Monolix batch run

It is possible to run calculation of several Monolix projects through a single command line from R or Matlab. For that, you can use the following functions (here for R and here for Matlab). To use it

source('runMonolix.R')
runMonolix(name, mlxInstallDir, display, saveGraphics, scenario)

where

•  name: Define the Mlxtran files to run in absolute path
  • If it is a list of Mlxtran files, run them
  • If it is a list of directory, run all the Mlxtran files in the folder
  • It can be a combination of both
• mlxInstallDir : Define where MonolixSuite is installed
  • Typically for windows mlxInstallDir <- ‘C:/ProgramData/Lixoft/MonolixSuite2016R1/bin/’
• display : Boolean to define if Monolix calculation is displayed or not (FALSE by default)
• saveGraphics : Boolean to define if the graphics are saved or not (FALSE by default). It is not done by default in the Monolix project configuration.
• scenario : Monolix scenario could be a list of
  • saem: estimate population parameters
  • indiv: estimate individual parameters
  • fim: estimate the standard errors of the estimates and Fisher information matrix
  • ll: estimate the log-likelihood
  • graphics: generate the result graphics
  • By default, the run option is used to get the scenario from the project

Several examples,

• source('runMonolix.R') 
  runMonolix(name='C:/Users/jonathan/mydemos/1.creating_and_using_models/libraries_of_models',
  mlxInstallDir='C:/ProgramData/Lixoft/MonolixSuite2016R1/bin/')

  run all the projects in the defined folder. The scenario will be the one defined in each projects

• source('runMonolix.R')
  runMonolix(name='C:/Users/jonathan/mydemos/1.creating_and_using_models/libraries_of_models',
  mlxInstallDir='C:/ProgramData/Lixoft/MonolixSuite2016R1/bin/',scenario=c('saem','ll'))

  run all the projects in the defined folder. The scenario will be the calculation of SAEM and the the Log-Likelihood for each projects

• source('runMonolix.R')
  runMonolix(name=c('C:/Users/jonathan/mydemos/1.creating_and_using_models/libraries_of_models',
  'C:/Users/jonathan/mydemos/1.creating_and_using_models/libraries_of_models/2.2.censored_data/censoring1_project.mlxtran'), 
  mlxInstallDir='C:/ProgramData/Lixoft/MonolixSuite2016R1/bin/', scenario=c('graphics'), saveGraphics = TRUE)

  run all the projects in the defined folder and the other Mlxtran project. The scenario will only be the calculation of the graphics and they will be saved.