Date
August 14-18, 2017
Location
International Council for the Exploration of the Sea (ICES)
H.C. Andersens Boulevard 44-46, Copenhagen (map)
Objectives
Presentations
- Helen Ogden
- Checking the quality of Laplace-approximate inference
Possible Topics
-
Discuss with TMB developers to add spatial-temporal tools into ADMB (Requested by Mark Maunder)
-
Presentation on TINY_AD (proposed by John Sibert)
- Using TINY_AD to improve ADMB code base
- Using TINY_AD to improve existing ADMB applications - possible breakout session
-
Improvements to MCMC functionality
- Demonstrate stable versions of NUTS for TMB and ADMB and how they compare to Stan
- What can go wrong and how to fix it (focus on stock assessments), try on some real models
- Discuss next steps (if any)
-
Priotizing avenues for statistical improvement
- Variational methods
- Using MCMC instead of Importance Sampling with fixed seed to replace Laplace approximation
- Incorporating generalized hypergeometric function (for N-mixture model)
-
Prioritizing computational improvements
- Low-memory bias-correction
- GPU testing for different operating systems
-
Improve TMB documentation Book
-
Improve TMB Rstudio integration
- Easier setup. Continue
setupRstudiobranch. - Make the static code analyzer work (use
.rs.setClangDiagnostics(2)to debug it).
- Easier setup. Continue
Monday
| Time | Activity | Notes |
|---|---|---|
| 10am | Opening ceremony, Biscay Room (4th floor) | |
| Noon | Lunch | |
| 1pm | Helen Ogden's presentation | |
| 3pm | Breakout groups | |
| 5pm | Done |
Tuesday
| Time | Activity | Notes |
|---|---|---|
| 9am | Start | |
| Noon | Lunch | |
| 5pm | Done |
- Presentation: Kasper Kristensen, “Recent updates to TMB”
- Presentation: Kasper Kristensen, “TINY_AD in TMB and ADMB”
- Presentation: Kasper Kristensen, “How to add user contributed C++ files”
- Discuss topics to cover in videos.
- Discuss training courses.
Wednesday
| Time | Activity | Notes |
|---|---|---|
| 9am | Stuff | |
| Noon | Lunch | |
| 5pm | Done |
Thursday
| Time | Activity | Notes |
|---|---|---|
| 9am | Stuff | |
| Noon | Lunch | |
| Afternoon | Foundation Meeting | |
| 5pm | Done |
- Discuss potential working groups that could be funded through rOpenSci
Friday
| Time | Activity | Notes |
|---|---|---|
| 9am | Stuff | |
| Noon | Lunch | |
| 5pm | Done |
| Name | Attendance | Affiliation | Notes |
|---|---|---|---|
| Anders Nielsen | in person | Technical University of Denmark | TMB and glmmTMB developer |
| Andrea Havron | in person | University of Auckland, NZ | |
| Arni Magnusson | in person | ICES Secretariat, Denmark | ADMB Foundation President |
| Casper Berg | in person | Technical University of Denmark | TMB and glmmTMB developer |
| Chris Grandin | in person | DFO Pacific Biological Station, Canada | |
| Gavin Fay | in person | University of Massachusetts | |
| Hans Skaug | in person | University of Bergen, Norway | |
| Helen Ogden | in person | University of Southampton, UK | |
| Johnoel Ancheta | in person | University of Hawaii | ADMB Core Developer |
| Kasper Kristensen | in person | Technical University of Denmark | TMB and glmmTMB developer |
| Mollie Brooks | in person | Technical University of Denmark | ADMB Foundation Secretary |
| Name | Attendance | Affiliation | Notes |
|---|---|---|---|
| Allan Hicks | remote | Intl Pacific Halibut Commission | ADMB Foundation Treasurer |
| Athol Whitten | remote | Mezo Research, Sydney | |
| Christoffer Albertsen | ? | Technical University of Denmark | |
| Cole Monnahan | remote | University of Washington | MCMC methods developer |
| Dave Fournier | ? | Otter Research | ADMB founder |
| Jim Thorson | ? | NOAA | |
| John Sibert | remote | ADMB Project, JIMAR, University of Hawaii | ADMB founder |
| Jim Ianelli | remote | ADMB Project, NOAA | ADMB fanboy |
| Uffe Thygesen | ? | Technical University of Denmark |