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Pinned

stevedore Public

☁️🚣🐳☁️ Docker client for R

R 124 5
vimc/orderly Public

🏥🚑 Lightweight Reproducible Reporting for R

R 106 8
reside-ic/ids Public

ℹ️ Simple random identifiers

R 85 3
mrc-ide/odin Public

ᚩ A DSL for describing and solving differential equations in R

R 87 10
redux Public

📞💻 Redis client for R

R 78 18
mrc-ide/dust Public

✨✨✨ Iterate multiple realisations of stochastic models

C++ 13 1

4,361 contributions in the last year

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Contribution activity

November 2022

Created 441 commits in 43 repositories

Created a pull request in mrc-ide/dust that received 4 comments

Add metadata parse support

Adds support for parsing an additional bit of metadata, we'll need this to be able to process mode models smoothly from within dust

+121 −1 • 4 comments

Opened 62 other pull requests in 24 repositories

mrc-ide/wodin 3 open 5 merged 1 closed

Overrideable configuration Nov 24
Control over number of replicates in component Nov 21
Enable easy spawning of session from current Nov 17
Show sum of squares in run plot Nov 14
Add x axis labels to plots Nov 14
Use new js Nov 9
Check that odin update works Nov 2
Don't truncate labels Nov 1
Upgrade webapps Nov 1

mrc-ide/odin.dust 2 open 1 closed 4 merged

Avoid compiler warnings with initial time varying Nov 24
Allow pulling in additional C++ dependencies Nov 23
Avoid compiler warnings with initial time varying Nov 23
Update to use "time" not "step" in dust 0.12.x Nov 4
Fix lint Nov 3
Add support for rgamma and rnbinom Nov 3
Update workflows Nov 3

mrc-ide/dust 2 open 5 merged

mrc-3831: allow control over C++11 standard Nov 23
Add support for linking to other packages Nov 23
Fix lint Nov 23
Allow setting state with index Nov 21
Import ode control Nov 16
Mass rename of step to time in implementation Nov 4
Update workflows Nov 2

mrc-ide/mode 3 open 2 merged 1 closed

Add dummy data methods Nov 23
Add dust-style capabilities testing Nov 23
mrc-3823: mode/dust method harmonisation pt 1 Nov 23
Harmonise argument order with dust Nov 16
Update workflows Nov 4
Update requirements Nov 4

mrc-ide/dust-js 3 merged

Rexport batch parameter generation from odin Nov 10
Groundwork for extensible summaries Nov 3
Implement and use binary search Nov 2

mrc-ide/odin 3 merged

mrc-ide/monkeyspam 1 open 1 merged

GPU support Nov 24
Implementation of m4 Nov 10

mrc-ide/lostturnip 2 open

Adapt to work on GPU Nov 23
Basic implementation Nov 21

mrc-ide/mcstate 2 merged

Support for irregular time series Nov 18
Update to use "time" not "step" in dust 0.12.x Nov 4

reside-ic/wodin-news 2 merged

News updates Nov 18
Use new theme Nov 17

mrc-ide/wodin-epimodels 2 merged

Add malawi course Nov 15
Add demo to deployment Nov 9

mrc-ide/odin.api 2 merged

Update versions Nov 9
Update js Nov 2

mrc-ide/odin-js 2 merged

Allow processing multiple summary statistics per series Nov 7
Iteratable batch runner Nov 1

mrc-ide/sircovid 2 merged

Update workflows Nov 4
Update requirements and regenerate Nov 4

mrc-ide/outpack.orderly 2 merged

Update github actions Nov 2
Allow updating of migrated outpack archives Nov 1

vimc/orderly2.db 1 merged

vimc-6825: allow connections to be exported to the report Nov 17

reside-ic/random-js 1 merged

mrc-3812: seedable RNG Nov 16

vimc/orderly 1 merged

Better handling of empty queries Nov 14

mrc-ide/wodin-msc-idm-2022 1 merged

Add stochastic practicals Nov 9

mrc-ide/wodin-demo-config 1 merged

Add demo configuration Nov 8

mrc-ide/gasworks 1 merged

Update to work with dust 0.12.0 Nov 7

mrc-ide/eigen1 1 merged

Update workflows Nov 3

reside-ic/cookiecutter-r-package 1 merged

Update to use new actions Nov 2

richfitz/stevedore 1 merged

Fixes to safely retain package on cran Nov 1

Reviewed 56 pull requests in 31 repositories

mrc-ide/wodin 11 pull requests

Control over number of replicates in component Nov 24
mrc-3425 Option for log scale y axis on plots Nov 17
Enable easy spawning of session from current Nov 17
Show sum of squares in run plot Nov 17
mrc-3708 Run Stochastic sensitivity Nov 10
mrc-3691 Front end for app markdown help Nov 7
mrc-3749 Fix wandering Download button Nov 3
mrc-3690 Include app help markdown in config endpoint response Nov 3
mrc-3752 Stop application crash when error during async controller method Nov 2
Mrc 3621 - Support non apps app path in front end Nov 2
mrc-3727 Plot stochastic run result Nov 1

reside-ic/naomi-news 6 pull requests

Fix time format Nov 17
mrc 3785: Use styling from theme instead of local overrides Nov 14
mrc-3772: Iterate styling Nov 9
Add deploy script Nov 9
Set base URL to use HTTPS Nov 8
Add some initial content Nov 4

mrc-ide/naomi 2 pull requests

mrc-ide/didehpc 2 pull requests

Add MEM1024 template support Nov 24
Allow cancelling tasks/bundles Nov 24

mrc-ide/wodin-malawi-idm-2022 2 pull requests

Update model and timing Nov 24
Adds extra model solutions Nov 24

mrc-ide/outpack_server 2 pull requests

mrc-3828 approach for handling known errors Nov 23
mrc-3780 proof of concept Nov 23

vimc/orderly2.db 2 pull requests

vimc-6825: allow connections to be exported to the report Nov 22
Basic prototype Nov 2

reside-ic/porcelain 2 pull requests

vimc/orderly.server 2 pull requests

mrc-ide/dust-js 2 pull requests

mrc-ide/odin-js 2 pull requests

Allow processing multiple summary statistics per series Nov 8
Iteratable batch runner Nov 2

bacpop/AMR_prediction 2 pull requests

Moved fasta files in test folder Nov 4
Update cpp script Nov 3

mrc-ide/mode 1 pull request

mrc-3823: mode/dust method harmonisation pt 1 Nov 23

mrc-ide/mcstate 1 pull request

Support for irregular time series Nov 22

mrc-ide/hintr 1 pull request

Improve performance of get_model_options Nov 21

mrc-ide/wodin-msc-idm-2022 1 pull request

Stoch par update Nov 21

reside-ic/random-js 1 pull request

mrc-3812: seedable RNG Nov 18

reside-ic/reside-hyperv-scripts 1 pull request

Remove monkeypox Nov 17

reside-ic/constellation 1 pull request

Add ability to set labels on docker container Nov 16

mrc-ide/hint-deploy 1 pull request

Add labels to hintr container for controlling filebeat Nov 16

reside-ic/beats 1 pull request

mrc-3806: Add machine hostname to filebeat and journalbeat logs Nov 16

vimc/vimc.github.io 1 pull request

Preview Nov 16

mrc-ide/spimalot 1 pull request

Update for dust 0.12.0 Nov 10

mrc-ide/hint-proxy 1 pull request

Add news site to the proxy Nov 9

mrc-ide/wodin-epimodels 1 pull request

Add demo to deployment Nov 9

6 repositories not shown

8 contributions in private repositories Nov 14 – Nov 22