Code

Strains paper#97

Code

Draft

rakow wants to merge 31 commits intodevelopmatsim-org/matsim-episim-libs:developfrom strainsPapermatsim-org/matsim-episim-libs:strainsPaperCopy head branch name to clipboard

+1,126-313

Commits

Commits on Mar 30, 2022

• Option to set infectiousness for run trial

  rakow

  committed
  e590cef

  Copy full SHA for e590cef

• cologne strain batch

  rakow

  committed
  15c40e8

  Copy full SHA for 15c40e8

• set snapshot prefix

  rakow

  committed
  30b2945

  Copy full SHA for 30b2945

• calibration objective for strains

  rakow

  committed
  a2a2cc9

  Copy full SHA for a2a2cc9

Commits on Apr 1, 2022

• update disease import

  smuellervsp

  committed
  a0502fe

  Copy full SHA for a0502fe

• parameter for alpha offset, analysis script for strain calibration

  rakow

  committed
  1016f6b

  Copy full SHA for 1016f6b

Commits on Apr 4, 2022

• updated parameters

  rakow

  committed
  13bd1c0

  Copy full SHA for 13bd1c0

• change leisure correction period

  smuellervsp

  committed
  5bea468

  Copy full SHA for 5bea468

• adapt for new cologne scenario

  smuellervsp

  committed
  19a7c77

  Copy full SHA for 19a7c77

• fix clear after method for restrictions

  rakow

  committed
  cd7bbf5

  Copy full SHA for cd7bbf5

Commits on Apr 5, 2022

• updated params

  rakow

  committed
  5cfe0aa

  Copy full SHA for 5cfe0aa

• partly reverted changes to RValuesFromEvents

  rakow

  committed
  90bed1f

  Copy full SHA for 90bed1f

Commits on Apr 6, 2022

• update batch run for strain paper

  smuellervsp

  committed
  5d7eed4

  Copy full SHA for 5d7eed4

• store strain of infected persons

  rakow

  committed
  5bb9207

  Copy full SHA for 5bb9207

Commits on Apr 7, 2022

• check if person was already infected before assigning strain

  rakow

  committed
  94a678f

  Copy full SHA for 94a678f

Commits on Apr 8, 2022

• read strains from initial infections

  rakow

  committed
  13055bc

  Copy full SHA for 13055bc

• fix R per strain

  rakow

  committed
  1519bbb

  Copy full SHA for 1519bbb

• fix storing of correct strain from events

  rakow

  committed
  1aee97e

  Copy full SHA for 1aee97e

• better initial value for contagiousDay

  rakow

  committed
  8520079

  Copy full SHA for 8520079

Commits on May 6, 2022

• configure vaccination model

  smuellervsp

  committed
  a83e989

  Copy full SHA for a83e989

• use DefaultDiseaseStatusTransitionModel

  smuellervsp

  committed
  1d8d56d

  Copy full SHA for 1d8d56d

• switch on testing

  smuellervsp

  committed
  9b224f8

  Copy full SHA for 9b224f8

Commits on May 20, 2022

• changes for strain paper

  smuellervsp

  committed
  ff9bcf9

  Copy full SHA for ff9bcf9

• update python scripts

  rakow

  committed
  c490483

  Copy full SHA for c490483

Commits on May 25, 2022

• handler to scale number of recovered persons

  rakow

  committed
  8bd0a15

  Copy full SHA for 8bd0a15

Commits on May 30, 2022

• add comments

  rakow

  committed
  6ea04ba

  Copy full SHA for 6ea04ba

• calibration runs

  smuellervsp

  committed
  03b93d2

  Copy full SHA for 03b93d2

• update vaccinations test

  rakow

  committed
  1c9b62b

  Copy full SHA for 1c9b62b

Commits on Jul 8, 2022

• init recovered persons based on total ever recovered persons

  rakow

  committed
  d618a48

  Copy full SHA for d618a48

Commits on Oct 27, 2022

• paper strains plots

  rakow

  committed
  13fc75f

  Copy full SHA for 13fc75f

Commits on Nov 4, 2022

• update outdoor model

  smuellervsp

  committed
  d2e8e97

  Copy full SHA for d2e8e97