Citations: 0 Viewed: 149 times \| Downloaded: 34 times Tags (2): grid \| medical imaging	View Download (v3)
Taverna 1 Original Uploader Glatard	caviar cardiac application (v1) Created: 23/05/09 @ 17:49:08 \| Last updated: 23/05/09 @ 17:52:04 Credits: Glatard License: Creative Commons Attribution-Share Alike 3.0 Unported License Applications details in the following paper: Ketan Maheshwari, Tristan Glatard, Joel Schaerer, Bertrand Delhay, Sorina Camarasu, Patrick Clarysse, Johan Montagnat. "Towards Production-level Cardiac Image Analysis with Grids" in Proceedings of the HealthGrid'09, Berlin, 28-30 june 2009 The 3 green boxes are run on the EGEE grid. Addional Beanshells have been added to transfer results from EGEE Storage Elements to a web server, to allow for better interactivity. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 47 times \| Downloaded: 26 times Tags (1): medical imaging	View Download (v1)
Taverna 1 Original Uploader Glatard	feat_workflow (v2) Created: 03/02/09 @ 15:30:15 Credits: Glatard License: Creative Commons Attribution-Share Alike 3.0 Unported License No description Rating: 0.0 / 5 (0 ratings) \| Versions: 2 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 95 times \| Downloaded: 29 times Tags (1): medical imaging	View Download (v2)
Taverna 1 Original Uploader Glatard	feat FSL group analysis (v1) Created: 28/01/09 @ 17:25:34 \| Last updated: 28/01/09 @ 17:36:07 Credits: Glatard License: Creative Commons Attribution-Share Alike 3.0 Unported License This workflow is to be run on results obtained from this one (couldn't manage to find a clean solution for merging those two in Scufl). Processor "feat_group": 1. builds the experiment intput (design) file from template and input parameters 2. calls feat FSL Processor "roi" reads activation maps produced by feat_group, extract a region of interest and compute the mean, stdev, max and min activation within it. Here is a sample input in VBrowser's XML dialect. Below is... Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 65 times \| Downloaded: 29 times This Workflow has no tags!	View Download (v1)
Taverna 1 Original Uploader Glatard	Sample grid workflow (v1) Created: 24/10/08 @ 14:30:25 \| Last updated: 31/10/08 @ 12:13:23 Credits: Glatard License: Creative Commons Attribution-Share Alike 3.0 Unported License This is a sample workflow submitting jobs to the EGEE grid using the Generic Application Service Wrapper (GASW). The job submission service has to be installed locally. Rating: 0.0 / 5 (0 ratings) \| Versions: 1 \| Reviews: 0 \| Comments: 1 \| Citations: 0 Viewed: 96 times \| Downloaded: 37 times Tags (3): example \| sample \| test	View Download (v1)
Taverna 1 Original Uploader Glatard	feat (v3) Created: 18/03/08 @ 16:40:42 \| Last updated: 19/05/08 @ 15:56:35 Credits: Glatard License: Creative Commons Attribution-Share Alike 3.0 Unported License This is an attempt to implement the feat application from the fsl fMRI package www.fmrib.ox.ac.uk/fsl/fsl/whatsnew.html into a Scufl workflow. Details are still being polished but the general structure is here. The main problem that we have with such workflows concerns data provenance. Each of the services is typically iterated on hundreds of data sets and keeping track of the produced files is a pain. Rating: 4.0 / 5 (2 ratings) \| Versions: 3 \| Reviews: 0 \| Comments: 0 \| Citations: 0 Viewed: 231 times \| Downloaded: 2 times Tags (1): medical imaging	View