Tuesday, 26 November 2019 | |||
CodeJam #10 Venue:
Social Dinner:
Description: The goal of the CodeJam workshops is to catalyze open-source, collaborative software development in computational and systems neuroscience and neuroinformatics by bringing together researchers, students and engineers to share ideas, present their work, and write code together. While the mornings are dedicated to invited and contributed talks, the afternoons are free for discussions, tutorials and code sprints. This year's theme is "Integration". It is aimed to gather scientists, students and engineers from different disciplines collaborating to build a highly integrated research infrastructure for computation-based neuroscience, and to show how this infrastructure can be used to model brain circuits, behaviour and learning, develop novel bio-inspired computing systems, and help discover new drugs for neurological disorders. The CodeJm#10 agenda is aligned with the programme of other HBP events taking place before or in parallel so that participants of one event can also attend some sessions of the other events that are also interesting for them. Get the overview here. | |||
Opening Session | |||
09:00‑09:25 (25+5 min) | Neuromorphic Computing and why it need CodeJams show presentation.pdf (only with login + special group membership)Video recording of the talk | Johannes Schemmel (UHEI) | |
Session 1: Data organisation and collaboration tools | |||
09:30‑09:55 (25+5 min) | New features of the Knowledge Graph show presentation.pdf (only with login + special group membership)Video recording of the talk | Oliver Schmid (EPFL) | |
10:00‑10:25 (25+5 min) | Data and Models: curation and reuse show presentation.pdf (only with login + special group membership)Video recording of the talk | Glynis Mattheisen (CNRS), Yann Zerlaut (CNRS) | |
10:30‑11:00 (30 min) | Coffee Break | ||
11:00‑11:25 (25+5 min) | Data management and data integration - Analytical methods and workflow engine show presentation.pdf (public accessible)Video recording of the talk | Kostis Karozos (AUEB), Thanasis Karabatsis (UoA) | |
11:30‑11:55 (25+5 min) | The Collaboratory, an extensible ecosystem show presentation.pdf (only with login + special group membership) | Allan Francani (EPFL) | |
12:00‑13:00 (60 min) | Lunch Break | ||
13:00‑13:25 (25+5 min) | Jupyter Notebooks in the CollaboratoryVideo recording of the talk | Jonathan Villemaire-Krajden (EPFL) | |
13:30‑14:25 (55+5 min) | TUTORIAL: Integrating your app in the Collaboratory | Allan Francani (EPFL) | |
14:30‑15:25 (55+5 min) | TUTORIAL: Building a Tool in a Notebook | Jonathan Villemaire-Krajden (EPFL) | |
15:30‑16:00 (30 min) | Coffee Break | ||
16:00‑16:55 (55+5 min) | TUTORIAL: fairgraph: a Python API for the Human Brain Project Knowledge Graph | Andrew Davison (CNRS) | |
17:00‑18:15 (75 min) | Code sprints and discussion | All | |
18:45 | End of the Meeting Day | ||
19:30 | Social Dinner @Kulturbrauerein (Heidelberg old town, see map) |
Wednesday, 27 November 2019 | |||
Sesion 2: Simulators and Emulators | |||
09:00‑09:25 (25+5 min) | NEURON Python Interface Strategies show presentation.pdf (public accessible)Video recording of the talk | Michael Hines (Yale School of Medicine) | |
09:30‑09:55 (25+5 min) | NEST: News and featuresVideo recording of the talk | Dennis Terhorst (JUELICH) | |
10:00‑10:25 (25+5 min) | The architecture of TVB's simulation | Mihai Andrei (Codemart) | |
10:30‑11:00 (30 min) | Coffee Break | ||
11:00‑11:25 (25+5 min) | Deep Learning on BrainScaleS-2 show presentation.pdf (only with login + special group membership) | Philipp Spilger (UHEI) | |
11:30‑11:55 (25+5 min) | Running a cortical micro-column in real-time in SpiNNaker show presentation.pdf (only with login + special group membership)Video recording of the talk | Andrew Rowley (UMAN) | |
12:00‑12:25 (25+5 min) | Lightning Talks Lab visits are organised for Neuromorphic computing interested people | Diverse volunteer speakers (each 1 slide and max. 5 min.) | |
12:30‑13:30 (60 min) | Lunch Break | ||
13:30‑14:25 (55+5 min) | TUTORIAL: PyNEST and NESTML | Håkon Mørk (NMBU) | |
14:30‑15:25 (55+5 min) | TUTORIAL: Using the web and scripting interfaces of TVB simulator | Mihai Andrei (Codemart) | |
15:30‑16:00 (30 min) | Coffee Break | ||
16:00‑16:55 (55+5 min) | TUTORIAL: SpiNNaker or BrainScaleS Two tutorials in parallel - choose yours:
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17:00‑18:30 (90 min) | Code sprints and discussion | All | |
18:30 | End of the meeting day |
Thursday, 28 November 2019 | |||
Session 3: Collaborative and integrative workflows | |||
09:00‑09:25 (25+5 min) | Single cell modelling workflow show presentation.pdf (public accessible)Video recording of the talk | Luca Leonardo Bologna (CNR) | |
09:30‑09:55 (25+5 min) | Cerebellar Network model reconstruction and simulation show presentation.pdf (public accessible)Video recording of the talk | Claudia Casellato (UNIPV) | |
10:00‑10:25 (25+5 min) | Integrating virtual brains with virtual bodies. Simulated robots for closed-loop in-silico experiments show presentation.pdf (public accessible)Video recording of the talk | Alberto Antonietti (UNIPV) | |
10:30‑11:00 (30 min) | Coffee Break | ||
11:00‑11:25 (25+5 min) | Knowledge Graph - Neurorobotics Platform (NRP) Integration show presentation.pdf (public accessible)Video recording of the talk | Axel von Arnim (FORTISS) | |
11:30‑11:55 (25+5 min) | SpiNNaker - Neurorobotics Platform Integration show presentation.pdf (only with login + special group membership)Video recording of the talk | Lorenzo Vannucci + Daniel Zimmermann (SSSA) | |
12:00‑12:25 (25+5 min) | How modern software techniques can help the scientific process show presentation.pdf (only with login + special group membership)Video recording of the talk | Christian Mauch (UHEI) | |
12:30‑13:30 (60 min) | Lunch Break | ||
13:30‑13:55 (25+5 min) | Quality and testing for the Brain Simulation Platform show presentation.pdf (only with login + special group membership)Video recording of the talk | Alexander Dietz (EPFL) | |
14:00‑14:55 (55+5 min) | TUTORIAL: SpiNNaker-NRP integration | Lorenzo Vannucci (SSSA) | |
15:00‑15:55 (55+5 min) | TUTORIAL: Knowledge Graph - NRP Integration | Axel v. Arnim (FORTISS) Stefano Nardo (SSSA) | |
16:00‑16:30 (30 min) | Coffee Break | ||
Wrap-up and outlook | |||
16:30‑16:40 (10 min) | Stand-up 1 | Voluntary summary group 1 | |
16:40‑16:50 (10 min) | Stand-up 2 | Voluntary summary group 2 | |
16:50‑17:05 (15 min) | Stand-up 3 | Voluntary summary group 3 | |
17:05‑17:15 (10 min) | Stand-up 4 | Voluntary summary group 4 | |
17:15‑17:30 (15 min) | Stand-up 5 | Voluntary summary group 5 | |
17:30‑17:45 (15 min) | Stand-up 6 | Voluntary summary group 6 | |
17:45‑18:00 (15 min) | Closing remarks | Andrew Davison (CNRS) | |
18:00 | End of the CodeJam |